Citrus Sinensis ID: 036619

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350--
Protein Sequence
MAHAIVSSLLDQLNSIAQDQVKGKWRLVTGVEQEVGKLTTNLQAIQAVLEDAEQRQMKQDKAVTFWLDQLIDASYDMEDVLEEWITETRKLQLDEGGDDDDDDNVGAFVTFLTKVCFFFPAASNCFGGFKQLSLRHDIAVKIREISEKLDDIARQKDSFKLVENVSNNVKKPERVRTTSLIDEGEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSASGLNEFQSLMSRIQSSIKGKKNFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKILVTTRNESVARMMGSTDIISIEQLAEEEC
Secondary Structure (PSIPRED)
cHHHHHHHHHHHHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHHHHHcHHcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccHHHHHHHHHHHcccccccccccEEEEEEccccccHHHHHHHHHcHHHHHHcccccEEEEEcccccHHHHHHHHHHHHcccccccccHHHHHHHHHHHHcccEEEEEEccccccccccHHHHHHHHcccccccEEEEEcccHHHHHHHcccccccccccccccc
Secondary Structure Prediction (SSPRO)
cHHHHHHHHHHHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHHHcHHHHHHHHHHHHHHHHHHccccccccccEEEccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccEccccEEcccHHHHHHHHHHHcccccccccEEEEEEEccccccHHHHHHHHHccHHHHHHccEEEEEEEcccccHHHHHHHHHHHHcccccccccHHHHHHHHHHHHcccEEEEEEEccccccHHHHHHHHHHHHccccccEEEEEEccHHHHHHcccccccccccccHccc
Coil and Loop (DISEMBL)
MAHAIVSSLLDQLNSIAQDQVKGKWRLVTGVEQEVGKLTTNLQAIQAVLEDAEQRQMKQDKAVTFWLDQLIDASYDMEDVLEEWITETRKLQldeggddddddnvgAFVTFLTKVCfffpaasncfggfkqlsLRHDIAVKIREISEKLDDIARQKDSFKLVEnvsnnvkkpervrttslidegevcgrvdEKSELFSKLLCESSEQQNGLQVISLVglggigktTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSASGLNEFQSLMSRIQSSIKGKKNFLVLDdvwdgdynkwqpffrclknglhgskILVTTRNESVARMMGSTDIISIEQLAEEEC
Flexible Loop (DISEMBL)
MAHAIVSSLLDQLNSIAQDQVKGKWRLVTGVEQEVGKLTTNLQAIQAVLEDAEQRQMKQDKAVTFWLDQLIDASYDMEDVLEEWITETRKLQLDEGGDDDDDDNVGAFVTFLTKVCFFFPAASNCFGGFKQLSLRHDIAVKIREISeklddiarqkdsfklvenvsnnvkkpervrttslidegevcgrvDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSASGLNEFQSLMSRIQSSIKGKKNFLVLDDVWDGDYNKWQPFFRclknglhgskILVTTRNESVARMMGSTDiisieqlaeeec
Low Complexity Region (SEG)
MAHAIVSSLLDQLNSIAQDQVKGKWRLVTGVEQEVGKLTTNLQAIQAVLEDAEQRQMKQDKAVTFWLDQLIDASYDMEDVLEEWITETRKLQLdeggddddddNVGAFVTFLTKVCFFFPAASNCFGGFKQLSLRHDIAVKIREISEKLDDIARQKDSFKLVENVSNNVKKPERVRTTSLIDEGEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSASGLNEFQSLMSRIQSSIKGKKNFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKILVTTRNESVARMMGSTDIISIEQLAEEEC
Disordered region (IsUnstruct)
********LLDQLNSIAQDQVKGKWRLVTGVEQEVGKLTTNLQAIQAVLEDA******QDKAVTFWLDQLIDASYDMEDVLEEWITETRKLQL*********DNVGAFVTFLTKVCFFFPAASNCFGGFKQLSLRHDIAVKIREISEKLDDIA*****FKLV*****************LIDEGEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSASGLNEFQSLMSRIQSSIKGKKNFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKILVTTRNESVARM*****II**********
Disordered Region (DISOPRED)
MAHAIVSSLLDQLNSIAQDQVKGKWRLVTGVEQEVGKLTTNLQAIQAVLEDAEQRQMKQDKAVTFWLDQLIDASYDMEDVLEEWITETR********************TFLTKVCFFFPAASNCFGGFKQLSLRHDIAVKIREISEKLDDIARQKDSFK*********************DEGEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGL*************MSRIQSSIKGKKNFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKILVTTRNESVARMMGSTDIISIEQLA****
Disordered Region (DISEMBL)
MAHAIVSSLLDQLNSIAQDQVKGKWRLVTGVEQEVGKLTTNLQAIQAVLEDAEQRQMKQDKAVTFWLDQLIDASYDMEDVLEEWITETRKLQLDEGGDDDDDDNVGAFVTFLTKVCFFFPAASNCFGGFKQLSLRHDIAVKIREISEKLDDIARQKDSFKLVENVSNNVKKPERVRTTSLIDEGEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSASGLNEFQSLMSRIQSSIKGKKNFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKILVTTRNESVARMMGSTDIISIEQLAEEEC
Disordered Region (DISPRO)
MAHAIVSSLLDQLNSIAQDQVKGKWRLVTGVEQEVGKLTTNLQAIQAVLEDAEQRQMKQDKAVTFWLDQLIDASYDMEDVLEEWITETRKLQLDEGGDDDDDDNVGAFVTFLTKVCFFFPAASNCFGGFKQLSLRHDIAVKIREISEKLDDIARQKDSFKLV***************TSLIDEGEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSASGLNEFQSLMSRIQSSIKGKKNFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKILVTTRNESVARMMGSTDII*IEQL*****
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MAHAIVSSLLDQLNSIAQDQVKGKWRLVTGVEQExxxxxxxxxxxxxxxxxxxxxQMKQDKAVTFWLDQLIDASYDMEDVLEEWITETRKLQLDEGGDDDDDDNVGAFVTFLTKVCFFFPAASNCFGGFKQLSLRHDIAVKIREISEKLDDIARQKDSFKLVENVSNNVKKPERVRTTSLIDEGEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSASGLNEFQSLMSRIQSSIKGKKNFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKILVTTRNESVARMMGSTDIISIEQLAEEEC
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	352	2.2.26 [Sep-21-2011]
Q7XBQ9	970	Disease resistance protei	N/A	no	0.897	0.325	0.331	2e-48
Q7XA39	988	Putative disease resistan	N/A	no	0.900	0.320	0.333	3e-48
Q7XA42	979	Putative disease resistan	N/A	no	0.889	0.319	0.340	7e-48
Q7XA40	992	Putative disease resistan	N/A	no	0.897	0.318	0.332	2e-47
Q9LRR4	1054	Putative disease resistan	yes	no	0.846	0.282	0.308	5e-36
Q38834	852	Disease resistance RPP13-	no	no	0.875	0.361	0.287	6e-30
Q9LRR5	1424	Putative disease resistan	no	no	0.823	0.203	0.272	2e-25
Q9FJK8	908	Probable disease resistan	no	no	0.769	0.298	0.254	2e-19
Q8W3K0	1138	Probable disease resistan	no	no	0.835	0.258	0.263	3e-19
Q9M667	835	Disease resistance protei	no	no	0.75	0.316	0.262	4e-19

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

 Score =  193 bits (490), Expect = 2e-48,   Method: Compositional matrix adjust.
 Identities = 117/353 (33%), Positives = 192/353 (54%), Gaps = 37/353 (10%)

Query: 1   MAHAIVSSLLDQLNSIAQDQVKGKWRLVTGVEQEVGKLTTNLQAIQAVLEDAEQRQMKQD 60
           MA A +  LLD L S     +KG+  L+ G + E  +L++    IQAVLEDA+++Q+  +
Sbjct: 1   MAEAFIQVLLDNLTSF----LKGELVLLFGFQDEFQRLSSMFSTIQAVLEDAQEKQL-NN 55

Query: 61  KAVTFWLDQLIDASYDMEDVLEEWITETRKLQLDEGGDDDDDDNVGAFVTFLTKVCFFFP 120
           K +  WL +L  A+Y+++D+L+E+ T+  +    E G                    + P
Sbjct: 56  KPLENWLQKLNAATYEVDDILDEYKTKATRFSQSEYGR-------------------YHP 96

Query: 121 AASNCFGGFKQLSLRHDIAVKIREISEKLDDIARQKDSFKLVENVSNNVKKPERVRTTSL 180
                    K +  RH +  ++ ++ +KL  IA ++ +F L E +    ++  R  T S+
Sbjct: 97  ---------KVIPFRHKVGKRMDQVMKKLKAIAEERKNFHLHEKIVE--RQAVRRETGSV 145

Query: 181 IDEGEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRN 240
           + E +V GR  EK E+   L+   S+ Q+ L V+ ++G+GG+GKTTLAQ+ +N+  V  +
Sbjct: 146 LTEPQVYGRDKEKDEIVKILINNVSDAQH-LSVLPILGMGGLGKTTLAQMVFNDQRVTEH 204

Query: 241 FEKVIWVCVSDTFDQIRIAKAIIEGL-GKSASGLNEFQSLMSRIQSSIKGKKNFLVLDDV 299
           F   IW+CVS+ FD+ R+ KAI+E + G+   G  +   L  ++Q  + GK+  LVLDDV
Sbjct: 205 FHSKIWICVSEDFDEKRLIKAIVESIEGRPLLGEMDLAPLQKKLQELLNGKRYLLVLDDV 264

Query: 300 WDGDYNKWQPFFRCLKNGLHGSKILVTTRNESVARMMGSTDIISIEQLAEEEC 352
           W+ D  KW      LK G  G+ +L TTR E V  +MG+     +  L++E+C
Sbjct: 265 WNEDQQKWANLRAVLKVGASGASVLTTTRLEKVGSIMGTLQPYELSNLSQEDC 317

Disease resistance protein. Resistance proteins guard the plant against pathogens that contain an appropriate avirulence protein via a direct or indirect interaction with this avirulence protein. That triggers a defense system which restricts the pathogen growth. Confers a broad resistance to all known races of P.infestans.
Solanum bulbocastanum (taxid: 147425)

>sp|Q7XA39|RGA4_SOLBU Putative disease resistance protein RGA4 OS=Solanum bulbocastanum GN=RGA4 PE=2 SV=1

 Score =  192 bits (488), Expect = 3e-48,   Method: Compositional matrix adjust.
 Identities = 117/351 (33%), Positives = 182/351 (51%), Gaps = 34/351 (9%)

Query: 1   MAHAIVSSLLDQLNSIAQDQVKGKWRLVTGVEQEVGKLTTNLQAIQAVLEDAEQRQMKQD 60
           MA A +  LL+ L S   D    K  L+ G E+E  KL++    IQAVL+DA+++Q+K D
Sbjct: 1   MAEAFLQVLLENLTSFIGD----KLVLIFGFEKECEKLSSVFSTIQAVLQDAQEKQLK-D 55

Query: 61  KAVTFWLDQLIDASYDMEDVLEEWITETRKLQLDEGGDDDDDDNVGAFVTFLTKVCFFFP 120
           KA+  WL +L  A+Y+++D+L E   E  + +    G                   F+ P
Sbjct: 56  KAIENWLQKLNSAAYEVDDILGECKNEAIRFEQSRLG-------------------FYHP 96

Query: 121 AASNCFGGFKQLSLRHDIAVKIREISEKLDDIARQKDSFKLVENVSNNVKKPERVRTTSL 180
              N          RH I  +++EI EKLD I+ ++  F  +E ++          T  +
Sbjct: 97  GIIN---------FRHKIGRRMKEIMEKLDAISEERRKFHFLEKITERQAAAATRETGFV 147

Query: 181 IDEGEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRN 240
           + E +V GR  E+ E+  K+L  +      L V  ++G+GG+GKTTLAQ+ +N++ V ++
Sbjct: 148 LTEPKVYGRDKEEDEIV-KILINNVNVAEELPVFPIIGMGGLGKTTLAQMIFNDERVTKH 206

Query: 241 FEKVIWVCVSDTFDQIRIAKAIIEGLGKSASGLNEFQSLMSRIQSSIKGKKNFLVLDDVW 300
           F   IWVCVSD FD+ R+ K II  + +S+  + +  S   ++Q  + GK+  LVLDDVW
Sbjct: 207 FNPKIWVCVSDDFDEKRLIKTIIGNIERSSPHVEDLASFQKKLQELLNGKRYLLVLDDVW 266

Query: 301 DGDYNKWQPFFRCLKNGLHGSKILVTTRNESVARMMGSTDIISIEQLAEEE 351
           + D  KW      L  G  G+ IL TTR E V  +MG+     +  L+  +
Sbjct: 267 NDDLEKWAKLRAVLTVGARGASILATTRLEKVGSIMGTLQPYHLSNLSPHD 317

Disease resistance protein. Resistance proteins guard the plant against pathogens that contain an appropriate avirulence protein via a direct or indirect interaction with this avirulence protein. That triggers a defense system which restricts the pathogen growth.

Solanum bulbocastanum (taxid: 147425)

>sp|Q7XA42|RGA1_SOLBU Putative disease resistance protein RGA1 OS=Solanum bulbocastanum GN=RGA1 PE=2 SV=2

 Score =  191 bits (485), Expect = 7e-48,   Method: Compositional matrix adjust.
 Identities = 121/355 (34%), Positives = 198/355 (55%), Gaps = 42/355 (11%)

Query: 1   MAHAIVSSLLDQLNSIAQDQVKGKWRLVTGVEQEVGKLTTNLQAIQAVLEDAEQRQMKQD 60
           MA A +  +LD L S     +KG+  L+ G + E  +L++    IQAVLEDA+++Q+  D
Sbjct: 1   MAEAFIQVVLDNLTSF----LKGELVLLFGFQDEFQRLSSMFSTIQAVLEDAQEKQL-ND 55

Query: 61  KAVTFWLDQLIDASYDMEDVLEEWITE-TRKLQLDEGGDDDDDDNVGAFVTFLTKVCFFF 119
           K +  WL +L  A+Y+++D+L+E+ T+ TR LQ + G                     + 
Sbjct: 56  KPLENWLQKLNAATYEVDDILDEYKTKATRFLQSEYGR--------------------YH 95

Query: 120 PAASNCFGGFKQLSLRHDIAVKIREISEKLDDIARQKDSFKLVENVSNNVKKPERVRTT- 178
           P         K +  RH +  ++ ++ +KL+ IA ++  F L E +   +++    R T 
Sbjct: 96  P---------KVIPFRHKVGKRMDQVMKKLNAIAEERKKFHLQEKI---IERQAATRETG 143

Query: 179 SLIDEGEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVK 238
           S++ E +V GR  EK E+   L+  +S+ Q  L V+ ++G+GG+GKTTL+Q+ +N+  V 
Sbjct: 144 SVLTEPQVYGRDKEKDEIVKILINTASDAQK-LSVLPILGMGGLGKTTLSQMVFNDQRVT 202

Query: 239 RNFEKVIWVCVSDTFDQIRIAKAIIEGL-GKSASGLNEFQSLMSRIQSSIKGKKNFLVLD 297
             F   IW+C+SD F++ R+ KAI+E + GKS S + +   L  ++Q  + GK+ FLVLD
Sbjct: 203 ERFYPKIWICISDDFNEKRLIKAIVESIEGKSLSDM-DLAPLQKKLQELLNGKRYFLVLD 261

Query: 298 DVWDGDYNKWQPFFRCLKNGLHGSKILVTTRNESVARMMGSTDIISIEQLAEEEC 352
           DVW+ D +KW      LK G  G+ +L TTR E V  +MG+     +  L+ E+C
Sbjct: 262 DVWNEDQHKWANLRAVLKVGASGAFVLTTTRLEKVGSIMGTLQPYELSNLSPEDC 316

Disease resistance protein. Resistance proteins guard the plant against pathogens that contain an appropriate avirulence protein via a direct or indirect interaction with this avirulence protein. That triggers a defense system which restricts the pathogen growth.

Solanum bulbocastanum (taxid: 147425)

>sp|Q7XA40|RGA3_SOLBU Putative disease resistance protein RGA3 OS=Solanum bulbocastanum GN=RGA3 PE=2 SV=2

 Score =  189 bits (480), Expect = 2e-47,   Method: Compositional matrix adjust.
 Identities = 117/352 (33%), Positives = 193/352 (54%), Gaps = 36/352 (10%)

Query: 1   MAHAIVSSLLDQLNSIAQDQVKGKWRLVTGVEQEVGKLTTNLQAIQAVLEDAEQRQMKQD 60
           MA A +  LLD L    Q    G+  LV G E+E  KL++    IQAVLEDA+++Q+K  
Sbjct: 1   MAEAFLQVLLDNLTFFIQ----GELGLVFGFEKEFKKLSSMFSMIQAVLEDAQEKQLKY- 55

Query: 61  KAVTFWLDQLIDASYDMEDVLEEWITETRKLQLDEGGDDDDDDNVGAFVTFLTKVCFFFP 120
           KA+  WL +L  A+Y+++D+L++  TE  + +    G                    + P
Sbjct: 56  KAIKNWLQKLNVAAYEVDDILDDCKTEAARFKQAVLGR-------------------YHP 96

Query: 121 AASNCFGGFKQLSLRHDIAVKIREISEKLDDIARQKDSFKLVENVSNNVKKPERVRTTSL 180
                    + ++  + +  +++E+ EKLD IA ++ +F L E +    ++  R +T  +
Sbjct: 97  ---------RTITFCYKVGKRMKEMMEKLDAIAEERRNFHLDERIIE--RQAARRQTGFV 145

Query: 181 IDEGEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRN 240
           + E +V GR  E+ E+  K+L  +      + V+ ++G+GG+GKTTLAQ+ +N+  +  +
Sbjct: 146 LTEPKVYGREKEEDEIV-KILINNVSYSEEVPVLPILGMGGLGKTTLAQMVFNDQRITEH 204

Query: 241 FEKVIWVCVSDTFDQIRIAKAIIEGLGKSASGLNEFQSLMSRIQSSIKGKKNFLVLDDVW 300
           F   IWVCVSD FD+ R+ KAI+E +   + G  +   L  ++Q  + GK+ FLVLDDVW
Sbjct: 205 FNLKIWVCVSDDFDEKRLIKAIVESIEGKSLGDMDLAPLQKKLQELLNGKRYFLVLDDVW 264

Query: 301 DGDYNKWQPFFRCLKNGLHGSKILVTTRNESVARMMGSTDIISIEQLAEEEC 352
           + D  KW      LK G  G+ IL+TTR E +  +MG+  +  +  L++E+C
Sbjct: 265 NEDQEKWDNLRAVLKIGASGASILITTRLEKIGSIMGTLQLYQLSNLSQEDC 316

Disease resistance protein. Resistance proteins guard the plant against pathogens that contain an appropriate avirulence protein via a direct or indirect interaction with this avirulence protein. That triggers a defense system which restricts the pathogen growth.

Solanum bulbocastanum (taxid: 147425)

>sp|Q9LRR4|R13L1_ARATH Putative disease resistance RPP13-like protein 1 OS=Arabidopsis thaliana GN=RPPL1 PE=3 SV=1

 Score =  151 bits (382), Expect = 5e-36,   Method: Compositional matrix adjust.
 Identities = 101/327 (30%), Positives = 177/327 (54%), Gaps = 29/327 (8%)

Query: 32  EQEVGKLTTNLQAIQAVLEDAEQRQMKQDKAVTFWLDQLIDASYDMEDVLEEWITETRKL 91
           E  + +L+T L  I AVL DAE++Q+  +  V  W+++L D  Y  ED L++  TE   L
Sbjct: 36  ENLLERLSTALLTITAVLIDAEEKQIT-NPVVEKWVNELRDVVYHAEDALDDIATEA--L 92

Query: 92  QLDEGGDDDDDDNVGAFVTFLTKVCFFFPAASNCFGGFKQLSLRHDIAVKIREISEKLDD 151
           +L+ G +    + +      ++             G F   +  H +  ++ +++ +L+ 
Sbjct: 93  RLNIGAESSSSNRLRQLRGRMS------------LGDFLDGNSEH-LETRLEKVTIRLER 139

Query: 152 IARQKDSFKLVENVSNNVKKPERVRTTSLIDEGEVCGRVDEKSELFSKLLCESSEQQNGL 211
           +A Q++   L E  +   K  +R+ TTSL+DE EV GR D+K E+   L+ E+  + NG+
Sbjct: 140 LASQRNILGLKELTAMIPK--QRLPTTSLVDESEVFGRDDDKDEIMRFLIPENG-KDNGI 196

Query: 212 QVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSAS 271
            V+++VG+GG+GKTTL+QL YN+  V+  F   +W  VS+ FD  +I K + E +     
Sbjct: 197 TVVAIVGIGGVGKTTLSQLLYNDQHVRSYFGTKVWAHVSEEFDVFKITKKVYESVTSRPC 256

Query: 272 GLNEFQSLMSRIQSSIKGK--KNFLVLDDVWDGDYNKW----QPFFRCLKNGLHGSKILV 325
              +   L  +++  + G      LVLDD+W+ ++  W    QPF     +   GS+ILV
Sbjct: 257 EFTDLDVLQVKLKERLTGTGLPFLLVLDDLWNENFADWDLLRQPFI----HAAQGSQILV 312

Query: 326 TTRNESVARMMGSTDIISIEQLAEEEC 352
           TTR++ VA +M +  + +++ L++ +C
Sbjct: 313 TTRSQRVASIMCAVHVHNLQPLSDGDC 339

Potential disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q38834|R13L4_ARATH Disease resistance RPP13-like protein 4 OS=Arabidopsis thaliana GN=RPP13L4 PE=2 SV=2

 Score =  131 bits (330), Expect = 6e-30,   Method: Compositional matrix adjust.
 Identities = 98/341 (28%), Positives = 190/341 (55%), Gaps = 33/341 (9%)

Query: 1   MAHAIVSSLLDQLNSIAQDQVKGKWRLVTGVEQEVGKLTTNLQAIQAVLEDAEQRQMKQD 60
           M  A+V+  L++  +I ++    K R V+   +++  L + L+ +Q+ L+DAE RQ + +
Sbjct: 1   MVDAVVTVFLEKTLNILEE----KGRTVSDYRKQLEDLQSELKYMQSFLKDAE-RQKRTN 55

Query: 61  KAVTFWLDQLIDASYDMEDVLEEWITETRKLQLDEGGDDDDDDNVGAFVTFLTKVCFFFP 120
           + +   +  L +  Y+ ED+L +        QL +G D ++  +  A+++ L       P
Sbjct: 56  ETLRTLVADLRELVYEAEDILVD-------CQLADGDDGNEQRSSNAWLSRL------HP 102

Query: 121 AASNCFGGFKQLSLRHDIAVKIREISEKLDDIARQKDSFKLVENVSNNVKKPERVRTTSL 180
           A         ++ L++  + +++EI+E++  I  Q + +      SN  +     R +S 
Sbjct: 103 A---------RVPLQYKKSKRLQEINERITKIKSQVEPYFEFITPSNVGRDNGTDRWSSP 153

Query: 181 I-DEGEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKR 239
           + D  +V G   +K ++  + L  S++ Q  L +++ VG+GG+GKTT+AQ  +N+ E++ 
Sbjct: 154 VYDHTQVVGLEGDKRKI-KEWLFRSNDSQ--LLIMAFVGMGGLGKTTIAQEVFNDKEIEH 210

Query: 240 NFEKVIWVCVSDTFDQIRIAKAIIEGLGKSASGLNEFQSLMSRIQSSIKGKKNFLVLDDV 299
            FE+ IWV VS TF + +I ++I+  LG ++ G ++  +L+ +IQ  + GK+  +V+DDV
Sbjct: 211 RFERRIWVSVSQTFTEEQIMRSILRNLGDASVG-DDIGTLLRKIQQYLLGKRYLIVMDDV 269

Query: 300 WDGDYNKWQPFFRCLKNGLHGSKILVTTRNESVARMMGSTD 340
           WD + + W   ++ L  G  G  ++VTTR+ESVA+ + + D
Sbjct: 270 WDKNLSWWDKIYQGLPRG-QGGSVIVTTRSESVAKRVQARD 309

Disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LRR5|DRL21_ARATH Putative disease resistance protein At3g14460 OS=Arabidopsis thaliana GN=At3g14460 PE=3 SV=1

 Score =  116 bits (291), Expect = 2e-25,   Method: Compositional matrix adjust.
 Identities = 88/323 (27%), Positives = 156/323 (48%), Gaps = 33/323 (10%)

Query: 37  KLTTNLQAIQAVLEDAEQRQMKQDKAVTFWLDQLIDASYDMEDVLEEWITET--RKLQLD 94
           +L   L     VL DA+QR  +  + V  WL  + DA +  ED+L+E  TE   R++  +
Sbjct: 38  RLKVALVTANPVLADADQRA-EHVREVKHWLTGIKDAFFQAEDILDELQTEALRRRVVAE 96

Query: 95  EGGDDDDDDNVGAFVTFLTKVCFFFPAASNCFGGFKQLSLRHDIAVKIREISEKLDDIAR 154
            GG       +G                 N   G +  +++  I  K+ ++   L+   +
Sbjct: 97  AGG-------LGGLF-------------QNLMAGRE--AIQKKIEPKMEKVVRLLEHHVK 134

Query: 155 QKDSFKLVENVSNNVKKPE-----RVRTTSLIDEGEVCGRVDEKSELFSKLLCESSEQQN 209
             +   L E   +  ++P+     R R   L  +G + GRV++K  L + LL +      
Sbjct: 135 HIEVIGLKEY--SETREPQWRQASRSRPDDL-PQGRLVGRVEDKLALVNLLLSDDEISIG 191

Query: 210 GLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKS 269
              VIS+VG+ G+GKTTL ++ +N+  V  +FE  +W+     F+   + KA+++ +  S
Sbjct: 192 KPAVISVVGMPGVGKTTLTEIVFNDYRVTEHFEVKMWISAGINFNVFTVTKAVLQDITSS 251

Query: 270 ASGLNEFQSLMSRIQSSIKGKKNFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKILVTTRN 329
           A    +  SL  +++ ++ GK+  LVLDD W    ++W+ F     +   GSKI++TTR+
Sbjct: 252 AVNTEDLPSLQIQLKKTLSGKRFLLVLDDFWSESDSEWESFQVAFTDAEEGSKIVLTTRS 311

Query: 330 ESVARMMGSTDIISIEQLAEEEC 352
           E V+ +  +  I  ++ +  EEC
Sbjct: 312 EIVSTVAKAEKIYQMKLMTNEEC 334

Potential disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FJK8|RP8L4_ARATH Probable disease resistance RPP8-like protein 4 OS=Arabidopsis thaliana GN=RPP8L4 PE=2 SV=1

 Score = 97.1 bits (240), Expect = 2e-19,   Method: Compositional matrix adjust.
 Identities = 81/318 (25%), Positives = 158/318 (49%), Gaps = 47/318 (14%)

Query: 28  VTGVEQEVGKLTTNLQAIQAVLEDAEQRQMKQDKAVTFWLDQLIDASYDMEDVLEEWITE 87
           + G+++++  L   L+++Q++L+DA+ ++   D+   F L+ + D  +D ED++E ++  
Sbjct: 24  LQGIDEQLDGLKRQLRSLQSLLKDADAKKHGSDRVRNF-LEDVKDLVFDAEDIIESYVLN 82

Query: 88  TRKLQLDEGGDDDDDDNVGAFVTFLTKVCFFFPAASNCFGGFKQLSLRHDIAVKIREISE 147
             +     G       +V     FLT                     RH +A  I  I++
Sbjct: 83  KLR-----GEGKGVKKHVRRLARFLTD--------------------RHKVASDIEGITK 117

Query: 148 KLDDIARQKDSF---KLVENV-SNNVKKPERVR-----TTSLIDEGEVCGRVDEKSELFS 198
           ++ D+  +  SF   ++++ V S ++++ +RV+     T     E ++ G      EL  
Sbjct: 118 RISDVIGEMQSFGIQQIIDGVRSLSLQERQRVQREIRQTYPDSSESDLVGVEQSVEELVG 177

Query: 199 KLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRI 258
            L+     + +  QV+S+ G+GGIGKTTLA+  +++D V+R+F+   WVCVS  F    +
Sbjct: 178 HLV-----ENDIYQVVSIAGMGGIGKTTLARQVFHHDLVRRHFDGFAWVCVSQQFTLKHV 232

Query: 259 AKAIIEGLGKSASGLNEF--QSLMSRIQSSIKGKKNFLVLDDVWDG-DYNKWQPFFRCLK 315
            + I++ L      + +    +L  ++   ++  +  LVLDDVW   D+++ +  F   +
Sbjct: 233 WQRILQELQPHDGNILQMDESALQPKLFQLLETGRYLLVLDDVWKKEDWDRIKAVFPRKR 292

Query: 316 NGLHGSKILVTTRNESVA 333
               G K+L+T+RNE V 
Sbjct: 293 ----GWKMLLTSRNEGVG 306

Potential disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q8W3K0|DRL9_ARATH Probable disease resistance protein At1g58602 OS=Arabidopsis thaliana GN=At1g58602 PE=2 SV=1

 Score = 96.7 bits (239), Expect = 3e-19,   Method: Compositional matrix adjust.
 Identities = 92/349 (26%), Positives = 168/349 (48%), Gaps = 55/349 (15%)

Query: 1   MAHAIVSSLLDQLNSIAQDQVKGKWRLVTGVEQEVGKLTTNLQAIQAVLEDAEQRQMKQD 60
           MA  +VS  +++L     D +  ++ L  GVE +V +L ++L  +++ L+DA+ ++    
Sbjct: 1   MAGELVSFAVNKL----WDLLSHEYTLFQGVEDQVAELKSDLNLLKSFLKDADAKK-HTS 55

Query: 61  KAVTFWLDQLIDASYDMEDVLEEWITETRKLQLDEGGDDDDDDNVGAFVTFLTKVCFFFP 120
             V + ++++ D  YD EDVLE ++ +  KL    G        +   +  LT +     
Sbjct: 56  ALVRYCVEEIKDIVYDAEDVLETFV-QKEKLGTTSG--------IRKHIKRLTCI----- 101

Query: 121 AASNCFGGFKQLSLRHDIAVKIREISEKLDDIARQKDSFKLVENVSNNVKKPER-----V 175
                      +  R +IA+ I  +S+++  + R   SF + + + ++   P R     +
Sbjct: 102 -----------VPDRREIALYIGHVSKRITRVIRDMQSFGVQQMIVDDYMHPLRNREREI 150

Query: 176 RTTSLIDEGEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNND 235
           R T   D       ++E  +   KL+    E+ N  QV+S+ G+GG+GKTTLA+  +N+D
Sbjct: 151 RRTFPKDNESGFVALEENVK---KLVGYFVEEDN-YQVVSITGMGGLGKTTLARQVFNHD 206

Query: 236 EVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSASG----------LNEFQSLMSRIQS 285
            V + F+K+ WV VS  F    + + I+  L                + E+ +L   +  
Sbjct: 207 MVTKKFDKLAWVSVSQDFTLKNVWQNILGDLKPKEEETKEEEKKILEMTEY-TLQRELYQ 265

Query: 286 SIKGKKNFLVLDDVWDG-DYNKWQPFFRCLKNGLHGSKILVTTRNESVA 333
            ++  K+ +VLDD+W   D+   +P F   K    G K+L+T+RNES+ 
Sbjct: 266 LLEMSKSLIVLDDIWKKEDWEVIKPIFPPTK----GWKLLLTSRNESIV 310

Potential disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

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

 Score = 95.9 bits (237), Expect = 4e-19,   Method: Compositional matrix adjust.
 Identities = 87/332 (26%), Positives = 156/332 (46%), Gaps = 68/332 (20%)

Query: 27  LVTGVEQEVGKLTTNLQAIQAVLEDAEQRQMKQDKAVTFWLDQLIDASYDMEDVLEEWIT 86
           +   V++++ +L T L  I   L+D E R+ ++D+    W   ++D +YD+EDVL+    
Sbjct: 23  MFMAVKEDLEELKTELTCIHGYLKDVEARE-REDEVSKEWSKLVLDFAYDVEDVLD---- 77

Query: 87  ETRKLQLDEGGDDDDDDNVGAFVTFLTKVCFFFPAASNCFGGFKQLSLR-------HDIA 139
            T  L+L+E                                G ++L+ +       + I 
Sbjct: 78  -TYHLKLEERSQRR---------------------------GLRRLTNKIGRKMDAYSIV 109

Query: 140 VKIREISEKLDDIARQKDSFKLVENVSNNVKKPE-----------RVRTTSLIDEGEVC- 187
             IR +  ++ DI R+++++ +       +K+P+           ++R    +D+ EV  
Sbjct: 110 DDIRILKRRILDITRKRETYGI-----GGLKEPQGGGNTSSLRVRQLRRARSVDQEEVVV 164

Query: 188 GRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWV 247
           G  D+   L  KLL    E++N   +IS+ G+GG+GKT LA+  YN+ +VK  FE   W 
Sbjct: 165 GLEDDAKILLEKLL--DYEEKNRF-IISIFGMGGLGKTALARKLYNSRDVKERFEYRAWT 221

Query: 248 CVSDTFDQIRIAKAIIEGLGKSAS----GLNEF--QSLMSRIQSSIKGKKNFLVLDDVWD 301
            VS  +    I   II  LG ++      + +F  + L   +   ++GKK  +V+DD+W+
Sbjct: 222 YVSQEYKTGDILMRIIRSLGMTSGEELEKIRKFAEEELEVYLYGLLEGKKYLVVVDDIWE 281

Query: 302 GDYNKWQPFFRCLKNGLHGSKILVTTRNESVA 333
            +   W    R L     GS++++TTR ++VA
Sbjct: 282 RE--AWDSLKRALPCNHEGSRVIITTRIKAVA 311

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

Arabidopsis thaliana (taxid: 3702)

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	352
224134406	987	cc-nbs-lrr resistance protein [Populus t	0.982	0.350	0.475	5e-80
224115620	963	cc-nbs-lrr resistance protein [Populus t	0.957	0.349	0.491	4e-77
224122712	945	cc-nbs-lrr resistance protein [Populus t	0.960	0.357	0.468	1e-76
224110232	486	cc-nbs resistance protein [Populus trich	0.951	0.689	0.462	9e-76
224122696	906	cc-nbs-lrr resistance protein [Populus t	0.900	0.349	0.451	1e-71
224115608	922	cc-nbs-lrr resistance protein [Populus t	0.951	0.363	0.474	4e-71
225463558	928	PREDICTED: putative disease resistance p	0.954	0.362	0.426	1e-70
224114824	941	cc-nbs-lrr resistance protein [Populus t	0.909	0.340	0.45	3e-70
359482798	932	PREDICTED: putative disease resistance p	0.951	0.359	0.423	3e-70
224115686	938	cc-nbs-lrr resistance protein [Populus t	0.954	0.358	0.461	3e-70

>gi|224134406|ref|XP_002321815.1| cc-nbs-lrr resistance protein [Populus trichocarpa] gi|222868811|gb|EEF05942.1| cc-nbs-lrr resistance protein [Populus trichocarpa]

 Score =  304 bits (778), Expect = 5e-80,   Method: Compositional matrix adjust.
 Identities = 176/370 (47%), Positives = 239/370 (64%), Gaps = 24/370 (6%)

Query: 1   MAHAIVSSLLDQLNSIAQDQVKGKWRLVTGVEQEVGKLTTNLQAIQAVLEDAEQRQMKQD 60
           MA A+VS++L+Q+ +IA+ QV+ + +LV GVE+E+  L  N QAI+ VLEDAE++Q+K D
Sbjct: 1   MADALVSTILEQIITIARHQVEHEVKLVVGVEKEIQHLKNNFQAIRDVLEDAERKQLK-D 59

Query: 61  KAVTFWLDQLIDASYDMEDVLEEWITETRKLQLDEGGDDDDDDNVGAFVTFLTKVCFFFP 120
            AV  WL+ L D SYDM+DVL+EW T   K +++E  +     +V    +FL   CF F 
Sbjct: 60  TAVKHWLNNLKDVSYDMDDVLDEWSTAVLKWEMEEAENALAPKSV--VFSFLRSCCFCFR 117

Query: 121 AA------------------SNCFGGFKQLSLRHDIAVKIREISEKLDDIARQKDSFKLV 162
            A                  S C   F++++ RHDIA KI E+ +KL+DIA++K  F   
Sbjct: 118 RAEQAENALAPKSVVSSFLCSFC-CSFRRVARRHDIAHKIIEVGQKLEDIAKRKAMFGF- 175

Query: 163 ENVSNNVKKPERVRTTSLIDEGEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGI 222
           E      K+P+R +TTS +D   V GR DEK  + SKLLC+SS++   +QVIS+VG+GG+
Sbjct: 176 ELHKAIEKEPDR-QTTSFVDVSRVHGREDEKKNVISKLLCDSSQEGRKVQVISIVGMGGL 234

Query: 223 GKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSASGLNEFQSLMSR 282
           GKTTLAQLAYN DE+K  FEK IWVCVS  FD+  +AKAIIE L  +A  L E + L  R
Sbjct: 235 GKTTLAQLAYNADEIKTYFEKRIWVCVSHPFDENTVAKAIIEDLSGAAPNLVELEPLCKR 294

Query: 283 IQSSIKGKKNFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKILVTTRNESVARMMGSTDII 342
           I  SI+GKK  LVLDDVW+ +  KW+P    LK G  GS+ILVTTR ++VA+MM S   +
Sbjct: 295 ISESIEGKKFLLVLDDVWEDNPRKWEPLKESLKCGAPGSRILVTTRKDTVAKMMESDYSL 354

Query: 343 SIEQLAEEEC 352
            + +L +EEC
Sbjct: 355 LLGKLTDEEC 364

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224115620|ref|XP_002332101.1| cc-nbs-lrr resistance protein [Populus trichocarpa] gi|222874921|gb|EEF12052.1| cc-nbs-lrr resistance protein [Populus trichocarpa]

 Score =  294 bits (753), Expect = 4e-77,   Method: Compositional matrix adjust.
 Identities = 174/354 (49%), Positives = 231/354 (65%), Gaps = 17/354 (4%)

Query: 1   MAHAIVSSLLDQLNSIAQDQVKGKWRLVTGVEQEVGKLTTNLQAIQAVLEDAEQRQMKQD 60
           MA A+VS +L+QL+SI   +V+ + RLV GVE EV KLT+N QAIQA+  DAE+RQ+K D
Sbjct: 1   MADALVSVVLEQLSSIIIQEVQREVRLVVGVENEVKKLTSNFQAIQAMFADAEERQLK-D 59

Query: 61  KAVTFWLDQLIDASYDMEDVLEEWITETRKLQLDEGGDDDDDDNVGAFVTFLTKVCFFFP 120
           + V  WLDQL D SYDM+DVL+EW TE  K Q     ++    N     +F+   CF   
Sbjct: 60  QLVKHWLDQLKDVSYDMDDVLDEWGTEIAKSQ--SKVNEHPRKNTRKVCSFMIFSCF--- 114

Query: 121 AASNCFGGFKQLSLRHDIAVKIREISEKLDDIARQKDSFKLVENVSNNVKKPERVRTTSL 180
                   F+++ LR DIA+KI+E++E++D IA +K+ F   ++    +K+ +  +T S 
Sbjct: 115 -------RFREVGLRRDIALKIKELNERIDGIAIEKNRFHF-KSSEVVIKQHDHRKTVSF 166

Query: 181 IDEGEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRN 240
           ID  EV GR  +K  + + LL ESS Q   L+ ISLVG+GGIGKTTLAQL YN+ EV+ +
Sbjct: 167 IDAAEVKGRETDKGRVRNMLLTESS-QGPALRTISLVGMGGIGKTTLAQLVYNDHEVEIH 225

Query: 241 FEKVIWVCVSDTFDQIRIAKAIIEGLGKSASGLNEFQSLMSRIQSSIKGKKNFLVLDDVW 300
           F+K IWVCVSD FD+ +IAKAI+E L  SAS L E Q+L+  IQ  I+GKK  LVLDDVW
Sbjct: 226 FDKRIWVCVSDPFDETKIAKAILEALKGSASDLIELQTLLENIQPLIRGKKFLLVLDDVW 285

Query: 301 DGDYNKWQPFFRCLKNGLHGSKILVTTRNESVARMMGS--TDIISIEQLAEEEC 352
           + D  KW+     L  GL GS ILVTTR  +VA  MGS  TDI+ +  L+ +EC
Sbjct: 286 NEDSTKWEQLKYSLMCGLPGSSILVTTRKRNVASRMGSSPTDILELGLLSTDEC 339

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224122712|ref|XP_002318907.1| cc-nbs-lrr resistance protein [Populus trichocarpa] gi|222859580|gb|EEE97127.1| cc-nbs-lrr resistance protein [Populus trichocarpa]

 Score =  292 bits (748), Expect = 1e-76,   Method: Compositional matrix adjust.
 Identities = 165/352 (46%), Positives = 233/352 (66%), Gaps = 14/352 (3%)

Query: 1   MAHAIVSSLLDQLNSIAQDQVKGKWRLVTGVEQEVGKLTTNLQAIQAVLEDAEQRQMKQD 60
           MA A++S +L+QL +I   QV+ +  LV GV+++V KL +NL  IQ+VLEDA+++Q+K D
Sbjct: 1   MAEALLSPILEQLTTIVAQQVQEEVNLVVGVKKQVDKLKSNLLDIQSVLEDADRKQVK-D 59

Query: 61  KAVTFWLDQLIDASYDMEDVLEEWITETRKLQLDEGGDDDDDDNVGAFVTFLTKVCFFFP 120
           KAV  W+D+L DA YDM+DVL+EW T   + +++E  +++         +FL   CF   
Sbjct: 60  KAVRDWVDKLKDACYDMDDVLDEWSTAILRWKMEEA-EENTHSRQKIRCSFLGSPCF--- 115

Query: 121 AASNCFGGFKQLSLRHDIAVKIREISEKLDDIARQKDSFKLVENVSNNVKKPERVRTTSL 180
               CF    Q+  R DIA+KI+E+SEK+DDIA+++  +    ++     + +R+ TTS 
Sbjct: 116 ----CFN---QVVRRRDIALKIKEVSEKVDDIAKERAKYGF--DLYKGTDELQRLTTTSF 166

Query: 181 IDEGEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRN 240
           +DE  V GR  EK  + SKLL ESS +   + VISLVGLGGIGKTTLAQLA+N+ EV  +
Sbjct: 167 VDESSVIGRDGEKRNVVSKLLAESSHEARDVDVISLVGLGGIGKTTLAQLAFNDSEVTAH 226

Query: 241 FEKVIWVCVSDTFDQIRIAKAIIEGLGKSASGLNEFQSLMSRIQSSIKGKKNFLVLDDVW 300
           FEK IWVCVS+ FD+IRIAKAI+E L    + L E QSL+  +  SI GK+  LVLDDVW
Sbjct: 227 FEKKIWVCVSEPFDEIRIAKAILEQLEGRPTNLVELQSLLQGVSESITGKRLLLVLDDVW 286

Query: 301 DGDYNKWQPFFRCLKNGLHGSKILVTTRNESVARMMGSTDIISIEQLAEEEC 352
             ++ +W+     L     GS+ILVTTR ++VA MMG+   I+IE+L++E C
Sbjct: 287 TENHGQWEQLKPSLTGCARGSRILVTTRKDAVATMMGTDHRINIEKLSDEIC 338

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224110232|ref|XP_002333124.1| cc-nbs resistance protein [Populus trichocarpa] gi|222834935|gb|EEE73384.1| cc-nbs resistance protein [Populus trichocarpa]

 Score =  290 bits (741), Expect = 9e-76,   Method: Compositional matrix adjust.
 Identities = 162/350 (46%), Positives = 234/350 (66%), Gaps = 15/350 (4%)

Query: 1   MAHAIVSSLLDQLNSIAQDQVKGKWRLVTGVEQEVGKLTTNLQAIQAVLEDAEQRQMKQD 60
           MA A++S +L+QL ++   QV+ +  LV GV+++V KL +NL AIQ+VLEDA+++Q+K D
Sbjct: 1   MAEALLSPILEQLTTVVAQQVQEEVSLVGGVKKQVDKLKSNLIAIQSVLEDADRKQVK-D 59

Query: 61  KAVTFWLDQLIDASYDMEDVLEEWITETRKLQLDEGGDDDDDDNVGAFVTFLTKVCFFFP 120
           KAV  W+D+L D  YDM+DVL+EW +     +++E      ++N  +        C F  
Sbjct: 60  KAVRDWVDKLKDVCYDMDDVLDEWSSAILTWKMEEA-----EENTRSLQKMR---CSFL- 110

Query: 121 AASNCFGGFKQLSLRHDIAVKIREISEKLDDIARQKDSFKLVENVSNNVKKPERVRTTSL 180
             S CF    Q+  R DIA+KI+E+ EK+DDIA+ +  +     +     + +R+ +TSL
Sbjct: 111 -GSPCFC-LNQVGRRRDIALKIKEVCEKVDDIAKARAMYGF--ELYRATDELQRITSTSL 166

Query: 181 IDEGEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRN 240
           +DE  V GR DE+  + SKLL ES ++   ++VIS+VG+GGIGKTTLAQLA+N+ EV  +
Sbjct: 167 VDESIVTGRDDEREAVVSKLLGESIQEAGDVEVISIVGMGGIGKTTLAQLAFNDAEVTAH 226

Query: 241 FEKVIWVCVSDTFDQIRIAKAIIEGLGKSASGLNEFQSLMSRIQSSIKGKKNFLVLDDVW 300
           FEK IWVCVSD FD++RI KAI+E L   A  L E QSL+ R+  SIKGK+  LVLDDVW
Sbjct: 227 FEK-IWVCVSDPFDEVRIGKAILEQLEGRAPDLVELQSLLQRVSESIKGKRFLLVLDDVW 285

Query: 301 DGDYNKWQPFFRCLKNGLHGSKILVTTRNESVARMMGSTDIISIEQLAEE 350
             ++ +W+P    LK G  GS+ILVT+R  SVA MMG+  +I++E+L++E
Sbjct: 286 TENHGQWEPLKLSLKGGAPGSRILVTSRKHSVATMMGTDHMINLERLSDE 335

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224122696|ref|XP_002318903.1| cc-nbs-lrr resistance protein [Populus trichocarpa] gi|222859576|gb|EEE97123.1| cc-nbs-lrr resistance protein [Populus trichocarpa]

 Score =  276 bits (706), Expect = 1e-71,   Method: Compositional matrix adjust.
 Identities = 159/352 (45%), Positives = 227/352 (64%), Gaps = 35/352 (9%)

Query: 1   MAHAIVSSLLDQLNSIAQDQVKGKWRLVTGVEQEVGKLTTNLQAIQAVLEDAEQRQMKQD 60
           MA A++S +L+QL +I   QV+ +  LV GV+++  KL +NL  IQ+VLEDA+++Q+K D
Sbjct: 1   MAEALLSPILEQLTTIVAQQVQEEVNLVVGVKKQCDKLKSNLLDIQSVLEDADRKQVK-D 59

Query: 61  KAVTFWLDQLIDASYDMEDVLEEWITETRKLQLDEGGDDDDDDNVGAFVTFLTKVCFFFP 120
           KAV  WLD+L DA YDM+DVL+EW T   + +++E  +++         +FL   CF   
Sbjct: 60  KAVRDWLDKLKDACYDMDDVLDEWSTAILRWKMEEA-EENTRSRQKMRCSFLRSPCF--- 115

Query: 121 AASNCFGGFKQLSLRHDIAVKIREISEKLDDIARQKDSFKLVENVSNNVKKPERVRTTSL 180
               CF    Q+  R DIA+KI+E+ EK+DDIA+++  +    +      + +R+ +TS 
Sbjct: 116 ----CFN---QVVRRRDIALKIKEVCEKVDDIAKERAKYGF--DPYRATDELQRLTSTSF 166

Query: 181 IDEGEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRN 240
           +DE                    SSE ++ + VISLVGLGG+GKTTLAQLA+N+ EV  +
Sbjct: 167 VDE--------------------SSEARD-VDVISLVGLGGMGKTTLAQLAFNDAEVTAH 205

Query: 241 FEKVIWVCVSDTFDQIRIAKAIIEGLGKSASGLNEFQSLMSRIQSSIKGKKNFLVLDDVW 300
           FEK IWVCVS+ FD++RIAKAIIE L  S + L E QSL+ R+  SIKGK+  LVLDDVW
Sbjct: 206 FEKKIWVCVSEPFDEVRIAKAIIEQLEGSPTNLVELQSLLQRVSESIKGKRFLLVLDDVW 265

Query: 301 DGDYNKWQPFFRCLKNGLHGSKILVTTRNESVARMMGSTDIISIEQLAEEEC 352
             ++ +W+P    LK G  GS+ILVTTR  SVA MMG+  +I++E+L++E C
Sbjct: 266 TENHGQWEPLKLSLKGGAPGSRILVTTRKHSVATMMGTDHMINLERLSDEVC 317

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224115608|ref|XP_002332098.1| cc-nbs-lrr resistance protein [Populus trichocarpa] gi|222874918|gb|EEF12049.1| cc-nbs-lrr resistance protein [Populus trichocarpa]

 Score =  274 bits (701), Expect = 4e-71,   Method: Compositional matrix adjust.
 Identities = 168/354 (47%), Positives = 226/354 (63%), Gaps = 19/354 (5%)

Query: 1   MAHAIVSSLLDQLNSIAQDQVKGKWRLVTGVEQEVGKLTTNLQAIQAVLEDAEQRQMKQD 60
           MA A+VS +++QL+ +   +V+ + RLV GV+ EV KLT+N QAIQ VL DAE+RQ+K D
Sbjct: 1   MADALVSVVMEQLSLMLAQEVQQEVRLVVGVKNEVKKLTSNFQAIQDVLADAEERQLK-D 59

Query: 61  KAVTFWLDQLIDASYDMEDVLEEWITETRKLQLDEGGDDDDDDNVGAFVTFLTKVCFFFP 120
            ++  W+DQL   SYDM+DVL+EW T   K Q+                    KVC    
Sbjct: 60  GSIKRWIDQLKGVSYDMDDVLDEWGTSIAKSQMKVNEHPRKTAR---------KVCSMIF 110

Query: 121 AASNCFGGFKQLSLRHDIAVKIREISEKLDDIARQKDSFKLVENVSNNVKKPERVRTTSL 180
           +    +  F+++ LR DIA KI+E++E++D I  +KD F   ++    +K+ E  +TTS+
Sbjct: 111 S----YLCFREVGLRRDIAHKIKELNERIDGIVIEKDKFHF-KSSEVGIKQLEYQKTTSV 165

Query: 181 IDEGEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRN 240
           ID  E  GR  +K  + + LL ESS Q   L+ ISLVG+GGIGKTTLAQL YN+  V+  
Sbjct: 166 IDATETKGREKDKDRVINMLLSESS-QGLALRTISLVGMGGIGKTTLAQLVYNDRVVESY 224

Query: 241 FEKVIWVCVSDTFDQIRIAKAIIEGLGKSASGLNEFQSLMSRIQSSIKGKKNFLVLDDVW 300
           FEK IWVCVSD FD+IRIAKAI+EGL  S   LNE Q+L+  +Q SI+GKK  LVLDDVW
Sbjct: 225 FEKRIWVCVSDPFDEIRIAKAILEGLMGSTQNLNELQNLVQHVQQSIRGKKFLLVLDDVW 284

Query: 301 DGDYNKWQPFFRCLKNG-LHGSKILVTTRNESVARMMGST--DIISIEQLAEEE 351
           + D +KW+     LK G L GS+ILVTTR   VA  MGS+  DI+ +  L+ +E
Sbjct: 285 NEDSSKWEQLKNSLKCGCLPGSRILVTTRKRKVANCMGSSSADILELGLLSTDE 338

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225463558|ref|XP_002267795.1| PREDICTED: putative disease resistance protein RGA3-like [Vitis vinifera]

 Score =  273 bits (697), Expect = 1e-70,   Method: Compositional matrix adjust.
 Identities = 150/352 (42%), Positives = 231/352 (65%), Gaps = 16/352 (4%)

Query: 1   MAHAIVSSLLDQLNSIAQDQVKGKWRLVTGVEQEVGKLTTNLQAIQAVLEDAEQRQMKQD 60
           MA A+VS +L++L S+ + Q++ +  LV GVE EV  L + LQ+I+AVL DAE+RQ  ++
Sbjct: 1   MADALVSIVLERLASVLEQQIRQQVTLVVGVESEVDNLKSTLQSIRAVLGDAEKRQFTEE 60

Query: 61  KAVTFWLDQLIDASYDMEDVLEEWITETRKLQLDEGGDDDDDDNVGAFVTFLTKVCFFFP 120
             V  WL++L D SY M+DV++ W T   KLQ+         +N G       K+    P
Sbjct: 61  -LVKVWLERLKDISYQMDDVVDGWSTALLKLQIAA-------ENPG---IPKPKISSCLP 109

Query: 121 AASNCFGGFKQLSLRHDIAVKIREISEKLDDIARQKDSFKLVENVSNNVKKPERVRTTSL 180
           +   CF   KQ+SLRHDIA++I++I ++L+ IA +++ F  V   S+ +++P R  T+S+
Sbjct: 110 SPCVCF---KQVSLRHDIALQIKDIKKQLNAIANERNQFNFVS--SSIIQQPHRRITSSV 164

Query: 181 IDEGEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRN 240
           ID  + CGR  + + +  KLL  S ++ + L ++S+VG+GGIGKTTLAQLAYN+++VK  
Sbjct: 165 IDVSQFCGRDADINIIIGKLLGGSCQESSSLYIVSIVGMGGIGKTTLAQLAYNHEKVKSY 224

Query: 241 FEKVIWVCVSDTFDQIRIAKAIIEGLGKSASGLNEFQSLMSRIQSSIKGKKNFLVLDDVW 300
           F + +WVCVSD FD +RI++AI+E L K +SG ++ +++  +I + I  +K  LVLDDVW
Sbjct: 225 FHERMWVCVSDPFDPMRISRAILEALQKKSSGFHDLEAVQQKICTLIADEKFLLVLDDVW 284

Query: 301 DGDYNKWQPFFRCLKNGLHGSKILVTTRNESVARMMGSTDIISIEQLAEEEC 352
             +Y  W+     LK G  GS+ILVTTRNE+V+ MMG+T    + +L++E+C
Sbjct: 285 TENYELWEQVESSLKGGAPGSRILVTTRNENVSTMMGTTYKHPLGELSKEQC 336

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224114824|ref|XP_002332291.1| cc-nbs-lrr resistance protein [Populus trichocarpa] gi|222832453|gb|EEE70930.1| cc-nbs-lrr resistance protein [Populus trichocarpa]

 Score =  271 bits (694), Expect = 3e-70,   Method: Compositional matrix adjust.
 Identities = 153/340 (45%), Positives = 222/340 (65%), Gaps = 20/340 (5%)

Query: 14  NSIAQDQVKGKWRLVTGVEQEVGKLTTNLQAIQAVLEDAEQRQMKQDKAVTFWLDQLIDA 73
           N + Q++V     LV GV+++V KL  NL AIQ+VLEDA+++Q+K DKA+  W+D+L D 
Sbjct: 14  NILVQEEVN----LVGGVKKQVDKLKNNLLAIQSVLEDADRKQVK-DKALRDWVDKLKDV 68

Query: 74  SYDMEDVLEEWITETRKLQLDEGGDDDDDDNVGAFVTFLTKV-CFFFPAASNCFGGFKQL 132
            YDM+DVL+EW T   + +++E  ++              K+ C F  +   C     Q+
Sbjct: 69  CYDMDDVLDEWSTAILRWKMEEAEENTPSRK---------KIRCSFLGSPFFCLN---QV 116

Query: 133 SLRHDIAVKIREISEKLDDIARQKDSFKLVENVSNNVKKPERVRTTSLIDEGEVCGRVDE 192
             R DIA+KI+E+ EK+DDIA+++  +     +     + +R+ +TSL+DE  V GR D+
Sbjct: 117 VQRRDIALKIKEVCEKVDDIAKERAMYGF--ELYRATDELQRITSTSLVDESSVIGRDDK 174

Query: 193 KSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDT 252
           +  + SKLL ES ++   ++VISLVG+GGIGKTTLAQLA+N+DEV  +FEK IWVCVSD 
Sbjct: 175 REAVVSKLLGESIQEAGDVEVISLVGMGGIGKTTLAQLAFNDDEVTAHFEKKIWVCVSDP 234

Query: 253 FDQIRIAKAIIEGLGKSASGLNEFQSLMSRIQSSIKGKKNFLVLDDVWDGDYNKWQPFFR 312
           FD++RI KAI+E L   A  L E QSL+ R+  SIKG++  LVLDDVW  ++ +W+    
Sbjct: 235 FDEVRIGKAILEQLEGRAPDLVELQSLLQRVSESIKGERFLLVLDDVWTENHRQWEQLKP 294

Query: 313 CLKNGLHGSKILVTTRNESVARMMGSTDIISIEQLAEEEC 352
            L     GS+ILVTTR  SVA MMG+  +I++E+L++E C
Sbjct: 295 SLTGCARGSRILVTTRKHSVATMMGTGHVINLEKLSDEVC 334

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359482798|ref|XP_002268266.2| PREDICTED: putative disease resistance protein RGA4-like [Vitis vinifera]

 Score =  271 bits (693), Expect = 3e-70,   Method: Compositional matrix adjust.
 Identities = 149/352 (42%), Positives = 229/352 (65%), Gaps = 17/352 (4%)

Query: 1   MAHAIVSSLLDQLNSIAQDQVKGKWRLVTGVEQEVGKLTTNLQAIQAVLEDAEQRQMKQD 60
           MAHA++S +L +L S+ + Q++ +  LV GVE E+  LT  L++++ VLEDAE+RQ+K+ 
Sbjct: 1   MAHALLSIVLTRLASVVEQQIRDELTLVLGVEAEIQSLTDTLRSVRDVLEDAERRQVKE- 59

Query: 61  KAVTFWLDQLIDASYDMEDVLEEWITETRKLQLDEGGDDDDDDNVGAFVTFLTKVCFFFP 120
           K+V  WL++L D +Y M+DVL+EW T   +LQ++   +     N         KV    P
Sbjct: 60  KSVQGWLERLKDMAYQMDDVLDEWSTAILQLQMEGAENASMSKN---------KVSSCIP 110

Query: 121 AASNCFGGFKQLSLRHDIAVKIREISEKLDDIARQKDSFKLVENVSNNVKKPERVRTTSL 180
           +   CF   KQ++ R DIA+KI+++ ++LD IA ++  F  +   S+  ++P+R+ TTS 
Sbjct: 111 SPCFCF---KQVASRRDIALKIKDLKQQLDVIASERTRFNFI---SSGTQEPQRLITTSA 164

Query: 181 IDEGEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRN 240
           ID  EV GR  + + +  +LL E+ E+++ L +I++VG GG+GKTTLAQLAYN+ EVK +
Sbjct: 165 IDVSEVYGRDTDVNAILGRLLGENDEEKSRLYIIAIVGTGGMGKTTLAQLAYNHPEVKAH 224

Query: 241 FEKVIWVCVSDTFDQIRIAKAIIEGLGKSASGLNEFQSLMSRIQSSIKGKKNFLVLDDVW 300
           F++ IWVCVSD FD IR+ +AI+E L K    L++ +++   IQ+ I GKK  LVLDD+W
Sbjct: 225 FDERIWVCVSDPFDPIRVCRAIVETLQKKPCNLHDLEAVQQEIQTCIAGKKFLLVLDDMW 284

Query: 301 DGDYNKWQPFFRCLKNG-LHGSKILVTTRNESVARMMGSTDIISIEQLAEEE 351
             DY  W+     L  G + GS+ILVTTR ++VA+MMG+T    I +L+ + 
Sbjct: 285 TEDYRLWEQLKNTLNYGAVGGSRILVTTRKDNVAKMMGTTYKHPIGELSPQH 336

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224115686|ref|XP_002332117.1| cc-nbs-lrr resistance protein [Populus trichocarpa] gi|222874937|gb|EEF12068.1| cc-nbs-lrr resistance protein [Populus trichocarpa]

 Score =  271 bits (693), Expect = 3e-70,   Method: Compositional matrix adjust.
 Identities = 164/355 (46%), Positives = 226/355 (63%), Gaps = 19/355 (5%)

Query: 1   MAHAIVSSLLDQLNSIAQDQVKGKWRLVTGVEQEVGKLTTNLQAIQAVLEDAEQRQMKQD 60
           MA A+V  +++QL+ I   +V+ + RLV GV+ EV KLT N Q IQAVL DAE+R++K D
Sbjct: 1   MADALVFVVMEQLSLIFAQEVQQEVRLVVGVKNEVQKLTNNFQTIQAVLADAEERELK-D 59

Query: 61  KAVTFWLDQLIDASYDMEDVLEEWITETRKLQLDEGGDDDDDDNVGAFVTFLTKVCFFFP 120
            ++  W+DQL   SYDM+DVL+EW T   K Q+                    KVC    
Sbjct: 60  GSIKRWIDQLKGVSYDMDDVLDEWGTAIAKSQMKVNEHPRKTAR---------KVCSMI- 109

Query: 121 AASNCFGGFKQLSLRHDIAVKIREISEKLDDIARQKDSFKLVENVSNNVKKPERVRTTSL 180
              +C   F+++ LR DIA KI+E++E++D I  +KD F   ++    +K+ E  +TTS+
Sbjct: 110 --FSCLC-FREVGLRRDIAHKIKELNERIDGIVIEKDRFHF-KSSEVGIKQLEHQKTTSV 165

Query: 181 IDEGEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRN 240
           ID  EV GR ++K  + + LL ESS Q   L+ ISLVG+GGIGKTTLA+L YN+ +V  +
Sbjct: 166 IDAAEVKGRENDKDRVKNMLLSESS-QGPALRTISLVGMGGIGKTTLAKLVYNDHDVTTH 224

Query: 241 FEKVIWVCVSDTFDQIRIAKAIIEGLGKSASGLNEFQSLMSRIQSSIKGKKNFLVLDDVW 300
           F+K IWVCVSD F++I IAKAI+E L  SA  LNE Q+L+  +Q SI+ KK  LVLDDVW
Sbjct: 225 FDKRIWVCVSDPFNEITIAKAILEDLTGSAPNLNELQTLVKHVQESIREKKFLLVLDDVW 284

Query: 301 DGDYNKWQPFFRCLKNGLHGSKILVTTRNESVARMMG---STDIISIEQLAEEEC 352
           + D  KW+     LK GL GS+I+VTTR  +VA  MG   STDI+ +  L+ ++C
Sbjct: 285 NEDSTKWEQLKDSLKCGLPGSRIMVTTRKTNVASSMGSSPSTDILELGLLSTDKC 339

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

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	352
TAIR|locus:2078012	852	ZAR1 "HOPZ-ACTIVATED RESISTANC	0.582	0.240	0.327	1.9e-31
TAIR|locus:2091672	1054	AT3G14470 [Arabidopsis thalian	0.786	0.262	0.296	5.9e-30
TAIR|locus:2091662	1424	AT3G14460 [Arabidopsis thalian	0.656	0.162	0.282	7e-28
TAIR|locus:504956483	847	AT3G46730 [Arabidopsis thalian	0.562	0.233	0.310	1.6e-24
UNIPROTKB|O48647	1802	O48647 "XA1" [Oryza sativa (ta	0.619	0.120	0.311	4.1e-23
TAIR|locus:2037623	899	AT1G58410 [Arabidopsis thalian	0.568	0.222	0.302	4.3e-21
TAIR|locus:2075170	835	RPP13 "RECOGNITION OF PERONOSP	0.548	0.231	0.298	1.2e-20
TAIR|locus:2025916	906	AT1G59780 "AT1G59780" [Arabido	0.565	0.219	0.286	2.4e-20
TAIR|locus:504956186	1138	AT1G58602 [Arabidopsis thalian	0.545	0.168	0.293	9e-20
TAIR|locus:504956182	1049	AT1G58848 [Arabidopsis thalian	0.559	0.187	0.299	1.1e-19

TAIR|locus:2078012 ZAR1 "HOPZ-ACTIVATED RESISTANCE 1" [Arabidopsis thaliana (taxid:3702)]

 Score = 303 (111.7 bits), Expect = 1.9e-31, Sum P(2) = 1.9e-31
 Identities = 69/211 (32%), Positives = 129/211 (61%)

Query:   131 QLSLRHDIAVKIREISEKLDDIARQKDSFKLVENVSNNVKKPERVRTTSLI-DEGEVCGR 189
             ++ L++  + +++EI+E++  I  Q + +      SN  +     R +S + D  +V G 
Sbjct:   104 RVPLQYKKSKRLQEINERITKIKSQVEPYFEFITPSNVGRDNGTDRWSSPVYDHTQVVGL 163

Query:   190 VDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCV 249
               +K ++  + L  S++ Q  L +++ VG+GG+GKTT+AQ  +N+ E++  FE+ IWV V
Sbjct:   164 EGDKRKI-KEWLFRSNDSQ--LLIMAFVGMGGLGKTTIAQEVFNDKEIEHRFERRIWVSV 220

Query:   250 SDTFDQIRIAKAIIEGLGKSASGLNEFQSLMSRIQSSIKGKKNFLVLDDVWDGDYNKWQP 309
             S TF + +I ++I+  LG ++ G ++  +L+ +IQ  + GK+  +V+DDVWD + + W  
Sbjct:   221 SQTFTEEQIMRSILRNLGDASVG-DDIGTLLRKIQQYLLGKRYLIVMDDVWDKNLSWWDK 279

Query:   310 FFRCLKNGLHGSKILVTTRNESVARMMGSTD 340
              ++ L  G  GS ++VTTR+ESVA+ + + D
Sbjct:   280 IYQGLPRGQGGS-VIVTTRSESVAKRVQARD 309

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2091672 AT3G14470 [Arabidopsis thaliana (taxid:3702)]

 Score = 343 (125.8 bits), Expect = 5.9e-30, P = 5.9e-30
 Identities = 87/293 (29%), Positives = 155/293 (52%)

Query:    70 LIDASYDM--EDVLEEWITETRKL------QLXXXXXXXXXXNVGAFVTFLTKVCFFFPA 121
             LIDA        V+E+W+ E R +       L          N+GA  +   ++      
Sbjct:    53 LIDAEEKQITNPVVEKWVNELRDVVYHAEDALDDIATEALRLNIGAESSSSNRLRQLRGR 112

Query:   122 ASNCFGGFKQLSLRHDIAVKIREISEKLDDIARQKDSFKLVENVSNNVKKPERVRTTSLI 181
              S   G F   +  H +  ++ +++ +L+ +A Q++   L E ++  + K +R+ TTSL+
Sbjct:   113 MS--LGDFLDGNSEH-LETRLEKVTIRLERLASQRNILGLKE-LTAMIPK-QRLPTTSLV 167

Query:   182 DEGEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNF 241
             DE EV GR D+K E+   L+ E+ +  NG+ V+++VG+GG+GKTTL+QL YN+  V+  F
Sbjct:   168 DESEVFGRDDDKDEIMRFLIPENGKD-NGITVVAIVGIGGVGKTTLSQLLYNDQHVRSYF 226

Query:   242 EKVIWVCVSDTFDQIRIAKAIIEGLGKSASGLNEFQSLMSRIQSSIKGK--KNFLVLDDV 299
                +W  VS+ FD  +I K + E +        +   L  +++  + G      LVLDD+
Sbjct:   227 GTKVWAHVSEEFDVFKITKKVYESVTSRPCEFTDLDVLQVKLKERLTGTGLPFLLVLDDL 286

Query:   300 WDGDYNKWQPFFRCLKNGLHGSKILVTTRNESVARMMGSTDIISIEQLAEEEC 352
             W+ ++  W    +   +   GS+ILVTTR++ VA +M +  + +++ L++ +C
Sbjct:   287 WNENFADWDLLRQPFIHAAQGSQILVTTRSQRVASIMCAVHVHNLQPLSDGDC 339

GO:0005576 "extracellular region" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

GO:0005515 "protein binding" evidence=IPI

GO:0009627 "systemic acquired resistance" evidence=RCA

GO:0009697 "salicylic acid biosynthetic process" evidence=RCA

TAIR|locus:2091662 AT3G14460 [Arabidopsis thaliana (taxid:3702)]

 Score = 279 (103.3 bits), Expect = 7.0e-28, Sum P(2) = 7.0e-28
 Identities = 68/241 (28%), Positives = 127/241 (52%)

Query:   121 AASNCFGGFKQLSLRHDIAVKIREISEKLDDIARQKDSF-KLVENVS----NNVKKPE-R 174
             A +   GG  Q  +    A++ ++I  K++ + R  +   K +E +     +  ++P+ R
Sbjct:    95 AEAGGLGGLFQNLMAGREAIQ-KKIEPKMEKVVRLLEHHVKHIEVIGLKEYSETREPQWR 153

Query:   175 VRTTSLIDE---GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLA 231
               + S  D+   G + GRV++K  L + LL +         VIS+VG+ G+GKTTL ++ 
Sbjct:   154 QASRSRPDDLPQGRLVGRVEDKLALVNLLLSDDEISIGKPAVISVVGMPGVGKTTLTEIV 213

Query:   232 YNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSASGLNEFQSLMSRIQSSIKGKK 291
             +N+  V  +FE  +W+     F+   + KA+++ +  SA    +  SL  +++ ++ GK+
Sbjct:   214 FNDYRVTEHFEVKMWISAGINFNVFTVTKAVLQDITSSAVNTEDLPSLQIQLKKTLSGKR 273

Query:   292 NFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKILVTTRNESVARMMGSTDIISIEQLAEEE 351
               LVLDD W    ++W+ F     +   GSKI++TTR+E V+ +  +  I  ++ +  EE
Sbjct:   274 FLLVLDDFWSESDSEWESFQVAFTDAEEGSKIVLTTRSEIVSTVAKAEKIYQMKLMTNEE 333

Query:   352 C 352
             C
Sbjct:   334 C 334

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:504956483 AT3G46730 [Arabidopsis thaliana (taxid:3702)]

 Score = 239 (89.2 bits), Expect = 1.6e-24, Sum P(2) = 1.6e-24
 Identities = 68/219 (31%), Positives = 114/219 (52%)

Query:   136 HDIAVKIREISEKLDDIARQKDSFKLV-------ENVSNNVKKPERVRTTSLIDEGE-VC 187
             ++I   IR +  ++ DI R++++F +        EN++N   +  ++R    +D+ E V 
Sbjct:   106 YNIVEDIRTLKRRILDITRKRETFGIGSFNEPRGENITN--VRVRQLRRAPPVDQEELVV 163

Query:   188 GRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWV 247
             G  D+   L  KLL ++ + ++   +IS+ G+GG+GKT LA+  YN+ +VKR F+   W 
Sbjct:   164 GLEDDVKILLVKLLSDNEKDKS--YIISIFGMGGLGKTALARKLYNSGDVKRRFDCRAWT 221

Query:   248 CVSDTFDQIRIAKAIIEGLG-KSASGLN------EFQSLMSRIQSSIKGKKNFLVLDDVW 300
              VS  +    I   II  LG  SA  +       E + L   +   ++GK   +V+DDVW
Sbjct:   222 YVSQEYKTRDILIRIIRSLGIVSAEEMEKIKMFEEDEELEVYLYGLLEGKNYMVVVDDVW 281

Query:   301 DGDYNKWQPFFRCLKNGLHGSKILVTTRNESVARMMGST 339
             D D   W+   R L     GSK+++TTR  ++A  +  T
Sbjct:   282 DPD--AWESLKRALPCDHRGSKVIITTRIRAIAEGVEGT 318

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

GO:0043531 "ADP binding" evidence=IEA

UNIPROTKB|O48647 O48647 "XA1" [Oryza sativa (taxid:4530)]

 Score = 269 (99.8 bits), Expect = 4.1e-23, Sum P(2) = 4.1e-23
 Identities = 73/234 (31%), Positives = 121/234 (51%)

Query:   129 FKQLSLRHDIAVKIREISEKLDDIARQKDSFKLVENVSNNVKKPERVRTTS-LIDEGEVC 187
             + +  L + I     ++ E ++++ R   S     N S     P    TTS  + E  V 
Sbjct:   241 WNKAELSNRIQCMTHQLEEAVNEVMRLCRSSS--SNQSRQGTPPATNATTSSYLPEPIVY 298

Query:   188 GRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWV 247
             GR  E  E   +L+   S + NG+ V+ +VG GGIGKTTLAQL   +  +K  F   IWV
Sbjct:   299 GRAAEM-ETIKQLIM--SNRSNGITVLPIVGNGGIGKTTLAQLVCKDLVIKSQFNVKIWV 355

Query:   248 CVSDTFDQIRIAKAIIEGLG-KSASGLNEFQSLMSRIQSSIKGKKNFLVLDDVWDGDYNK 306
              VSD FD ++I + I++ +  +S  G++   +L   ++  +K KK  +VLDDVW+   + 
Sbjct:   356 YVSDKFDVVKITRQILDHVSNQSHEGISNLDTLQQDLEEQMKSKKFLIVLDDVWEIRTDD 415

Query:   307 WQPFFRCLK-----NGLH----GSKILVTTRNESVARMMGSTDIISIEQLAEEE 351
             W+     L+     N       G+ I++TTR +S+A+ +G+   I +E L +++
Sbjct:   416 WKKLLAPLRPNDQVNSSQEEATGNMIILTTRIQSIAKSLGTVQSIKLEALKDDD 469

GO:0006915 "apoptotic process" evidence=IGI

GO:0006952 "defense response" evidence=IGI

TAIR|locus:2037623 AT1G58410 [Arabidopsis thaliana (taxid:3702)]

 Score = 225 (84.3 bits), Expect = 4.3e-21, Sum P(2) = 4.3e-21
 Identities = 68/225 (30%), Positives = 117/225 (52%)

Query:   135 RHDIAVKIREISEKLDDIARQKDSFKLVENVSNNVKK--P--ERVR----TTSLIDEGEV 186
             R ++A  I  IS+++  + +   SF + + +++  +   P  ER R    T S   E + 
Sbjct:   103 RRELASDIGGISKRISKVIQDMQSFGVQQIITDGSRSSHPLQERQREMRHTFSRDSENDF 162

Query:   187 CGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIW 246
              G      +L   L+     +++  Q++SL G+GG+GKTTLA+  +N+D VK  F+   W
Sbjct:   163 VGMEANVKKLVGYLV-----EKDDYQIVSLTGMGGLGKTTLARQVFNHDVVKDRFDGFAW 217

Query:   247 VCVSDTFDQIRIAKAIIEGLGKSASGLNEFQSLMSR-----IQSSIKGKKNFLVLDDVW- 300
             V VS  F +I + + I++ L  S    +E Q++        +   ++  K  +VLDD+W 
Sbjct:   218 VSVSQEFTRISVWQTILQNL-TSKERKDEIQNMKEADLHDDLFRLLESSKTLIVLDDIWK 276

Query:   301 DGDYNKWQPFFRCLKNGLHGSKILVTTRNESVARMMGSTDIISIE 345
             + D++  +P F   K    G K+L+T+R ES+A M G T  IS +
Sbjct:   277 EEDWDLIKPIFPPKK----GWKVLLTSRTESIA-MRGDTTYISFK 316

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2075170 RPP13 "RECOGNITION OF PERONOSPORA PARASITICA 13" [Arabidopsis thaliana (taxid:3702)]

 Score = 220 (82.5 bits), Expect = 1.2e-20, Sum P(2) = 1.2e-20
 Identities = 63/211 (29%), Positives = 108/211 (51%)

Query:   136 HDIAVKIREISEKLDDIARQKDSF-----KLVENVSNNVK-KPERVRTTSLIDEGEVC-G 188
             + I   IR +  ++ DI R+++++     K  +   N    +  ++R    +D+ EV  G
Sbjct:   106 YSIVDDIRILKRRILDITRKRETYGIGGLKEPQGGGNTSSLRVRQLRRARSVDQEEVVVG 165

Query:   189 RVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVC 248
               D+   L  KLL    E++N   +IS+ G+GG+GKT LA+  YN+ +VK  FE   W  
Sbjct:   166 LEDDAKILLEKLL--DYEEKNRF-IISIFGMGGLGKTALARKLYNSRDVKERFEYRAWTY 222

Query:   249 VSDTFDQIRIAKAIIEGLGKSASG----LNEF--QSLMSRIQSSIKGKKNFLVLDDVWDG 302
             VS  +    I   II  LG ++      + +F  + L   +   ++GKK  +V+DD+W+ 
Sbjct:   223 VSQEYKTGDILMRIIRSLGMTSGEELEKIRKFAEEELEVYLYGLLEGKKYLVVVDDIWER 282

Query:   303 DYNKWQPFFRCLKNGLHGSKILVTTRNESVA 333
             +   W    R L     GS++++TTR ++VA
Sbjct:   283 E--AWDSLKRALPCNHEGSRVIITTRIKAVA 311

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

GO:0005737 "cytoplasm" evidence=TAS

GO:0009814 "defense response, incompatible interaction" evidence=IMP

GO:0005886 "plasma membrane" evidence=IDA

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

TAIR|locus:2025916 AT1G59780 "AT1G59780" [Arabidopsis thaliana (taxid:3702)]

 Score = 221 (82.9 bits), Expect = 2.4e-20, Sum P(2) = 2.4e-20
 Identities = 61/213 (28%), Positives = 115/213 (53%)

Query:   125 CF-GGFKQLSLR-HDIAVKIREISEKLDDIARQKDSFKLVENVSNNVKKPERVRTTSLID 182
             CF GG ++++L+   I+ +I ++ + + ++  + D    V++ +   +K E   T S   
Sbjct:    97 CFPGGRREIALQITSISKRISKVIQVMQNLGIKSDIMDGVDSHAQLERKRELRHTFSSES 156

Query:   183 EGEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFE 242
             E  + G      +L  +L+   ++  +G   +S+ GLGG+GKTTLA+  +++D+VK +F+
Sbjct:   157 ESNLVGLEKNVEKLVEELV--GNDSSHG---VSITGLGGLGKTTLARQIFDHDKVKSHFD 211

Query:   243 KVIWVCVSDTFDQIRIAKAIIEGLGKSA--SGLNEFQSLMSRIQSSIKGKKNFLVLDDVW 300
              + WVCVS  F +  + K I+  L      S L E   +  ++   ++ KK  +V DD+W
Sbjct:   212 GLAWVCVSQEFTRKDVWKTILGNLSPKYKDSDLPE-DDIQKKLFQLLETKKALIVFDDLW 270

Query:   301 DG-DYNKWQPFFRCLKNGLHGSKILVTTRNESV 332
                D+ +  P F   K G    K+L+T+RN+++
Sbjct:   271 KREDWYRIAPMFPERKAGW---KVLLTSRNDAI 300

GO:0005575 "cellular_component" evidence=ND

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:504956186 AT1G58602 [Arabidopsis thaliana (taxid:3702)]

 Score = 209 (78.6 bits), Expect = 9.0e-20, Sum P(2) = 9.0e-20
 Identities = 62/211 (29%), Positives = 105/211 (49%)

Query:   135 RHDIAVKIREISEKLDDIARQKDSFKLVENVSNNVKKPERVRTTSL---IDEGEVCGRVD 191
             R +IA+ I  +S+++  + R   SF + + + ++   P R R   +     +    G V 
Sbjct:   105 RREIALYIGHVSKRITRVIRDMQSFGVQQMIVDDYMHPLRNREREIRRTFPKDNESGFV- 163

Query:   192 EKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSD 251
                E   KL+    E+ N  QV+S+ G+GG+GKTTLA+  +N+D V + F+K+ WV VS 
Sbjct:   164 ALEENVKKLVGYFVEEDN-YQVVSITGMGGLGKTTLARQVFNHDMVTKKFDKLAWVSVSQ 222

Query:   252 TFDQIRIAKAIIEGLGKSASGLNEFQ---------SLMSRIQSSIKGKKNFLVLDDVWDG 302
              F    + + I+  L        E +         +L   +   ++  K+ +VLDD+W  
Sbjct:   223 DFTLKNVWQNILGDLKPKEEETKEEEKKILEMTEYTLQRELYQLLEMSKSLIVLDDIWKK 282

Query:   303 -DYNKWQPFFRCLKNGLHGSKILVTTRNESV 332
              D+   +P F   K    G K+L+T+RNES+
Sbjct:   283 EDWEVIKPIFPPTK----GWKLLLTSRNESI 309

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:504956182 AT1G58848 [Arabidopsis thaliana (taxid:3702)]

 Score = 228 (85.3 bits), Expect = 1.1e-19, Sum P(2) = 1.1e-19
 Identities = 68/227 (29%), Positives = 119/227 (52%)

Query:   135 RHDIAVKIREISEKLDDIARQKDSFKLVEN-VSNNVKKPE-----RVRTT-SLIDEGEVC 187
             R   A+ I  +S ++  + R   SF + +  V    K+P+      +R   S  D+ +  
Sbjct:   105 RRRYALGIGGLSNRISKVIRDMQSFGVQQAIVDGGYKQPQGDKQREMRPRFSKDDDSDFV 164

Query:   188 GRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWV 247
             G      +L   L+ E++     +QV+S+ G+GG+GKTTLA+  +N+++VK  F+ + WV
Sbjct:   165 GLEANVKKLVGYLVDEAN-----VQVVSITGMGGLGKTTLAKQVFNHEDVKHQFDGLSWV 219

Query:   248 CVSDTFDQIRIAKAIIEGLGKSASGLNEFQSLMSRIQSSIKGK--------KNFLVLDDV 299
             CVS  F ++ + + I+  L        E + +M   Q +++G+        K+ +VLDD+
Sbjct:   220 CVSQDFTRMNVWQKILRDLKPK----EEEKKIMEMTQDTLQGELIRLLETSKSLIVLDDI 275

Query:   300 WDG-DYNKWQPFFRCLKNGLHGSKILVTTRNESVARMMGSTDIISIE 345
             W+  D+   +P F   K    G K+L+T+RNESVA M  +T  I+ +
Sbjct:   276 WEKEDWELIKPIFPPTK----GWKVLLTSRNESVA-MRRNTSYINFK 317

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

GO:0043531 "ADP binding" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	352
pfam00931	285	pfam00931, NB-ARC, NB-ARC domain	2e-33
COG0552	340	COG0552, FtsY, Signal recognition particle GTPase	8e-04
pfam13401	124	pfam13401, AAA_22, AAA domain	9e-04

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

 Score =  124 bits (314), Expect = 2e-33
 Identities = 66/167 (39%), Positives = 94/167 (56%), Gaps = 9/167 (5%)

Query: 189 RVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVC 248
           R D    L  KLL  S      L V+ +VG+GG+GKTTLA+  YN+D V  +F+ V WV 
Sbjct: 1   REDMIEALIEKLLEMSDN----LGVVGIVGMGGVGKTTLAKQIYNDDSVGGHFDSVAWVV 56

Query: 249 VSDTFDQIRIAKAIIEGLGK--SASGLNEFQSLMSRIQSSIKGKKNFLVLDDVWDGDYNK 306
           VS T+ + R+ K I++ LG   S         L  +I+ ++  K+  LVLDDVW  + N 
Sbjct: 57  VSKTYTEFRLQKDILQELGLDDSDWVEKNESELAVKIKEALLRKRFLLVLDDVW--EKND 114

Query: 307 WQPFFRCLKNGLHGSKILVTTRNESVA-RMMGSTDIISIEQLAEEEC 352
           W        +G +GS+++VTTR+ESVA RM G++    +E L  EE 
Sbjct: 115 WDKIGVPFPDGENGSRVIVTTRSESVAGRMGGTSKPHEVESLEPEES 161

Length = 285

>gnl|CDD|223626 COG0552, FtsY, Signal recognition particle GTPase [Intracellular trafficking and secretion]

 Score = 40.7 bits (96), Expect = 8e-04
 Identities = 22/105 (20%), Positives = 47/105 (44%), Gaps = 10/105 (9%)

Query: 160 KLVENVSNNVKKPERVRTTSLIDEGEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGL 219
           +++E +     K ++++    + E      ++    +    L     ++    VI  VG+
Sbjct: 88  EIIEELRKREGKKKKIKDEETVKEALREALIEILRPVDKVDLPLEIPKEKKPFVILFVGV 147

Query: 220 GGIGKTT-LAQLAYNNDEVKRNFEKVIWVCVSDTF-----DQIRI 258
            G+GKTT +A+LA     +K+  + V+     DTF     +Q+ +
Sbjct: 148 NGVGKTTTIAKLAKY---LKQQGKSVLLA-AGDTFRAAAIEQLEV 188

Length = 340

>gnl|CDD|222104 pfam13401, AAA_22, AAA domain

 Score = 38.4 bits (90), Expect = 9e-04
 Identities = 21/89 (23%), Positives = 36/89 (40%), Gaps = 6/89 (6%)

Query: 212 QVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSAS 271
            +  L G  G GKTTL +        +R    V++V          + + I+  LG   S
Sbjct: 5   GIGVLTGESGSGKTTLLRRLARQLPNRR----VVYVEAPSLGTPKDLLRKILRALGLPLS 60

Query: 272 GLNEFQSLMSRIQSSIK-GKKNFLVLDDV 299
           G      L+  I  ++K   +  L++D+ 
Sbjct: 61  GGTT-AELLEAILDALKRRGRPLLIIDEA 88

Length = 124

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	352
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	100.0
PF00931	287	NB-ARC: NB-ARC domain; InterPro: IPR002182 This is	99.95
PLN03210	1153	Resistant to P. syringae 6; Provisional	99.84
PRK00411	394	cdc6 cell division control protein 6; Reviewed	99.23
PF05729	166	NACHT: NACHT domain	99.21
TIGR02928	365	orc1/cdc6 family replication initiation protein. M	99.1
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	99.0
TIGR03015	269	pepcterm_ATPase putative secretion ATPase, PEP-CTE	98.98
PF13173	128	AAA_14: AAA domain	98.96
COG2256	436	MGS1 ATPase related to the helicase subunit of the	98.94
PF01637	234	Arch_ATPase: Archaeal ATPase; InterPro: IPR011579	98.92
PF13191	185	AAA_16: AAA ATPase domain; PDB: 2V1U_A.	98.88
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	98.85
cd01128	249	rho_factor Transcription termination factor rho is	98.75
COG1474	366	CDC6 Cdc6-related protein, AAA superfamily ATPase	98.74
PRK04841	903	transcriptional regulator MalT; Provisional	98.74
PRK06893	229	DNA replication initiation factor; Validated	98.68
PRK09376	416	rho transcription termination factor Rho; Provisio	98.65
PRK13342	413	recombination factor protein RarA; Reviewed	98.64
KOG2028	554	consensus ATPase related to the helicase subunit o	98.63
PTZ00202	550	tuzin; Provisional	98.62
PRK05564	313	DNA polymerase III subunit delta'; Validated	98.61
TIGR02903	615	spore_lon_C ATP-dependent protease, Lon family. Me	98.59
TIGR03420	226	DnaA_homol_Hda DnaA regulatory inactivator Hda. Me	98.58
PRK07003	830	DNA polymerase III subunits gamma and tau; Validat	98.54
PRK14961	363	DNA polymerase III subunits gamma and tau; Provisi	98.53
PTZ00112	1164	origin recognition complex 1 protein; Provisional	98.53
PRK12402	337	replication factor C small subunit 2; Reviewed	98.5
PRK14963	504	DNA polymerase III subunits gamma and tau; Provisi	98.5
PRK14957	546	DNA polymerase III subunits gamma and tau; Provisi	98.49
PLN03025	319	replication factor C subunit; Provisional	98.47
PRK12323	700	DNA polymerase III subunits gamma and tau; Provisi	98.46
TIGR00767	415	rho transcription termination factor Rho. Members	98.46
PRK14949	944	DNA polymerase III subunits gamma and tau; Provisi	98.44
PRK13341	725	recombination factor protein RarA/unknown domain f	98.44
PRK00080	328	ruvB Holliday junction DNA helicase RuvB; Reviewed	98.41
PRK14960	702	DNA polymerase III subunits gamma and tau; Provisi	98.41
TIGR00635	305	ruvB Holliday junction DNA helicase, RuvB subunit.	98.4
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	98.4
PRK11331	459	5-methylcytosine-specific restriction enzyme subun	98.39
PRK06645	507	DNA polymerase III subunits gamma and tau; Validat	98.39
PRK00440	319	rfc replication factor C small subunit; Reviewed	98.37
PRK14962	472	DNA polymerase III subunits gamma and tau; Provisi	98.36
PRK14955	397	DNA polymerase III subunits gamma and tau; Provisi	98.35
PRK14951	618	DNA polymerase III subunits gamma and tau; Provisi	98.34
PRK08084	235	DNA replication initiation factor; Provisional	98.33
PRK14958	509	DNA polymerase III subunits gamma and tau; Provisi	98.3
PRK04195	482	replication factor C large subunit; Provisional	98.3
PRK08727	233	hypothetical protein; Validated	98.27
PRK14964	491	DNA polymerase III subunits gamma and tau; Provisi	98.27
PRK07994	647	DNA polymerase III subunits gamma and tau; Validat	98.27
PRK07940	394	DNA polymerase III subunit delta'; Validated	98.25
PRK07764	824	DNA polymerase III subunits gamma and tau; Validat	98.24
TIGR02397	355	dnaX_nterm DNA polymerase III, subunit gamma and t	98.24
PRK14956	484	DNA polymerase III subunits gamma and tau; Provisi	98.23
PRK05896	605	DNA polymerase III subunits gamma and tau; Validat	98.21
PRK14954	620	DNA polymerase III subunits gamma and tau; Provisi	98.19
PRK08903	227	DnaA regulatory inactivator Hda; Validated	98.19
PRK08691	709	DNA polymerase III subunits gamma and tau; Validat	98.18
PF05621	302	TniB: Bacterial TniB protein; InterPro: IPR008868	98.18
TIGR00678	188	holB DNA polymerase III, delta' subunit. At positi	98.17
PRK05642	234	DNA replication initiation factor; Validated	98.16
PRK08116	268	hypothetical protein; Validated	98.15
KOG2543	438	consensus Origin recognition complex, subunit 5 [R	98.15
PRK14952	584	DNA polymerase III subunits gamma and tau; Provisi	98.15
PRK07471	365	DNA polymerase III subunit delta'; Validated	98.14
PF05496	233	RuvB_N: Holliday junction DNA helicase ruvB N-term	98.14
PHA02544	316	44 clamp loader, small subunit; Provisional	98.13
PRK09087	226	hypothetical protein; Validated	98.12
PF00004	132	AAA: ATPase family associated with various cellula	98.12
PRK14969	527	DNA polymerase III subunits gamma and tau; Provisi	98.11
PRK09111	598	DNA polymerase III subunits gamma and tau; Validat	98.11
KOG2227	529	consensus Pre-initiation complex, subunit CDC6, AA	98.09
PF05673	249	DUF815: Protein of unknown function (DUF815); Inte	98.09
PRK09112	351	DNA polymerase III subunit delta'; Validated	98.06
PRK14970	367	DNA polymerase III subunits gamma and tau; Provisi	98.06
PRK14950	585	DNA polymerase III subunits gamma and tau; Provisi	98.05
PRK14959	624	DNA polymerase III subunits gamma and tau; Provisi	98.05
PF04665	241	Pox_A32: Poxvirus A32 protein; InterPro: IPR006758	98.05
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	98.03
smart00382	148	AAA ATPases associated with a variety of cellular	98.02
CHL00095	821	clpC Clp protease ATP binding subunit	98.02
PF13177	162	DNA_pol3_delta2: DNA polymerase III, delta subunit	98.01
PF00308	219	Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013	98.0
PRK14965	576	DNA polymerase III subunits gamma and tau; Provisi	98.0
TIGR01242	364	26Sp45 26S proteasome subunit P45 family. Many pro	98.0
PRK14971	614	DNA polymerase III subunits gamma and tau; Provisi	98.0
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	97.98
CHL00181	287	cbbX CbbX; Provisional	97.98
PRK07133	725	DNA polymerase III subunits gamma and tau; Validat	97.96
TIGR02880	284	cbbX_cfxQ probable Rubsico expression protein CbbX	97.95
TIGR02881	261	spore_V_K stage V sporulation protein K. Members o	97.91
PRK14953	486	DNA polymerase III subunits gamma and tau; Provisi	97.91
PRK08451	535	DNA polymerase III subunits gamma and tau; Validat	97.91
PRK14087	450	dnaA chromosomal replication initiation protein; P	97.91
PRK06305	451	DNA polymerase III subunits gamma and tau; Validat	97.89
PRK06620	214	hypothetical protein; Validated	97.89
TIGR00362	405	DnaA chromosomal replication initiator protein Dna	97.89
PRK10536	262	hypothetical protein; Provisional	97.88
PRK08181	269	transposase; Validated	97.88
PRK12422	445	chromosomal replication initiation protein; Provis	97.87
PRK07952	244	DNA replication protein DnaC; Validated	97.87
PRK08118	167	topology modulation protein; Reviewed	97.85
PRK12377	248	putative replication protein; Provisional	97.81
PRK06526	254	transposase; Provisional	97.81
PRK14948	620	DNA polymerase III subunits gamma and tau; Provisi	97.78
PRK10787	784	DNA-binding ATP-dependent protease La; Provisional	97.74
KOG0989	346	consensus Replication factor C, subunit RFC4 [Repl	97.74
PRK14086	617	dnaA chromosomal replication initiation protein; P	97.74
PRK08058	329	DNA polymerase III subunit delta'; Validated	97.74
PRK00149	450	dnaA chromosomal replication initiation protein; R	97.73
PRK10865	857	protein disaggregation chaperone; Provisional	97.72
PRK06921	266	hypothetical protein; Provisional	97.72
PRK14088	440	dnaA chromosomal replication initiation protein; P	97.72
PF01695	178	IstB_IS21: IstB-like ATP binding protein; InterPro	97.71
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	97.71
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	97.71
PRK05563	559	DNA polymerase III subunits gamma and tau; Validat	97.71
COG1373	398	Predicted ATPase (AAA+ superfamily) [General funct	97.7
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	97.7
PRK03992	389	proteasome-activating nucleotidase; Provisional	97.7
PRK09183	259	transposase/IS protein; Provisional	97.69
PRK10865	857	protein disaggregation chaperone; Provisional	97.68
PRK06647	563	DNA polymerase III subunits gamma and tau; Validat	97.68
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	97.67
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	97.67
PRK08939	306	primosomal protein DnaI; Reviewed	97.67
COG2607	287	Predicted ATPase (AAA+ superfamily) [General funct	97.67
COG3899	849	Predicted ATPase [General function prediction only	97.64
PRK07261	171	topology modulation protein; Provisional	97.64
PRK07399	314	DNA polymerase III subunit delta'; Validated	97.63
PF02562	205	PhoH: PhoH-like protein; InterPro: IPR003714 PhoH	97.62
TIGR00763	775	lon ATP-dependent protease La. This protein is ind	97.61
COG0470	325	HolB ATPase involved in DNA replication [DNA repli	97.61
COG1875	436	NYN ribonuclease and ATPase of PhoH family domains	97.6
PRK04296	190	thymidine kinase; Provisional	97.6
PRK05707	328	DNA polymerase III subunit delta'; Validated	97.6
COG0466	782	Lon ATP-dependent Lon protease, bacterial type [Po	97.58
CHL00095	821	clpC Clp protease ATP binding subunit	97.55
TIGR02237	209	recomb_radB DNA repair and recombination protein R	97.54
PRK05541	176	adenylylsulfate kinase; Provisional	97.53
PRK12608	380	transcription termination factor Rho; Provisional	97.5
PRK13695	174	putative NTPase; Provisional	97.5
smart00763	361	AAA_PrkA PrkA AAA domain. This is a family of PrkA	97.5
PRK11889	436	flhF flagellar biosynthesis regulator FlhF; Provis	97.5
COG1484	254	DnaC DNA replication protein [DNA replication, rec	97.49
PRK06835	329	DNA replication protein DnaC; Validated	97.49
PF07728	139	AAA_5: AAA domain (dynein-related subfamily); Inte	97.48
PRK09361	225	radB DNA repair and recombination protein RadB; Pr	97.48
cd01123	235	Rad51_DMC1_radA Rad51_DMC1_radA,B. This group of r	97.46
PF00910	107	RNA_helicase: RNA helicase; InterPro: IPR000605 He	97.45
COG0593	408	DnaA ATPase involved in DNA replication initiation	97.44
TIGR00602	637	rad24 checkpoint protein rad24. This family is bas	97.44
PHA00729	226	NTP-binding motif containing protein	97.42
cd01393	226	recA_like RecA is a bacterial enzyme which has rol	97.41
KOG2004	906	consensus Mitochondrial ATP-dependent protease PIM	97.4
PF08423	256	Rad51: Rad51; InterPro: IPR013632 This domain is f	97.4
TIGR02238	313	recomb_DMC1 meiotic recombinase Dmc1. This model d	97.37
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	97.37
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	97.36
cd01120	165	RecA-like_NTPases RecA-like NTPases. This family i	97.36
TIGR02640	262	gas_vesic_GvpN gas vesicle protein GvpN. Members o	97.35
cd03247	178	ABCC_cytochrome_bd The CYD subfamily implicated in	97.32
PF13207	121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	97.32
PRK12724	432	flagellar biosynthesis regulator FlhF; Provisional	97.29
COG2884	223	FtsE Predicted ATPase involved in cell division [C	97.29
cd01131	198	PilT Pilus retraction ATPase PilT. PilT is a nucle	97.28
cd01394	218	radB RadB. The archaeal protein radB shares simila	97.28
PF00448	196	SRP54: SRP54-type protein, GTPase domain; InterPro	97.24
PLN03187	344	meiotic recombination protein DMC1 homolog; Provis	97.23
cd03214	180	ABC_Iron-Siderophores_B12_Hemin ABC transporters,	97.23
TIGR03499	282	FlhF flagellar biosynthetic protein FlhF.	97.23
cd03238	176	ABC_UvrA The excision repair protein UvrA; Nucleot	97.21
COG1136	226	SalX ABC-type antimicrobial peptide transport syst	97.2
cd00983	325	recA RecA is a bacterial enzyme which has roles in	97.2
cd03223	166	ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cass	97.2
cd03228	171	ABCC_MRP_Like The MRP (Mutidrug Resistance Protein	97.19
cd03281	213	ABC_MSH5_euk MutS5 homolog in eukaryotes. The MutS	97.19
KOG1969	877	consensus DNA replication checkpoint protein CHL12	97.17
PRK06871	325	DNA polymerase III subunit delta'; Validated	97.17
cd00561	159	CobA_CobO_BtuR ATP:corrinoid adenosyltransferase B	97.17
TIGR02239	316	recomb_RAD51 DNA repair protein RAD51. This eukary	97.16
PLN03186	342	DNA repair protein RAD51 homolog; Provisional	97.15
PTZ00454	398	26S protease regulatory subunit 6B-like protein; P	97.15
COG2255	332	RuvB Holliday junction resolvasome, helicase subun	97.15
cd01133	274	F1-ATPase_beta F1 ATP synthase beta subunit, nucle	97.14
TIGR03689	512	pup_AAA proteasome ATPase. In the Actinobacteria,	97.14
PRK06696	223	uridine kinase; Validated	97.14
PRK06090	319	DNA polymerase III subunit delta'; Validated	97.13
COG2812	515	DnaX DNA polymerase III, gamma/tau subunits [DNA r	97.11
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	97.1
PRK04301	317	radA DNA repair and recombination protein RadA; Va	97.1
cd03221	144	ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is	97.09
PF13604	196	AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL	97.08
TIGR02012	321	tigrfam_recA protein RecA. This model describes or	97.08
PRK12723	388	flagellar biosynthesis regulator FlhF; Provisional	97.07
PF07693	325	KAP_NTPase: KAP family P-loop domain; InterPro: IP	97.07
PRK05703	424	flhF flagellar biosynthesis regulator FlhF; Valida	97.06
PRK06964	342	DNA polymerase III subunit delta'; Validated	97.06
PRK15455	644	PrkA family serine protein kinase; Provisional	97.06
PF13671	143	AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1	97.05
cd03222	177	ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibi	97.05
PF14532	138	Sigma54_activ_2: Sigma-54 interaction domain; PDB:	97.02
PF00158	168	Sigma54_activat: Sigma-54 interaction domain; Inte	97.01
PRK06067	234	flagellar accessory protein FlaH; Validated	97.01
PTZ00035	337	Rad51 protein; Provisional	97.01
PRK00771	437	signal recognition particle protein Srp54; Provisi	97.01
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	97.0
cd03246	173	ABCC_Protease_Secretion This family represents the	96.99
CHL00176	638	ftsH cell division protein; Validated	96.99
PRK08699	325	DNA polymerase III subunit delta'; Validated	96.99
PRK08769	319	DNA polymerase III subunit delta'; Validated	96.97
cd03216	163	ABC_Carb_Monos_I This family represents the domain	96.97
TIGR00959	428	ffh signal recognition particle protein. This mode	96.97
cd03282	204	ABC_MSH4_euk MutS4 homolog in eukaryotes. The MutS	96.96
PRK09354	349	recA recombinase A; Provisional	96.95
PRK12727	559	flagellar biosynthesis regulator FlhF; Provisional	96.95
PRK10867	433	signal recognition particle protein; Provisional	96.94
TIGR01817	534	nifA Nif-specific regulatory protein. This model r	96.91
COG4608	268	AppF ABC-type oligopeptide transport system, ATPas	96.9
PRK15429	686	formate hydrogenlyase transcriptional activator Fh	96.9
TIGR01241	495	FtsH_fam ATP-dependent metalloprotease FtsH. HflB(	96.87
COG0468	279	RecA RecA/RadA recombinase [DNA replication, recom	96.87
TIGR02236	310	recomb_radA DNA repair and recombination protein R	96.87
cd02025	220	PanK Pantothenate kinase (PanK) catalyzes the phos	96.87
cd03230	173	ABC_DR_subfamily_A This family of ATP-binding prot	96.86
PF00485	194	PRK: Phosphoribulokinase / Uridine kinase family;	96.84
PRK14974	336	cell division protein FtsY; Provisional	96.83
KOG1514	767	consensus Origin recognition complex, subunit 1, a	96.83
PRK11608	326	pspF phage shock protein operon transcriptional ac	96.82
PRK12726	407	flagellar biosynthesis regulator FlhF; Provisional	96.81
cd03115	173	SRP The signal recognition particle (SRP) mediates	96.81
PRK07667	193	uridine kinase; Provisional	96.8
PRK09270	229	nucleoside triphosphate hydrolase domain-containin	96.77
TIGR00554	290	panK_bact pantothenate kinase, bacterial type. Sho	96.76
PF07724	171	AAA_2: AAA domain (Cdc48 subfamily); InterPro: IPR	96.74
PTZ00361	438	26 proteosome regulatory subunit 4-like protein; P	96.72
cd01125	239	repA Hexameric Replicative Helicase RepA. RepA is	96.71
KOG0741	744	consensus AAA+-type ATPase [Posttranslational modi	96.71
PRK07993	334	DNA polymerase III subunit delta'; Validated	96.68
TIGR03877	237	thermo_KaiC_1 KaiC domain protein, Ph0284 family.	96.68
COG1124	252	DppF ABC-type dipeptide/oligopeptide/nickel transp	96.68
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	96.67
TIGR02858	270	spore_III_AA stage III sporulation protein AA. Mem	96.66
PRK08533	230	flagellar accessory protein FlaH; Reviewed	96.66
PRK05439	311	pantothenate kinase; Provisional	96.66
PF13238	129	AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB	96.66
cd03215	182	ABC_Carb_Monos_II This family represents domain II	96.65
PTZ00301	210	uridine kinase; Provisional	96.65
TIGR00235	207	udk uridine kinase. Model contains a number of lon	96.65
PHA02244	383	ATPase-like protein	96.65
cd03369	207	ABCC_NFT1 Domain 2 of NFT1 (New full-length MRP-ty	96.64
COG0396	251	sufC Cysteine desulfurase activator ATPase [Posttr	96.64
PRK05480	209	uridine/cytidine kinase; Provisional	96.62
PRK06731	270	flhF flagellar biosynthesis regulator FlhF; Valida	96.61
COG1121	254	ZnuC ABC-type Mn/Zn transport systems, ATPase comp	96.61
smart00534	185	MUTSac ATPase domain of DNA mismatch repair MUTS f	96.61
TIGR02974	329	phageshock_pspF psp operon transcriptional activat	96.6
PRK05022	509	anaerobic nitric oxide reductase transcription reg	96.59
PRK05917	290	DNA polymerase III subunit delta'; Validated	96.59
PRK04132	846	replication factor C small subunit; Provisional	96.57
PRK08233	182	hypothetical protein; Provisional	96.57
PRK14721	420	flhF flagellar biosynthesis regulator FlhF; Provis	96.55
cd03240	204	ABC_Rad50 The catalytic domains of Rad50 are simil	96.55
PF12775	272	AAA_7: P-loop containing dynein motor region D3; P	96.54
COG0572	218	Udk Uridine kinase [Nucleotide transport and metab	96.53
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	96.53
cd03235	213	ABC_Metallic_Cations ABC component of the metal-ty	96.53
KOG1532	366	consensus GTPase XAB1, interacts with DNA repair p	96.53
TIGR03881	229	KaiC_arch_4 KaiC domain protein, PAE1156 family. M	96.53
cd00984	242	DnaB_C DnaB helicase C terminal domain. The hexame	96.52
PF12061	402	DUF3542: Protein of unknown function (DUF3542); In	96.51
KOG2228	408	consensus Origin recognition complex, subunit 4 [R	96.51
COG1618	179	Predicted nucleotide kinase [Nucleotide transport	96.51
PRK00889	175	adenylylsulfate kinase; Provisional	96.5
TIGR00064	272	ftsY signal recognition particle-docking protein F	96.49
PLN00020	413	ribulose bisphosphate carboxylase/oxygenase activa	96.49
TIGR01425	429	SRP54_euk signal recognition particle protein SRP5	96.49
cd01122	271	GP4d_helicase GP4d_helicase is a homohexameric 5'-	96.49
PRK06995	484	flhF flagellar biosynthesis regulator FlhF; Valida	96.49
PTZ00088	229	adenylate kinase 1; Provisional	96.47
cd03229	178	ABC_Class3 This class is comprised of all BPD (Bin	96.47
cd03244	221	ABCC_MRP_domain2 Domain 2 of the ABC subfamily C.	96.47
PRK13539	207	cytochrome c biogenesis protein CcmA; Provisional	96.46
cd03263	220	ABC_subfamily_A The ABCA subfamily mediates the tr	96.46
PF00154	322	RecA: recA bacterial DNA recombination protein; In	96.46
PRK14723	767	flhF flagellar biosynthesis regulator FlhF; Provis	96.45
COG0563	178	Adk Adenylate kinase and related kinases [Nucleoti	96.45
COG4618	580	ArpD ABC-type protease/lipase transport system, AT	96.45
cd03213	194	ABCG_EPDR ABCG transporters are involved in eye pi	96.45
cd03283	199	ABC_MutS-like MutS-like homolog in eukaryotes. The	96.44
PF03205	140	MobB: Molybdopterin guanine dinucleotide synthesis	96.43
PRK09519	790	recA DNA recombination protein RecA; Reviewed	96.43
KOG0735	952	consensus AAA+-type ATPase [Posttranslational modi	96.42
TIGR00708	173	cobA cob(I)alamin adenosyltransferase. Alternate n	96.41
PRK06762	166	hypothetical protein; Provisional	96.4
cd00267	157	ABC_ATPase ABC (ATP-binding cassette) transporter	96.4
cd03254	229	ABCC_Glucan_exporter_like Glucan exporter ATP-bind	96.39
PRK09544	251	znuC high-affinity zinc transporter ATPase; Review	96.38
PRK04328	249	hypothetical protein; Provisional	96.36
TIGR03878	259	thermo_KaiC_2 KaiC domain protein, AF_0795 family.	96.36
PF08298	358	AAA_PrkA: PrkA AAA domain; InterPro: IPR013153 Thi	96.36
cd03232	192	ABC_PDR_domain2 The pleiotropic drug resistance-li	96.36
cd02019	69	NK Nucleoside/nucleotide kinase (NK) is a protein	96.35
PF03969	362	AFG1_ATPase: AFG1-like ATPase; InterPro: IPR005654	96.35
cd03217	200	ABC_FeS_Assembly ABC-type transport system involve	96.35
cd03243	202	ABC_MutS_homologs The MutS protein initiates DNA m	96.34
cd01121	372	Sms Sms (bacterial radA) DNA repair protein. This	96.33
cd02027	149	APSK Adenosine 5'-phosphosulfate kinase (APSK) cat	96.33
cd03264	211	ABC_drug_resistance_like ABC-type multidrug transp	96.31
cd03251	234	ABCC_MsbA MsbA is an essential ABC transporter, cl	96.31
cd02028	179	UMPK_like Uridine monophosphate kinase_like (UMPK_	96.31
KOG2170	344	consensus ATPase of the AAA+ superfamily [General	96.3
TIGR01420	343	pilT_fam pilus retraction protein PilT. This model	96.28
cd03253	236	ABCC_ATM1_transporter ATM1 is an ABC transporter t	96.28
cd03298	211	ABC_ThiQ_thiamine_transporter ABC-type thiamine tr	96.27
KOG0991	333	consensus Replication factor C, subunit RFC2 [Repl	96.26
COG1102	179	Cmk Cytidylate kinase [Nucleotide transport and me	96.26
TIGR03740	223	galliderm_ABC gallidermin-class lantibiotic protec	96.25
PRK03839	180	putative kinase; Provisional	96.25
TIGR01360	188	aden_kin_iso1 adenylate kinase, isozyme 1 subfamil	96.25
KOG0924	1042	consensus mRNA splicing factor ATP-dependent RNA h	96.25
PRK06547	172	hypothetical protein; Provisional	96.24
KOG0734	752	consensus AAA+-type ATPase containing the peptidas	96.23
cd03237	246	ABC_RNaseL_inhibitor_domain2 The ATPase domain 2 o	96.22
PF14516	331	AAA_35: AAA-like domain	96.22
KOG1051	898	consensus Chaperone HSP104 and related ATP-depende	96.22
PF03308	266	ArgK: ArgK protein; InterPro: IPR005129 Bacterial	96.22
cd03245	220	ABCC_bacteriocin_exporters ABC-type bacteriocin ex	96.22
PF05659	147	RPW8: Arabidopsis broad-spectrum mildew resistance	96.21
PRK15056	272	manganese/iron transporter ATP-binding protein; Pr	96.2
TIGR03522	301	GldA_ABC_ATP gliding motility-associated ABC trans	96.19
PRK13531	498	regulatory ATPase RavA; Provisional	96.17
KOG0744	423	consensus AAA+-type ATPase [Posttranslational modi	96.16
PRK04040	188	adenylate kinase; Provisional	96.14
PF13481	193	AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.	96.13
PRK06002	450	fliI flagellum-specific ATP synthase; Validated	96.13
TIGR00150	133	HI0065_YjeE ATPase, YjeE family. Members of this f	96.13
PRK13543	214	cytochrome c biogenesis protein CcmA; Provisional	96.12
cd03249	238	ABC_MTABC3_MDL1_MDL2 MTABC3 (also known as ABCB6)	96.11
COG3903	414	Predicted ATPase [General function prediction only	96.1
PRK13647	274	cbiO cobalt transporter ATP-binding subunit; Provi	96.1
cd03280	200	ABC_MutS2 MutS2 homologs in bacteria and eukaryote	96.09
cd02023	198	UMPK Uridine monophosphate kinase (UMPK, EC 2.7.1.	96.09
cd03236	255	ABC_RNaseL_inhibitor_domain1 The ATPase domain 1 o	96.08
PRK07132	299	DNA polymerase III subunit delta'; Validated	96.08
TIGR03771	223	anch_rpt_ABC anchored repeat-type ABC transporter,	96.08
TIGR00382	413	clpX endopeptidase Clp ATP-binding regulatory subu	96.07
PRK11823	446	DNA repair protein RadA; Provisional	96.07
COG1419	407	FlhF Flagellar GTP-binding protein [Cell motility	96.06
PF00006	215	ATP-synt_ab: ATP synthase alpha/beta family, nucle	96.06
PRK09580	248	sufC cysteine desulfurase ATPase component; Review	96.05
COG1703	323	ArgK Putative periplasmic protein kinase ArgK and	96.03
PF13479	213	AAA_24: AAA domain	96.03
PF08433	270	KTI12: Chromatin associated protein KTI12 ; InterP	96.02
PRK00625	173	shikimate kinase; Provisional	96.01
PRK12597	461	F0F1 ATP synthase subunit beta; Provisional	96.01
COG3267	269	ExeA Type II secretory pathway, component ExeA (pr	96.0
PRK00131	175	aroK shikimate kinase; Reviewed	95.98
PRK10820	520	DNA-binding transcriptional regulator TyrR; Provis	95.97
cd03285	222	ABC_MSH2_euk MutS2 homolog in eukaryotes. The MutS	95.95
TIGR02322	179	phosphon_PhnN phosphonate metabolism protein/1,5-b	95.94
cd03250	204	ABCC_MRP_domain1 Domain 1 of the ABC subfamily C.	95.93
PRK10875	615	recD exonuclease V subunit alpha; Provisional	95.92
PRK10751	173	molybdopterin-guanine dinucleotide biosynthesis pr	95.92
TIGR01359	183	UMP_CMP_kin_fam UMP-CMP kinase family. This subfam	95.92
COG1066	456	Sms Predicted ATP-dependent serine protease [Postt	95.92
TIGR03574	249	selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal. Mem	95.91
PHA02774	613	E1; Provisional	95.9
cd03287	222	ABC_MSH3_euk MutS3 homolog in eukaryotes. The MutS	95.9
PRK09280	463	F0F1 ATP synthase subunit beta; Validated	95.9
TIGR03263	180	guanyl_kin guanylate kinase. Members of this famil	95.89
PF01583	156	APS_kinase: Adenylylsulphate kinase; InterPro: IPR	95.88
COG0488	530	Uup ATPase components of ABC transporters with dup	95.87
COG1222	406	RPT1 ATP-dependent 26S proteasome regulatory subun	95.87
PRK13537	306	nodulation ABC transporter NodI; Provisional	95.87
PRK07594	433	type III secretion system ATPase SsaN; Validated	95.87
PF06745	226	KaiC: KaiC; InterPro: IPR014774 This entry represe	95.84
COG1120	258	FepC ABC-type cobalamin/Fe3+-siderophores transpor	95.84
PF02463	220	SMC_N: RecF/RecN/SMC N terminal domain; InterPro:	95.84
cd01135	276	V_A-ATPase_B V/A-type ATP synthase (non-catalytic)	95.82
cd02024	187	NRK1 Nicotinamide riboside kinase (NRK) is an enzy	95.82
COG0467	260	RAD55 RecA-superfamily ATPases implicated in signa	95.81
PTZ00185	574	ATPase alpha subunit; Provisional	95.81
PRK15064	530	ABC transporter ATP-binding protein; Provisional	95.8
PRK05922	434	type III secretion system ATPase; Validated	95.79
PRK05986	191	cob(I)alamin adenolsyltransferase/cobinamide ATP-d	95.79
cd01129	264	PulE-GspE PulE/GspE The type II secretory pathway	95.78
cd03227	162	ABC_Class2 ABC-type Class 2 contains systems invol	95.78
PRK10416	318	signal recognition particle-docking protein FtsY;	95.78
PRK14738	206	gmk guanylate kinase; Provisional	95.78
TIGR00390	441	hslU ATP-dependent protease HslVU, ATPase subunit.	95.77
cd02021	150	GntK Gluconate kinase (GntK) catalyzes the phospho	95.77
PRK08972	444	fliI flagellum-specific ATP synthase; Validated	95.76
PF07726	131	AAA_3: ATPase family associated with various cellu	95.76
TIGR02314	343	ABC_MetN D-methionine ABC transporter, ATP-binding	95.76
PF08477	119	Miro: Miro-like protein; InterPro: IPR013684 Mitoc	95.75
COG1126	240	GlnQ ABC-type polar amino acid transport system, A	95.74
PRK03846	198	adenylylsulfate kinase; Provisional	95.74
cd04159	159	Arl10_like Arl10-like subfamily. Arl9/Arl10 was id	95.74
cd02020	147	CMPK Cytidine monophosphate kinase (CMPK) catalyze	95.74
PRK13545	549	tagH teichoic acids export protein ATP-binding sub	95.73
PRK08149	428	ATP synthase SpaL; Validated	95.72
PRK12678	672	transcription termination factor Rho; Provisional	95.71
PRK00300	205	gmk guanylate kinase; Provisional	95.71
cd00227	175	CPT Chloramphenicol (Cm) phosphotransferase (CPT).	95.71
TIGR03498	418	FliI_clade3 flagellar protein export ATPase FliI.	95.71
PRK00279	215	adk adenylate kinase; Reviewed	95.71
cd03289	275	ABCC_CFTR2 The CFTR subfamily domain 2. The cystic	95.7
PRK06217	183	hypothetical protein; Validated	95.69
TIGR03880	224	KaiC_arch_3 KaiC domain protein, AF_0351 family. T	95.68
TIGR01447	586	recD exodeoxyribonuclease V, alpha subunit. This f	95.66
PRK13949	169	shikimate kinase; Provisional	95.65
smart00487	201	DEXDc DEAD-like helicases superfamily.	95.64
) proteins. It has been suggested that torsins play a role in effectively managing protein folding and that possible breakdown in a neuroprotective mechanism that is, in part, mediated by torsins may be responsible for the neuronal dysfunction associated with dystonia [].; GO: 0005524 ATP binding, 0051085 chaperone mediated protein folding requiring cofactor" target="_blank" href="http://www.ncbi.nlm.nih.gov/Structure/cdd/cddsrv.cgi?uid=PF06309">PF06309	127	Torsin: Torsin; InterPro: IPR010448 This family co	95.64
TIGR03575	340	selen_PSTK_euk L-seryl-tRNA(Sec) kinase, eukaryoti	95.63
PRK11388	638	DNA-binding transcriptional regulator DhaR; Provis	95.62
CHL00195	489	ycf46 Ycf46; Provisional	95.62
cd00544	169	CobU Adenosylcobinamide kinase / adenosylcobinamid	95.62
cd01132	274	F1_ATPase_alpha F1 ATP synthase alpha, central dom	95.62
cd01136	326	ATPase_flagellum-secretory_path_III Flagellum-spec	95.61
COG1936	180	Predicted nucleotide kinase (related to CMP and AM	95.6
TIGR02655	484	circ_KaiC circadian clock protein KaiC. Members of	95.59
PRK10463	290	hydrogenase nickel incorporation protein HypB; Pro	95.59
PRK08927	442	fliI flagellum-specific ATP synthase; Validated	95.59
PRK15115	444	response regulator GlrR; Provisional	95.59
COG0194	191	Gmk Guanylate kinase [Nucleotide transport and met	95.56
PRK13947	171	shikimate kinase; Provisional	95.56
COG0541	451	Ffh Signal recognition particle GTPase [Intracellu	95.55
COG2401	593	ABC-type ATPase fused to a predicted acetyltransfe	95.55
PRK14530	215	adenylate kinase; Provisional	95.55
PRK14264	305	phosphate ABC transporter ATP-binding protein; Pro	95.54
TIGR00041	195	DTMP_kinase thymidylate kinase. Function: phosphor	95.53
PRK15453	290	phosphoribulokinase; Provisional	95.53
cd00046	144	DEXDc DEAD-like helicases superfamily. A diverse f	95.52
COG1428	216	Deoxynucleoside kinases [Nucleotide transport and	95.52
PRK13657	588	cyclic beta-1,2-glucan ABC transporter; Provisiona	95.52
PRK10078	186	ribose 1,5-bisphosphokinase; Provisional	95.51
COG2274	709	SunT ABC-type bacteriocin/lantibiotic exporters, c	95.51
PRK05201	443	hslU ATP-dependent protease ATP-binding subunit Hs	95.51
COG1131	293	CcmA ABC-type multidrug transport system, ATPase c	95.5
PF00625	183	Guanylate_kin: Guanylate kinase; InterPro: IPR0081	95.49
cd00071	137	GMPK Guanosine monophosphate kinase (GMPK, EC 2.7.	95.49
cd00464	154	SK Shikimate kinase (SK) is the fifth enzyme in th	95.48
PRK13409	590	putative ATPase RIL; Provisional	95.48
PRK14527	191	adenylate kinase; Provisional	95.48
PF06414	199	Zeta_toxin: Zeta toxin; InterPro: IPR010488 This e	95.47
TIGR02524	358	dot_icm_DotB Dot/Icm secretion system ATPase DotB.	95.46
TIGR00416	454	sms DNA repair protein RadA. The gene protuct code	95.46
PRK15439	510	autoinducer 2 ABC transporter ATP-binding protein	95.46
TIGR02857	529	CydD thiol reductant ABC exporter, CydD subunit. U	95.45
TIGR03375	694	type_I_sec_LssB type I secretion system ATPase, Ls	95.45
TIGR00176	155	mobB molybdopterin-guanine dinucleotide biosynthes	95.45
TIGR01069	771	mutS2 MutS2 family protein. Function of MutS2 is u	95.44
PF03193	161	DUF258: Protein of unknown function, DUF258; Inter	95.43
PLN02348	395	phosphoribulokinase	95.41
TIGR02868	529	CydC thiol reductant ABC exporter, CydC subunit. T	95.4
PRK05800	170	cobU adenosylcobinamide kinase/adenosylcobinamide-	95.39
PF03266	168	NTPase_1: NTPase; InterPro: IPR004948 This entry r	95.38
TIGR03305	449	alt_F1F0_F1_bet alternate F1F0 ATPase, F1 subunit	95.38
TIGR00073	207	hypB hydrogenase accessory protein HypB. HypB is i	95.37
cd01672	200	TMPK Thymidine monophosphate kinase (TMPK), also k	95.37
TIGR01313	163	therm_gnt_kin carbohydrate kinase, thermoresistant	95.37
PRK11650	356	ugpC glycerol-3-phosphate transporter ATP-binding	95.37
PRK11160	574	cysteine/glutathione ABC transporter membrane/ATP-	95.36
PRK13975	196	thymidylate kinase; Provisional	95.35
cd02029	277	PRK_like Phosphoribulokinase-like (PRK-like) is a	95.35
COG2019	189	AdkA Archaeal adenylate kinase [Nucleotide transpo	95.35
PRK12339	197	2-phosphoglycerate kinase; Provisional	95.33
PRK14737	186	gmk guanylate kinase; Provisional	95.33
CHL00081	350	chlI Mg-protoporyphyrin IX chelatase	95.3
PLN02796	347	D-glycerate 3-kinase	95.3
TIGR02329	526	propionate_PrpR propionate catabolism operon regul	95.3
PRK05057	172	aroK shikimate kinase I; Reviewed	95.29
PRK09099	441	type III secretion system ATPase; Provisional	95.29
PRK15424	538	propionate catabolism operon regulatory protein Pr	95.27
COG1223	368	Predicted ATPase (AAA+ superfamily) [General funct	95.27
PRK11147	635	ABC transporter ATPase component; Reviewed	95.27
PRK11176	582	lipid transporter ATP-binding/permease protein; Pr	95.27
PF00005	137	ABC_tran: ABC transporter This structure is on hol	95.27
cd00820	107	PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPC	95.26
PF13245	76	AAA_19: Part of AAA domain	95.25
PRK05973	237	replicative DNA helicase; Provisional	95.24
PRK11174	588	cysteine/glutathione ABC transporter membrane/ATP-	95.23
TIGR01192	585	chvA glucan exporter ATP-binding protein. This mod	95.23
TIGR02768	744	TraA_Ti Ti-type conjugative transfer relaxase TraA	95.22
PRK10923	469	glnG nitrogen regulation protein NR(I); Provisiona	95.21
TIGR02030	337	BchI-ChlI magnesium chelatase ATPase subunit I. Th	95.21
PRK05688	451	fliI flagellum-specific ATP synthase; Validated	95.2
PLN02200	234	adenylate kinase family protein	95.2
TIGR03258	362	PhnT 2-aminoethylphosphonate ABC transport system,	95.19
PRK13765	637	ATP-dependent protease Lon; Provisional	95.17
PRK06793	432	fliI flagellum-specific ATP synthase; Validated	95.17
TIGR02788	308	VirB11 P-type DNA transfer ATPase VirB11. The VirB	95.15
PF13521	163	AAA_28: AAA domain; PDB: 1LW7_A.	95.15
PRK14257	329	phosphate ABC transporter ATP-binding protein; Pro	95.15
PF13086	236	AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV	95.15
PRK11432	351	fbpC ferric transporter ATP-binding subunit; Provi	95.14
cd03284	216	ABC_MutS1 MutS1 homolog in eukaryotes. The MutS pr	95.13
PF00025	175	Arf: ADP-ribosylation factor family The prints ent	95.13

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=100.00  E-value=9.8e-39  Score=321.58  Aligned_cols=314  Identities=25%  Similarity=0.406  Sum_probs=244.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhCcHHHHHHHHHHHHHHHHHHHHHHhchhcCChHHHHHHHHHHHhhhcchHHHH
Q 036619            3 HAIVSSLLDQLNSIAQDQVKGKWRLVTGVEQEVGKLTTNLQAIQAVLEDAEQRQMKQDKAVTFWLDQLIDASYDMEDVLE   82 (352)
Q Consensus         3 ~~~vs~~~~kl~~~l~~~~~~e~~~~~~v~~~~~~L~~~L~~i~~~l~~ae~~~~~~~~~~~~Wl~~lr~~ayd~eD~lD   82 (352)
                      ++.++..++++...    +.++...+.+.++.+..|+.+|..+++++++++.++.. ...+..|...+++++|++||.++
T Consensus         2 ~~~~s~~~~~~~~~----l~~~~~~~~~~~~~i~~Lk~~L~~l~~~l~d~~a~~~~-~~~~~~~~e~~~~~~~~~e~~~~   76 (889)
T KOG4658|consen    2 GACVSFGVEKLDQL----LNRESECLDGKDNYILELKENLKALQSALEDLDAKRDD-LERRVNWEEDVGDLVYLAEDIIW   76 (889)
T ss_pred             CeEEEEehhhHHHH----HHHHHHHHhchHHHHHHHHHHHHHHHHHHHHHHhhcch-HHHHHHHHHHHHHHHHHHHHHHH
Confidence            45566667777776    67788889999999999999999999999999999887 88999999999999999999999


Q ss_pred             HHHHHHHHhhhhcCCCCCCCCCcccccccccceecccCCCccccCCCCcccchHhHHHHHHHHHHHHHHHHhhhhccCcc
Q 036619           83 EWITETRKLQLDEGGDDDDDDNVGAFVTFLTKVCFFFPAASNCFGGFKQLSLRHDIAVKIREISEKLDDIARQKDSFKLV  162 (352)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~i~~~i~~i~~~l~~i~~~~~~~~~~  162 (352)
                      .|.......+..+.-..        .....++.|.              ...+++.+..+..+..++..+....+.++..
T Consensus        77 ~~~v~~~~~~~~~~l~~--------~~~~~~~~c~--------------~~~~~~~~~~~~~~~~rv~~~l~~ve~l~~~  134 (889)
T KOG4658|consen   77 LFLVEEIERKANDLLST--------RSVERQRLCL--------------CGFCSKNVSDSYKYGKRVSKVLREVESLGSK  134 (889)
T ss_pred             HHHHHHHHHHHhHHhhh--------hHHHHHHHhh--------------hhhHhHhhhhhHhHHHHHHHHHHHHHHhccc
Confidence            99876654433211000        0000111111              0234555556666666666655555555443


Q ss_pred             ccccCCc---CCCCcccccccccCCccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhh-hh
Q 036619          163 ENVSNNV---KKPERVRTTSLIDEGEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDE-VK  238 (352)
Q Consensus       163 ~~~~~~~---~~~~~~~~~~~~~~~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~-~~  238 (352)
                      .......   .+.......+...... ||.+..++++.+.|..++      ..+++|+||||+||||||+.++|+.. +.
T Consensus       135 ~~~~~~~~~~~~~~~~e~~~~~~~~~-VG~e~~~~kl~~~L~~d~------~~iv~i~GMGGvGKTTL~~qi~N~~~~v~  207 (889)
T KOG4658|consen  135 GVFEVVGESLDPREKVETRPIQSESD-VGLETMLEKLWNRLMEDD------VGIVGIYGMGGVGKTTLARQIFNKFDEVG  207 (889)
T ss_pred             cceecccccccchhhcccCCCCcccc-ccHHHHHHHHHHHhccCC------CCEEEEECCCcccHHHHHHHHhcccchhc
Confidence            3211111   1111222333333344 999999999999999865      38999999999999999999999987 99


Q ss_pred             ccCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCccc--HHHHHHHHHHhcCCceEEEEecCCCCCCccChhHHHHhhcc
Q 036619          239 RNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSASGLNE--FQSLMSRIQSSIKGKKNFLVLDDVWDGDYNKWQPFFRCLKN  316 (352)
Q Consensus       239 ~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~--~~~~~~~l~~~l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~  316 (352)
                      .+|+.++||+||+.|+...++.+|++.++.......+  .++++..|.+.|+.|||||||||||+.  .+|+.+..++|.
T Consensus       208 ~~Fd~~iWV~VSk~f~~~~iq~~Il~~l~~~~~~~~~~~~~~~~~~i~~~L~~krfllvLDDIW~~--~dw~~I~~~~p~  285 (889)
T KOG4658|consen  208 NHFDGVIWVVVSKEFTTRKIQQTILERLGLLDEEWEDKEEDELASKLLNLLEGKRFLLVLDDIWEE--VDWDKIGVPFPS  285 (889)
T ss_pred             ccCceEEEEEEcccccHHhHHHHHHHHhccCCcccchhhHHHHHHHHHHHhccCceEEEEeccccc--ccHHhcCCCCCC
Confidence            9999999999999999999999999999885543333  478899999999999999999999998  679999999999


Q ss_pred             CCCCcEEEEecCChHHHHH-hCCCCeeeCCCCCCCcC
Q 036619          317 GLHGSKILVTTRNESVARM-MGSTDIISIEQLAEEEC  352 (352)
Q Consensus       317 ~~~gs~IivTTR~~~va~~-~~~~~~~~l~~L~~~es  352 (352)
                      ..+||+|++|||++.||.. +++...+++.+|+++||
T Consensus       286 ~~~g~KvvlTTRs~~V~~~~m~~~~~~~v~~L~~~ea  322 (889)
T KOG4658|consen  286 RENGSKVVLTTRSEEVCGRAMGVDYPIEVECLTPEEA  322 (889)
T ss_pred             ccCCeEEEEEeccHhhhhccccCCccccccccCcccc
Confidence            9899999999999999998 88889999999999987

>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=99.95  E-value=4.4e-28  Score=219.55  Aligned_cols=158  Identities=39%  Similarity=0.594  Sum_probs=129.1

Q ss_pred             ccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCC
Q 036619          189 RVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGK  268 (352)
Q Consensus       189 r~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~  268 (352)
                      |+.++++|.+.|....    .+.++|+|+||||+||||||..+|++..++.+|+.++|++++...+...++..|+.+++.
T Consensus         1 re~~~~~l~~~L~~~~----~~~~~v~I~G~~G~GKT~LA~~~~~~~~~~~~f~~v~wv~~~~~~~~~~~~~~i~~~l~~   76 (287)
T PF00931_consen    1 REKEIEKLKDWLLDNS----NEVRVVAIVGMGGIGKTTLARQVARDLRIKNRFDGVIWVSLSKNPSLEQLLEQILRQLGE   76 (287)
T ss_dssp             -HHHHHHHHHHHHTTT----TSSEEEEEEESTTSSHHHHHHHHHCHHHHCCCCTEEEEEEEES-SCCHHHHHHHHHHHTC
T ss_pred             CHHHHHHHHHHhhCCC----CCeEEEEEEcCCcCCcceeeeecccccccccccccccccccccccccccccccccccccc
Confidence            6889999999998855    568999999999999999999999987889999999999999999999999999999988


Q ss_pred             CCC---CcccHHHHHHHHHHhcCCceEEEEecCCCCCCccChhHHHHhhccCCCCcEEEEecCChHHHHHhCC-CCeeeC
Q 036619          269 SAS---GLNEFQSLMSRIQSSIKGKKNFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKILVTTRNESVARMMGS-TDIISI  344 (352)
Q Consensus       269 ~~~---~~~~~~~~~~~l~~~l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTTR~~~va~~~~~-~~~~~l  344 (352)
                      ...   ...+.+.+...+.+.|.+++|||||||||+.  ..|+.+...++....||+||||||+..++..++. ...|+|
T Consensus        77 ~~~~~~~~~~~~~~~~~l~~~L~~~~~LlVlDdv~~~--~~~~~l~~~~~~~~~~~kilvTTR~~~v~~~~~~~~~~~~l  154 (287)
T PF00931_consen   77 PDSSISDPKDIEELQDQLRELLKDKRCLLVLDDVWDE--EDLEELREPLPSFSSGSKILVTTRDRSVAGSLGGTDKVIEL  154 (287)
T ss_dssp             C-STSSCCSSHHHHHHHHHHHHCCTSEEEEEEEE-SH--HHH-------HCHHSS-EEEEEESCGGGGTTHHSCEEEEEC
T ss_pred             cccccccccccccccccchhhhccccceeeeeeeccc--ccccccccccccccccccccccccccccccccccccccccc
Confidence            743   4566778999999999999999999999987  5788888888877789999999999999887655 778999


Q ss_pred             CCCCCCcC
Q 036619          345 EQLAEEEC  352 (352)
Q Consensus       345 ~~L~~~es  352 (352)
                      ++|+++||
T Consensus       155 ~~L~~~ea  162 (287)
T PF00931_consen  155 EPLSEEEA  162 (287)
T ss_dssp             SS--HHHH
T ss_pred             cccccccc
Confidence            99998764

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=99.84  E-value=2.3e-20  Score=197.17  Aligned_cols=159  Identities=21%  Similarity=0.356  Sum_probs=120.9

Q ss_pred             cCCccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEe---CCC------
Q 036619          182 DEGEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCV---SDT------  252 (352)
Q Consensus       182 ~~~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~v---s~~------  252 (352)
                      +...++|++..++++..+|....    ..+++++||||||+||||||+.+|+  ++..+|+..+|+..   +..      
T Consensus       182 ~~~~~vG~~~~l~~l~~lL~l~~----~~~~vvgI~G~gGiGKTTLA~~l~~--~l~~~F~g~vfv~~~~v~~~~~~~~~  255 (1153)
T PLN03210        182 DFEDFVGIEDHIAKMSSLLHLES----EEVRMVGIWGSSGIGKTTIARALFS--RLSRQFQSSVFIDRAFISKSMEIYSS  255 (1153)
T ss_pred             ccccccchHHHHHHHHHHHcccc----CceEEEEEEcCCCCchHHHHHHHHH--HHhhcCCeEEEeeccccccchhhccc
Confidence            44679999999999998885433    5689999999999999999999998  57788998888742   111      


Q ss_pred             -----CC-HHHHHHHHHHHhCCCCC-CcccHHHHHHHHHHhcCCceEEEEecCCCCCCccChhHHHHhhccCCCCcEEEE
Q 036619          253 -----FD-QIRIAKAIIEGLGKSAS-GLNEFQSLMSRIQSSIKGKKNFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKILV  325 (352)
Q Consensus       253 -----~~-~~~~~~~i~~~l~~~~~-~~~~~~~~~~~l~~~l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~Iiv  325 (352)
                           ++ ...+..+++..+..... ....    ...+++.|.++|+||||||||+.  ..|+.+.......++||+|||
T Consensus       256 ~~~~~~~~~~~l~~~~l~~il~~~~~~~~~----~~~~~~~L~~krvLLVLDdv~~~--~~l~~L~~~~~~~~~GsrIIi  329 (1153)
T PLN03210        256 ANPDDYNMKLHLQRAFLSEILDKKDIKIYH----LGAMEERLKHRKVLIFIDDLDDQ--DVLDALAGQTQWFGSGSRIIV  329 (1153)
T ss_pred             ccccccchhHHHHHHHHHHHhCCCCcccCC----HHHHHHHHhCCeEEEEEeCCCCH--HHHHHHHhhCccCCCCcEEEE
Confidence                 11 12344455554433211 1111    24577889999999999999886  578888776666678999999


Q ss_pred             ecCChHHHHHhCCCCeeeCCCCCCCcC
Q 036619          326 TTRNESVARMMGSTDIISIEQLAEEEC  352 (352)
Q Consensus       326 TTR~~~va~~~~~~~~~~l~~L~~~es  352 (352)
                      |||+..++..++..++|++..|+++||
T Consensus       330 TTrd~~vl~~~~~~~~~~v~~l~~~ea  356 (1153)
T PLN03210        330 ITKDKHFLRAHGIDHIYEVCLPSNELA  356 (1153)
T ss_pred             EeCcHHHHHhcCCCeEEEecCCCHHHH
Confidence            999999998888888999999998765

syringae 6; Provisional

>PRK00411 cdc6 cell division control protein 6; Reviewed

Probab=99.23  E-value=1.7e-10  Score=109.29  Aligned_cols=168  Identities=15%  Similarity=0.124  Sum_probs=106.9

Q ss_pred             cCCccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHH
Q 036619          182 DEGEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKA  261 (352)
Q Consensus       182 ~~~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~  261 (352)
                      .+..++||++++++|...|...-.+  .....+.|+|++|+|||++++.++++.......-..+++++....+...++..
T Consensus        28 ~P~~l~~Re~e~~~l~~~l~~~~~~--~~~~~~lI~G~~GtGKT~l~~~v~~~l~~~~~~~~~v~in~~~~~~~~~~~~~  105 (394)
T PRK00411         28 VPENLPHREEQIEELAFALRPALRG--SRPLNVLIYGPPGTGKTTTVKKVFEELEEIAVKVVYVYINCQIDRTRYAIFSE  105 (394)
T ss_pred             cCCCCCCHHHHHHHHHHHHHHHhCC--CCCCeEEEECCCCCCHHHHHHHHHHHHHHhcCCcEEEEEECCcCCCHHHHHHH
Confidence            3467999999999999988543211  23455779999999999999999986433332345677777777788899999


Q ss_pred             HHHHhCCCC--CCcccHHHHHHHHHHhcC--CceEEEEecCCCCCC-ccChhHHHHhhc--cCCCCcE--EEEecCChHH
Q 036619          262 IIEGLGKSA--SGLNEFQSLMSRIQSSIK--GKKNFLVLDDVWDGD-YNKWQPFFRCLK--NGLHGSK--ILVTTRNESV  332 (352)
Q Consensus       262 i~~~l~~~~--~~~~~~~~~~~~l~~~l~--~kr~LlVlDdvw~~~-~~~~~~l~~~l~--~~~~gs~--IivTTR~~~v  332 (352)
                      |+.++....  ....+.+++...+.+.+.  ++..+||||+++.-. ....+.+...+.  ....+++  ||.++....+
T Consensus       106 i~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~viviDE~d~l~~~~~~~~l~~l~~~~~~~~~~~v~vI~i~~~~~~  185 (394)
T PRK00411        106 IARQLFGHPPPSSGLSFDELFDKIAEYLDERDRVLIVALDDINYLFEKEGNDVLYSLLRAHEEYPGARIGVIGISSDLTF  185 (394)
T ss_pred             HHHHhcCCCCCCCCCCHHHHHHHHHHHHHhcCCEEEEEECCHhHhhccCCchHHHHHHHhhhccCCCeEEEEEEECCcch
Confidence            999987632  223345667777777764  456899999997642 112223333222  1122333  5666555443


Q ss_pred             HHHhC-------CCCeeeCCCCCCCc
Q 036619          333 ARMMG-------STDIISIEQLAEEE  351 (352)
Q Consensus       333 a~~~~-------~~~~~~l~~L~~~e  351 (352)
                      ...+.       ....+.+.+++.++
T Consensus       186 ~~~l~~~~~s~~~~~~i~f~py~~~e  211 (394)
T PRK00411        186 LYILDPRVKSVFRPEEIYFPPYTADE  211 (394)
T ss_pred             hhhcCHHHHhcCCcceeecCCCCHHH
Confidence            33221       12456788877653

>PF05729 NACHT: NACHT domain

Probab=99.21  E-value=1e-10  Score=96.56  Aligned_cols=134  Identities=22%  Similarity=0.313  Sum_probs=83.5

Q ss_pred             EEEEEEecCCCcHHHHHHHHHhhhhhhcc----CCeEEEEEeCCCCCHH---HHHHHHHHHhCCCCCCcccHHHHHHHHH
Q 036619          212 QVISLVGLGGIGKTTLAQLAYNNDEVKRN----FEKVIWVCVSDTFDQI---RIAKAIIEGLGKSASGLNEFQSLMSRIQ  284 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~----F~~~~wv~vs~~~~~~---~~~~~i~~~l~~~~~~~~~~~~~~~~l~  284 (352)
                      +++.|+|.+|+||||+++.++..-.....    +...+|++........   .+...|..+.......   ...   .+.
T Consensus         1 r~l~I~G~~G~GKStll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~---~~~---~~~   74 (166)
T PF05729_consen    1 RVLWISGEPGSGKSTLLRKLAQQLAEEEPPPSKFPYPFFFSLRDISDSNNSRSLADLLFDQLPESIAP---IEE---LLQ   74 (166)
T ss_pred             CEEEEECCCCCChHHHHHHHHHHHHhcCcccccceEEEEEeehhhhhccccchHHHHHHHhhccchhh---hHH---HHH
Confidence            47889999999999999999886433332    4567777766544332   3333343333322111   111   222


Q ss_pred             Hh-cCCceEEEEecCCCCCCcc-------ChhH-HHHhhcc-CCCCcEEEEecCChHH---HHHhCCCCeeeCCCCCCCc
Q 036619          285 SS-IKGKKNFLVLDDVWDGDYN-------KWQP-FFRCLKN-GLHGSKILVTTRNESV---ARMMGSTDIISIEQLAEEE  351 (352)
Q Consensus       285 ~~-l~~kr~LlVlDdvw~~~~~-------~~~~-l~~~l~~-~~~gs~IivTTR~~~v---a~~~~~~~~~~l~~L~~~e  351 (352)
                      .. ...++++||||++.+....       .+.. +...++. ..++++||||+|....   .........+++.+|++++
T Consensus        75 ~~~~~~~~~llilDglDE~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~liit~r~~~~~~~~~~~~~~~~~~l~~~~~~~  154 (166)
T PF05729_consen   75 ELLEKNKRVLLILDGLDELEEQDQSQERQRLLDLLSQLLPQALPPGVKLIITSRPRAFPDLRRRLKQAQILELEPFSEED  154 (166)
T ss_pred             HHHHcCCceEEEEechHhcccchhhhHHHHHHHHHHHHhhhccCCCCeEEEEEcCChHHHHHHhcCCCcEEEECCCCHHH
Confidence            22 2678999999999764321       1222 3344443 3668999999998766   4444456689999999765

>TIGR02928 orc1/cdc6 family replication initiation protein

Probab=99.10  E-value=1.5e-09  Score=101.65  Aligned_cols=117  Identities=15%  Similarity=0.135  Sum_probs=82.4

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhh-ccC---CeEEEEEeCCCCCHHHHH
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVK-RNF---EKVIWVCVSDTFDQIRIA  259 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~-~~F---~~~~wv~vs~~~~~~~~~  259 (352)
                      ..++||++++++|...|...-.+  .....+.|+|++|+|||++++.++++-... ...   -..+|+++....+...++
T Consensus        15 ~~l~gRe~e~~~l~~~l~~~~~~--~~~~~i~I~G~~GtGKT~l~~~~~~~l~~~~~~~~~~~~~v~in~~~~~~~~~~~   92 (365)
T TIGR02928        15 DRIVHRDEQIEELAKALRPILRG--SRPSNVFIYGKTGTGKTAVTKYVMKELEEAAEDRDVRVVTVYVNCQILDTLYQVL   92 (365)
T ss_pred             CCCCCcHHHHHHHHHHHHHHHcC--CCCCcEEEECCCCCCHHHHHHHHHHHHHHHhhccCCceEEEEEECCCCCCHHHHH
Confidence            57999999999999998643211  334568899999999999999999853211 111   146778887777788899


Q ss_pred             HHHHHHhC---CCCC-CcccHHHHHHHHHHhc--CCceEEEEecCCCCC
Q 036619          260 KAIIEGLG---KSAS-GLNEFQSLMSRIQSSI--KGKKNFLVLDDVWDG  302 (352)
Q Consensus       260 ~~i~~~l~---~~~~-~~~~~~~~~~~l~~~l--~~kr~LlVlDdvw~~  302 (352)
                      ..|++++.   ...+ ...+..++...+.+.+  .+++++||||+++.-
T Consensus        93 ~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlvIDE~d~L  141 (365)
T TIGR02928        93 VELANQLRGSGEEVPTTGLSTSEVFRRLYKELNERGDSLIIVLDEIDYL  141 (365)
T ss_pred             HHHHHHHhhcCCCCCCCCCCHHHHHHHHHHHHHhcCCeEEEEECchhhh
Confidence            99999984   2211 2223445555566655  356889999999765

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.

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

Probab=99.00  E-value=1.1e-09  Score=86.89  Aligned_cols=118  Identities=19%  Similarity=0.213  Sum_probs=81.0

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhhhhhhc---cCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCcccHHHHHHHHHHh
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNNDEVKR---NFEKVIWVCVSDTFDQIRIAKAIIEGLGKSASGLNEFQSLMSRIQSS  286 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~---~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~  286 (352)
                      .-+++.|+|.+|+|||++++.+.++.....   .-..++|+++....+...+...|+..++.......+...+...+.+.
T Consensus         3 ~~~~~~i~G~~G~GKT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~l~~~~~~~   82 (131)
T PF13401_consen    3 SQRILVISGPPGSGKTTLIKRLARQLNAEAEIKNHPDVIYVNCPSSRTPRDFAQEILEALGLPLKSRQTSDELRSLLIDA   82 (131)
T ss_dssp             ----EEEEE-TTSSHHHHHHHHHHHHHHHHHHCCCEEEEEEEHHHHSSHHHHHHHHHHHHT-SSSSTS-HHHHHHHHHHH
T ss_pred             CCcccEEEcCCCCCHHHHHHHHHHHhHHhhhccCCCcEEEEEeCCCCCHHHHHHHHHHHhCccccccCCHHHHHHHHHHH
Confidence            357889999999999999999988532110   13456799998888999999999999998766655667777888887


Q ss_pred             cCCc-eEEEEecCCCCC-CccChhHHHHhhccCCCCcEEEEecCC
Q 036619          287 IKGK-KNFLVLDDVWDG-DYNKWQPFFRCLKNGLHGSKILVTTRN  329 (352)
Q Consensus       287 l~~k-r~LlVlDdvw~~-~~~~~~~l~~~l~~~~~gs~IivTTR~  329 (352)
                      +... ..+||||++..- ..+.++.|.....  ..+.+||+..+.
T Consensus        83 l~~~~~~~lviDe~~~l~~~~~l~~l~~l~~--~~~~~vvl~G~~  125 (131)
T PF13401_consen   83 LDRRRVVLLVIDEADHLFSDEFLEFLRSLLN--ESNIKVVLVGTP  125 (131)
T ss_dssp             HHHCTEEEEEEETTHHHHTHHHHHHHHHHTC--SCBEEEEEEESS
T ss_pred             HHhcCCeEEEEeChHhcCCHHHHHHHHHHHh--CCCCeEEEEECh
Confidence            7544 469999999665 4334444544333  556677776654

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

Probab=98.98  E-value=2e-08  Score=90.03  Aligned_cols=137  Identities=17%  Similarity=0.185  Sum_probs=82.4

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCccc---HHHHHHHHHHh-
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSASGLNE---FQSLMSRIQSS-  286 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~---~~~~~~~l~~~-  286 (352)
                      ...+.|+|++|+|||||++.+++.... ..+ ..+|+ +....+..+++..|+..++........   ...+...+... 
T Consensus        43 ~~~~~l~G~~G~GKTtl~~~l~~~l~~-~~~-~~~~~-~~~~~~~~~~l~~i~~~lG~~~~~~~~~~~~~~l~~~l~~~~  119 (269)
T TIGR03015        43 EGFILITGEVGAGKTTLIRNLLKRLDQ-ERV-VAAKL-VNTRVDAEDLLRMVAADFGLETEGRDKAALLRELEDFLIEQF  119 (269)
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHhcCC-CCe-EEeee-eCCCCCHHHHHHHHHHHcCCCCCCCCHHHHHHHHHHHHHHHH
Confidence            457889999999999999999985321 111 22333 333457778899999888765432211   12233333332 


Q ss_pred             cCCceEEEEecCCCCCCccChhHHHHhhcc---CCCCcEEEEecCChHHHHHhC----------CCCeeeCCCCCCCc
Q 036619          287 IKGKKNFLVLDDVWDGDYNKWQPFFRCLKN---GLHGSKILVTTRNESVARMMG----------STDIISIEQLAEEE  351 (352)
Q Consensus       287 l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~---~~~gs~IivTTR~~~va~~~~----------~~~~~~l~~L~~~e  351 (352)
                      ..+++++||+||+|......++.+......   +.....|++|.... ....+.          ....+++.+|+.+|
T Consensus       120 ~~~~~~vliiDe~~~l~~~~~~~l~~l~~~~~~~~~~~~vvl~g~~~-~~~~l~~~~~~~l~~r~~~~~~l~~l~~~e  196 (269)
T TIGR03015       120 AAGKRALLVVDEAQNLTPELLEELRMLSNFQTDNAKLLQIFLVGQPE-FRETLQSPQLQQLRQRIIASCHLGPLDREE  196 (269)
T ss_pred             hCCCCeEEEEECcccCCHHHHHHHHHHhCcccCCCCeEEEEEcCCHH-HHHHHcCchhHHHHhheeeeeeCCCCCHHH
Confidence            267889999999998765566666543321   12223455655433 222221          13467899998765

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.

>PF13173 AAA_14: AAA domain

Probab=98.96  E-value=3.5e-09  Score=83.78  Aligned_cols=118  Identities=23%  Similarity=0.294  Sum_probs=79.5

Q ss_pred             EEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCcccHHHHHHHHHHhcCCce
Q 036619          212 QVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSASGLNEFQSLMSRIQSSIKGKK  291 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~kr  291 (352)
                      +++.|.|+.|+|||||+++++.+..   ....+++++..+........                .+ +...+.+...+++
T Consensus         3 ~~~~l~G~R~vGKTtll~~~~~~~~---~~~~~~yi~~~~~~~~~~~~----------------~~-~~~~~~~~~~~~~   62 (128)
T PF13173_consen    3 KIIILTGPRGVGKTTLLKQLAKDLL---PPENILYINFDDPRDRRLAD----------------PD-LLEYFLELIKPGK   62 (128)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHhc---ccccceeeccCCHHHHHHhh----------------hh-hHHHHHHhhccCC
Confidence            6889999999999999999987532   33557777766543311100                00 2233333344578


Q ss_pred             EEEEecCCCCCCccChhHHHHhhccCCCCcEEEEecCChHHHHHh------CCCCeeeCCCCCCCc
Q 036619          292 NFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKILVTTRNESVARMM------GSTDIISIEQLAEEE  351 (352)
Q Consensus       292 ~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTTR~~~va~~~------~~~~~~~l~~L~~~e  351 (352)
                      .+|+||++...  ..|......+-+..+..+|++|+.+......-      |-...++|.||+..|
T Consensus        63 ~~i~iDEiq~~--~~~~~~lk~l~d~~~~~~ii~tgS~~~~l~~~~~~~l~gr~~~~~l~Plsf~E  126 (128)
T PF13173_consen   63 KYIFIDEIQYL--PDWEDALKFLVDNGPNIKIILTGSSSSLLSKDIAESLAGRVIEIELYPLSFRE  126 (128)
T ss_pred             cEEEEehhhhh--ccHHHHHHHHHHhccCceEEEEccchHHHhhcccccCCCeEEEEEECCCCHHH
Confidence            88999999776  57888777776655667899999987665321      224568999998665

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

Probab=98.94  E-value=2e-09  Score=97.55  Aligned_cols=132  Identities=20%  Similarity=0.373  Sum_probs=83.2

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHH
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAII  263 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~  263 (352)
                      .+++|....+.++++   .      ..+..+.+||++|+||||||+.+...  ...+|     ..+|...+-.+      
T Consensus        30 ~HLlg~~~~lrr~v~---~------~~l~SmIl~GPPG~GKTTlA~liA~~--~~~~f-----~~~sAv~~gvk------   87 (436)
T COG2256          30 EHLLGEGKPLRRAVE---A------GHLHSMILWGPPGTGKTTLARLIAGT--TNAAF-----EALSAVTSGVK------   87 (436)
T ss_pred             HhhhCCCchHHHHHh---c------CCCceeEEECCCCCCHHHHHHHHHHh--hCCce-----EEeccccccHH------
Confidence            455565555555443   2      45777789999999999999999973  33333     33333332222      


Q ss_pred             HHhCCCCCCcccHHHHHHHHHH-hcCCceEEEEecCCCCCCccChhHHHHhhccCCCCcEEEE--ecCChHH---HHHhC
Q 036619          264 EGLGKSASGLNEFQSLMSRIQS-SIKGKKNFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKILV--TTRNESV---ARMMG  337 (352)
Q Consensus       264 ~~l~~~~~~~~~~~~~~~~l~~-~l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~Iiv--TTR~~~v---a~~~~  337 (352)
                                 ++..+.+.-++ ...+++.+|++|.|+.-+...-+.|++.+   .+|.-|+|  ||.|+.-   ....+
T Consensus        88 -----------dlr~i~e~a~~~~~~gr~tiLflDEIHRfnK~QQD~lLp~v---E~G~iilIGATTENPsF~ln~ALlS  153 (436)
T COG2256          88 -----------DLREIIEEARKNRLLGRRTILFLDEIHRFNKAQQDALLPHV---ENGTIILIGATTENPSFELNPALLS  153 (436)
T ss_pred             -----------HHHHHHHHHHHHHhcCCceEEEEehhhhcChhhhhhhhhhh---cCCeEEEEeccCCCCCeeecHHHhh
Confidence                       22233333322 33589999999999876655555555444   45776666  7777742   22334


Q ss_pred             CCCeeeCCCCCCCc
Q 036619          338 STDIISIEQLAEEE  351 (352)
Q Consensus       338 ~~~~~~l~~L~~~e  351 (352)
                      -..++.|++|+.+|
T Consensus       154 R~~vf~lk~L~~~d  167 (436)
T COG2256         154 RARVFELKPLSSED  167 (436)
T ss_pred             hhheeeeecCCHHH
Confidence            47899999999875

>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=98.92  E-value=6.6e-10  Score=97.02  Aligned_cols=156  Identities=22%  Similarity=0.260  Sum_probs=76.5

Q ss_pred             cccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHH---
Q 036619          186 VCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAI---  262 (352)
Q Consensus       186 ~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i---  262 (352)
                      |+||+.++++|.+++...      ....+.|+|+.|+|||+|++.+.+... ...+ ..+|+.......... ...+   
T Consensus         1 F~gR~~el~~l~~~l~~~------~~~~~~l~G~rg~GKTsLl~~~~~~~~-~~~~-~~~y~~~~~~~~~~~-~~~~~~~   71 (234)
T PF01637_consen    1 FFGREKELEKLKELLESG------PSQHILLYGPRGSGKTSLLKEFINELK-EKGY-KVVYIDFLEESNESS-LRSFIEE   71 (234)
T ss_dssp             S-S-HHHHHHHHHCHHH--------SSEEEEEESTTSSHHHHHHHHHHHCT---EE-CCCHHCCTTBSHHHH-HHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHhh------cCcEEEEEcCCcCCHHHHHHHHHHHhh-hcCC-cEEEEecccchhhhH-HHHHHHH
Confidence            689999999999988643      246788999999999999999998431 1122 344444444332221 1121   


Q ss_pred             -----------HHHhCCCC------CCcccHHHHHHHHHHhc--CCceEEEEecCCCCCC------ccChhHHHHhhcc-
Q 036619          263 -----------IEGLGKSA------SGLNEFQSLMSRIQSSI--KGKKNFLVLDDVWDGD------YNKWQPFFRCLKN-  316 (352)
Q Consensus       263 -----------~~~l~~~~------~~~~~~~~~~~~l~~~l--~~kr~LlVlDdvw~~~------~~~~~~l~~~l~~-  316 (352)
                                 ...+....      ............+.+.+  .+++.+|||||+....      ......+...+.. 
T Consensus        72 ~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~~iiviDe~~~~~~~~~~~~~~~~~l~~~~~~~  151 (234)
T PF01637_consen   72 TSLADELSEALGISIPSITLEKISKDLSEDSFSALERLLEKLKKKGKKVIIVIDEFQYLAIASEEDKDFLKSLRSLLDSL  151 (234)
T ss_dssp             HHHHCHCHHHHHHHCCTSTTEEEECTS-GG-G--HHHHHHHHHHCHCCEEEEEETGGGGGBCTTTTHHHHHHHHHHHHH-
T ss_pred             HHHHHHHHHHHhhhcccccchhhhhcchhhHHHHHHHHHHHHHhcCCcEEEEEecHHHHhhcccchHHHHHHHHHHHhhc
Confidence                       11111111      01112222223333333  2445999999996543      1112234444443 


Q ss_pred             --CCCCcEEEEecCChHHHHH--------hCCCCeeeCCCCCCCc
Q 036619          317 --GLHGSKILVTTRNESVARM--------MGSTDIISIEQLAEEE  351 (352)
Q Consensus       317 --~~~gs~IivTTR~~~va~~--------~~~~~~~~l~~L~~~e  351 (352)
                        ..+.+ +|++.....+...        .+....+.|++|+.++
T Consensus       152 ~~~~~~~-~v~~~S~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~e  195 (234)
T PF01637_consen  152 LSQQNVS-IVITGSSDSLMEEFLDDKSPLFGRFSHIELKPLSKEE  195 (234)
T ss_dssp             ---TTEE-EEEEESSHHHHHHTT-TTSTTTT---EEEE----HHH
T ss_pred             cccCCce-EEEECCchHHHHHhhcccCccccccceEEEeeCCHHH
Confidence              33334 5555555544433        2224458999998765

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

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

Probab=98.88  E-value=5.1e-09  Score=88.18  Aligned_cols=51  Identities=25%  Similarity=0.300  Sum_probs=33.8

Q ss_pred             ccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhh
Q 036619          185 EVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVK  238 (352)
Q Consensus       185 ~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~  238 (352)
                      .|+||+++.+++...|. ..  .....+.+.|+|.+|+|||+|.+.++......
T Consensus         1 ~fvgR~~e~~~l~~~l~-~~--~~~~~~~~ll~G~~G~GKT~ll~~~~~~~~~~   51 (185)
T PF13191_consen    1 QFVGREEEIERLRDLLD-AA--QSGSPRNLLLTGESGSGKTSLLRALLDRLAER   51 (185)
T ss_dssp             --TT-HHHHHHHHHTTG-GT--SS-----EEE-B-TTSSHHHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHH-HH--HcCCCcEEEEECCCCCCHHHHHHHHHHHHHhc
Confidence            38999999999999995 22  22457999999999999999999998864433

>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=98.85  E-value=3.5e-08  Score=79.26  Aligned_cols=125  Identities=19%  Similarity=0.165  Sum_probs=73.7

Q ss_pred             ccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHh
Q 036619          187 CGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGL  266 (352)
Q Consensus       187 ~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l  266 (352)
                      .|++..+..+...+...      ....+.|+|++|+|||+|++.+++...  ..-..++++..++..........+... 
T Consensus         1 ~~~~~~~~~i~~~~~~~------~~~~v~i~G~~G~GKT~l~~~i~~~~~--~~~~~v~~~~~~~~~~~~~~~~~~~~~-   71 (151)
T cd00009           1 VGQEEAIEALREALELP------PPKNLLLYGPPGTGKTTLARAIANELF--RPGAPFLYLNASDLLEGLVVAELFGHF-   71 (151)
T ss_pred             CchHHHHHHHHHHHhCC------CCCeEEEECCCCCCHHHHHHHHHHHhh--cCCCCeEEEehhhhhhhhHHHHHhhhh-
Confidence            36777788888877543      245788999999999999999998532  222346666655543322211111100 


Q ss_pred             CCCCCCcccHHHHHHHHHHhcCCceEEEEecCCCCCCccChhHHHHhhccC------CCCcEEEEecCChH
Q 036619          267 GKSASGLNEFQSLMSRIQSSIKGKKNFLVLDDVWDGDYNKWQPFFRCLKNG------LHGSKILVTTRNES  331 (352)
Q Consensus       267 ~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~------~~gs~IivTTR~~~  331 (352)
                                 ............+..+||+||++.........+...+...      ..+..||+||....
T Consensus        72 -----------~~~~~~~~~~~~~~~~lilDe~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~ii~~~~~~~  131 (151)
T cd00009          72 -----------LVRLLFELAEKAKPGVLFIDEIDSLSRGAQNALLRVLETLNDLRIDRENVRVIGATNRPL  131 (151)
T ss_pred             -----------hHhHHHHhhccCCCeEEEEeChhhhhHHHHHHHHHHHHhcCceeccCCCeEEEEecCccc
Confidence                       0011112223456789999999864222334444444432      35778888888654

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.

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

Probab=98.75  E-value=2e-08  Score=88.21  Aligned_cols=89  Identities=19%  Similarity=0.108  Sum_probs=62.6

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCC--CCHHHHHHHHHHHhCCCCCCccc------HHHHHHH
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDT--FDQIRIAKAIIEGLGKSASGLNE------FQSLMSR  282 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~--~~~~~~~~~i~~~l~~~~~~~~~------~~~~~~~  282 (352)
                      -..+.|+|++|+|||||++.+|++.... +|+.++|++++.+  +++.++++.+...+-....+...      .......
T Consensus        16 Gqr~~I~G~~G~GKTTLlr~I~n~l~~~-~fdv~~~v~vI~er~~ev~el~~~I~~~~v~~~~~~~~~~~~~~~~~~~~~   94 (249)
T cd01128          16 GQRGLIVAPPKAGKTTLLQSIANAITKN-HPEVYLIVLLIDERPEEVTDMQRSVKGEVIASTFDEPPERHVQVAEMVLEK   94 (249)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhccccc-cCCeEEEEEEccCCCccHHHHHHHhccEEEEecCCCCHHHHHHHHHHHHHH
Confidence            4678899999999999999999975444 8999999998777  78999999984333221111111      1122333


Q ss_pred             HHHh-cCCceEEEEecCCC
Q 036619          283 IQSS-IKGKKNFLVLDDVW  300 (352)
Q Consensus       283 l~~~-l~~kr~LlVlDdvw  300 (352)
                      ...+ -++++.+|++|++.
T Consensus        95 a~~~~~~G~~vll~iDei~  113 (249)
T cd01128          95 AKRLVEHGKDVVILLDSIT  113 (249)
T ss_pred             HHHHHHCCCCEEEEEECHH
Confidence            3332 25899999999994

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.

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

Probab=98.74  E-value=2.1e-07  Score=86.43  Aligned_cols=139  Identities=19%  Similarity=0.203  Sum_probs=97.1

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHH
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAII  263 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~  263 (352)
                      ..+.+|+++++++...|...-.+  ..+.-+.|+|.+|+|||+.++.+...-+....=...++|++-...+..+++..|+
T Consensus        17 ~~l~~Re~ei~~l~~~l~~~~~~--~~p~n~~iyG~~GTGKT~~~~~v~~~l~~~~~~~~~~yINc~~~~t~~~i~~~i~   94 (366)
T COG1474          17 EELPHREEEINQLASFLAPALRG--ERPSNIIIYGPTGTGKTATVKFVMEELEESSANVEVVYINCLELRTPYQVLSKIL   94 (366)
T ss_pred             ccccccHHHHHHHHHHHHHHhcC--CCCccEEEECCCCCCHhHHHHHHHHHHHhhhccCceEEEeeeeCCCHHHHHHHHH
Confidence            34999999999999888654332  2233488999999999999999998532221111279999999999999999999


Q ss_pred             HHhCCCCCCcccHHHHHHHHHHhc--CCceEEEEecCCCCCCccChhHHHHhhccCCC-CcEEE
Q 036619          264 EGLGKSASGLNEFQSLMSRIQSSI--KGKKNFLVLDDVWDGDYNKWQPFFRCLKNGLH-GSKIL  324 (352)
Q Consensus       264 ~~l~~~~~~~~~~~~~~~~l~~~l--~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~-gs~Ii  324 (352)
                      ++++..+.......+....+.+.+  .++.++||||++.......-+.+...+..... .++|+
T Consensus        95 ~~~~~~p~~g~~~~~~~~~l~~~~~~~~~~~IvvLDEid~L~~~~~~~LY~L~r~~~~~~~~v~  158 (366)
T COG1474          95 NKLGKVPLTGDSSLEILKRLYDNLSKKGKTVIVILDEVDALVDKDGEVLYSLLRAPGENKVKVS  158 (366)
T ss_pred             HHcCCCCCCCCchHHHHHHHHHHHHhcCCeEEEEEcchhhhccccchHHHHHHhhccccceeEE
Confidence            999865554455566667777766  46899999999976422222445455543322 45443

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.74  E-value=1.2e-07  Score=99.22  Aligned_cols=131  Identities=21%  Similarity=0.276  Sum_probs=84.4

Q ss_pred             ccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCC-CCCHHHHHHHHH
Q 036619          185 EVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSD-TFDQIRIAKAII  263 (352)
Q Consensus       185 ~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~-~~~~~~~~~~i~  263 (352)
                      .++-|.    +|.+.|...     ...+++.|.|++|.|||||+......      ++.++|+++.. +.+...++..++
T Consensus        15 ~~~~R~----rl~~~l~~~-----~~~~~~~v~apaG~GKTtl~~~~~~~------~~~~~w~~l~~~d~~~~~f~~~l~   79 (903)
T PRK04841         15 NTVVRE----RLLAKLSGA-----NNYRLVLVTSPAGYGKTTLISQWAAG------KNNLGWYSLDESDNQPERFASYLI   79 (903)
T ss_pred             ccCcch----HHHHHHhcc-----cCCCeEEEECCCCCCHHHHHHHHHHh------CCCeEEEecCcccCCHHHHHHHHH
Confidence            445554    455555322     34688999999999999999988752      33699999964 456677777777


Q ss_pred             HHhCCCCCC-------------cccHHHHHHHHHHhc-C-CceEEEEecCCCCCCccChh-HHHHhhccCCCCcEEEEec
Q 036619          264 EGLGKSASG-------------LNEFQSLMSRIQSSI-K-GKKNFLVLDDVWDGDYNKWQ-PFFRCLKNGLHGSKILVTT  327 (352)
Q Consensus       264 ~~l~~~~~~-------------~~~~~~~~~~l~~~l-~-~kr~LlVlDdvw~~~~~~~~-~l~~~l~~~~~gs~IivTT  327 (352)
                      ..+......             ..+...+...+...+ . +.+++|||||+..-+..... .+...++....+..+||||
T Consensus        80 ~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~lvlDD~h~~~~~~~~~~l~~l~~~~~~~~~lv~~s  159 (903)
T PRK04841         80 AALQQATNGHCSKSEALAQKRQYASLSSLFAQLFIELADWHQPLYLVIDDYHLITNPEIHEAMRFFLRHQPENLTLVVLS  159 (903)
T ss_pred             HHHHHhcCcccchhhhhhccCCcCCHHHHHHHHHHHHhcCCCCEEEEEeCcCcCCChHHHHHHHHHHHhCCCCeEEEEEe
Confidence            777422111             012233333333333 2 67899999999776544444 4444445555667888999


Q ss_pred             CCh
Q 036619          328 RNE  330 (352)
Q Consensus       328 R~~  330 (352)
                      |..
T Consensus       160 R~~  162 (903)
T PRK04841        160 RNL  162 (903)
T ss_pred             CCC
Confidence            984

>PRK06893 DNA replication initiation factor; Validated

Probab=98.68  E-value=6e-08  Score=84.67  Aligned_cols=114  Identities=17%  Similarity=0.294  Sum_probs=69.4

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCcccHHHHHHHHHHhcCCc
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSASGLNEFQSLMSRIQSSIKGK  290 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~k  290 (352)
                      .+.+.|+|++|+|||+|++.+++..  ........|+++....   ...                     ..+.+.+. +
T Consensus        39 ~~~l~l~G~~G~GKThL~~ai~~~~--~~~~~~~~y~~~~~~~---~~~---------------------~~~~~~~~-~   91 (229)
T PRK06893         39 QPFFYIWGGKSSGKSHLLKAVSNHY--LLNQRTAIYIPLSKSQ---YFS---------------------PAVLENLE-Q   91 (229)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHH--HHcCCCeEEeeHHHhh---hhh---------------------HHHHhhcc-c
Confidence            3568899999999999999999853  2223345667654210   000                     01111122 2


Q ss_pred             eEEEEecCCCCCC-ccChh-HHHHhhccC-CCCcEEEE-ecCC---------hHHHHHhCCCCeeeCCCCCCCc
Q 036619          291 KNFLVLDDVWDGD-YNKWQ-PFFRCLKNG-LHGSKILV-TTRN---------ESVARMMGSTDIISIEQLAEEE  351 (352)
Q Consensus       291 r~LlVlDdvw~~~-~~~~~-~l~~~l~~~-~~gs~Iiv-TTR~---------~~va~~~~~~~~~~l~~L~~~e  351 (352)
                      .-+|||||+|... ...|. .+...+... ..|+.+|| |+..         ++++..++....++++++++++
T Consensus        92 ~dlLilDDi~~~~~~~~~~~~l~~l~n~~~~~~~~illits~~~p~~l~~~~~~L~sRl~~g~~~~l~~pd~e~  165 (229)
T PRK06893         92 QDLVCLDDLQAVIGNEEWELAIFDLFNRIKEQGKTLLLISADCSPHALSIKLPDLASRLTWGEIYQLNDLTDEQ  165 (229)
T ss_pred             CCEEEEeChhhhcCChHHHHHHHHHHHHHHHcCCcEEEEeCCCChHHccccchhHHHHHhcCCeeeCCCCCHHH
Confidence            3489999998742 24566 344545432 23555654 4544         4677766777889999998764

>PRK09376 rho transcription termination factor Rho; Provisional

Probab=98.65  E-value=7.8e-08  Score=88.41  Aligned_cols=100  Identities=17%  Similarity=0.103  Sum_probs=65.4

Q ss_pred             HHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCC--CHHHHHHHHHHHhCCCCCC
Q 036619          195 ELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTF--DQIRIAKAIIEGLGKSASG  272 (352)
Q Consensus       195 ~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~--~~~~~~~~i~~~l~~~~~~  272 (352)
                      ++++.+..-.     .-....|+|++|+|||||++.+|++.... ||+.++||.+++..  .+.++++.|.-.+-....+
T Consensus       158 rvID~l~PIG-----kGQR~lIvgppGvGKTTLaK~Ian~I~~n-hFDv~~~VvLIgER~~EVtdiqrsIlg~vv~st~d  231 (416)
T PRK09376        158 RIIDLIAPIG-----KGQRGLIVAPPKAGKTVLLQNIANSITTN-HPEVHLIVLLIDERPEEVTDMQRSVKGEVVASTFD  231 (416)
T ss_pred             eeeeeecccc-----cCceEEEeCCCCCChhHHHHHHHHHHHhh-cCCeEEEEEEeCCchhHHHHHHHHhcCcEEEECCC
Confidence            4555554322     23567799999999999999999975444 99999999999987  6777777775221111111


Q ss_pred             cc-c-----HHHHHHHHHHh-cCCceEEEEecCCC
Q 036619          273 LN-E-----FQSLMSRIQSS-IKGKKNFLVLDDVW  300 (352)
Q Consensus       273 ~~-~-----~~~~~~~l~~~-l~~kr~LlVlDdvw  300 (352)
                      .. .     ........+.+ ..+++.||++|++.
T Consensus       232 ~~~~~~~~~a~~~ie~Ae~~~e~G~dVlL~iDsIt  266 (416)
T PRK09376        232 EPAERHVQVAEMVIEKAKRLVEHGKDVVILLDSIT  266 (416)
T ss_pred             CCHHHHHHHHHHHHHHHHHHHHcCCCEEEEEEChH
Confidence            11 1     11222222222 26899999999994

>PRK13342 recombination factor protein RarA; Reviewed

Probab=98.64  E-value=9e-08  Score=91.03  Aligned_cols=135  Identities=21%  Similarity=0.357  Sum_probs=77.8

Q ss_pred             CccccccchHHH---HHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHH
Q 036619          184 GEVCGRVDEKSE---LFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAK  260 (352)
Q Consensus       184 ~~~~gr~~~~~~---l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~  260 (352)
                      .+++|++..+..   |..++..      .....+.++|++|+||||||+.+++.  ....     |+.++.......-++
T Consensus        12 ~d~vGq~~~v~~~~~L~~~i~~------~~~~~ilL~GppGtGKTtLA~~ia~~--~~~~-----~~~l~a~~~~~~~ir   78 (413)
T PRK13342         12 DEVVGQEHLLGPGKPLRRMIEA------GRLSSMILWGPPGTGKTTLARIIAGA--TDAP-----FEALSAVTSGVKDLR   78 (413)
T ss_pred             HHhcCcHHHhCcchHHHHHHHc------CCCceEEEECCCCCCHHHHHHHHHHH--hCCC-----EEEEecccccHHHHH
Confidence            357787766544   6666533      23456778999999999999999874  2222     233322211111112


Q ss_pred             HHHHHhCCCCCCcccHHHHHHHHHHh-cCCceEEEEecCCCCCCccChhHHHHhhccCCCCcEEEE--ecCChH--HH-H
Q 036619          261 AIIEGLGKSASGLNEFQSLMSRIQSS-IKGKKNFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKILV--TTRNES--VA-R  334 (352)
Q Consensus       261 ~i~~~l~~~~~~~~~~~~~~~~l~~~-l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~Iiv--TTR~~~--va-~  334 (352)
                      .++                 ...... ..+++.+|+||+++..+....+.|...+..   |+.+++  ||.+..  +- .
T Consensus        79 ~ii-----------------~~~~~~~~~g~~~vL~IDEi~~l~~~~q~~LL~~le~---~~iilI~att~n~~~~l~~a  138 (413)
T PRK13342         79 EVI-----------------EEARQRRSAGRRTILFIDEIHRFNKAQQDALLPHVED---GTITLIGATTENPSFEVNPA  138 (413)
T ss_pred             HHH-----------------HHHHHhhhcCCceEEEEechhhhCHHHHHHHHHHhhc---CcEEEEEeCCCChhhhccHH
Confidence            222                 222211 246788999999988765556666666653   454554  344432  21 1


Q ss_pred             HhCCCCeeeCCCCCCCc
Q 036619          335 MMGSTDIISIEQLAEEE  351 (352)
Q Consensus       335 ~~~~~~~~~l~~L~~~e  351 (352)
                      ..+-...+++.+|++++
T Consensus       139 L~SR~~~~~~~~ls~e~  155 (413)
T PRK13342        139 LLSRAQVFELKPLSEED  155 (413)
T ss_pred             HhccceeeEeCCCCHHH
Confidence            22234678899888764

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

Probab=98.63  E-value=1.5e-07  Score=84.37  Aligned_cols=120  Identities=25%  Similarity=0.331  Sum_probs=79.6

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCcccHHHHHHHHHHhcC
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSASGLNEFQSLMSRIQSSIK  288 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~  288 (352)
                      ..+..+.+||++|+||||||+.+.+..+-  +  ...+|..|....-.+-++.|+++-..               ...+-
T Consensus       160 ~~ipSmIlWGppG~GKTtlArlia~tsk~--~--SyrfvelSAt~a~t~dvR~ife~aq~---------------~~~l~  220 (554)
T KOG2028|consen  160 NRIPSMILWGPPGTGKTTLARLIASTSKK--H--SYRFVELSATNAKTNDVRDIFEQAQN---------------EKSLT  220 (554)
T ss_pred             CCCCceEEecCCCCchHHHHHHHHhhcCC--C--ceEEEEEeccccchHHHHHHHHHHHH---------------HHhhh
Confidence            34677889999999999999999985332  2  26678777665544545555553221               12335


Q ss_pred             CceEEEEecCCCCCCccChhHHHHhhccCCCCcEEEE--ecCChHH---HHHhCCCCeeeCCCCCCC
Q 036619          289 GKKNFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKILV--TTRNESV---ARMMGSTDIISIEQLAEE  350 (352)
Q Consensus       289 ~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~Iiv--TTR~~~v---a~~~~~~~~~~l~~L~~~  350 (352)
                      .+|.+|++|.|+.-+...-+.   +||.-.+|+-++|  ||.++..   +..++-..++-|++|+.+
T Consensus       221 krkTilFiDEiHRFNksQQD~---fLP~VE~G~I~lIGATTENPSFqln~aLlSRC~VfvLekL~~n  284 (554)
T KOG2028|consen  221 KRKTILFIDEIHRFNKSQQDT---FLPHVENGDITLIGATTENPSFQLNAALLSRCRVFVLEKLPVN  284 (554)
T ss_pred             cceeEEEeHHhhhhhhhhhhc---ccceeccCceEEEecccCCCccchhHHHHhccceeEeccCCHH
Confidence            788999999997655433333   4566666886666  7877742   334455678888888765

>PTZ00202 tuzin; Provisional

Probab=98.62  E-value=5.7e-07  Score=83.45  Aligned_cols=160  Identities=14%  Similarity=0.190  Sum_probs=95.3

Q ss_pred             ccccCCccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHH
Q 036619          179 SLIDEGEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRI  258 (352)
Q Consensus       179 ~~~~~~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~  258 (352)
                      .+.+.+.|+||+.+...|...|...+.   ...+++.|.|++|+|||||++.+....    ++ ..++++..   +..++
T Consensus       257 lPa~~~~FVGReaEla~Lr~VL~~~d~---~~privvLtG~~G~GKTTLlR~~~~~l----~~-~qL~vNpr---g~eEl  325 (550)
T PTZ00202        257 APAVIRQFVSREAEESWVRQVLRRLDT---AHPRIVVFTGFRGCGKSSLCRSAVRKE----GM-PAVFVDVR---GTEDT  325 (550)
T ss_pred             CCCCccCCCCcHHHHHHHHHHHhccCC---CCceEEEEECCCCCCHHHHHHHHHhcC----Cc-eEEEECCC---CHHHH
Confidence            334557899999999999998865442   235699999999999999999998642    21 12223222   67999


Q ss_pred             HHHHHHHhCCCCCCc-c-cHHHHHHHHHHhc-C-CceEEEEecCCCCCC--ccChhHHHHhhccCCCCcEEEEecCChHH
Q 036619          259 AKAIIEGLGKSASGL-N-EFQSLMSRIQSSI-K-GKKNFLVLDDVWDGD--YNKWQPFFRCLKNGLHGSKILVTTRNESV  332 (352)
Q Consensus       259 ~~~i~~~l~~~~~~~-~-~~~~~~~~l~~~l-~-~kr~LlVlDdvw~~~--~~~~~~l~~~l~~~~~gs~IivTTR~~~v  332 (352)
                      +..|+.+|+...... . -...+.+.|.+.- . +++.+||+-=- +.+  .-.+++. -.|.+...-|.|++---.+.+
T Consensus       326 Lr~LL~ALGV~p~~~k~dLLrqIqeaLl~~~~e~GrtPVLII~lr-eg~~l~rvyne~-v~la~drr~ch~v~evplesl  403 (550)
T PTZ00202        326 LRSVVKALGVPNVEACGDLLDFISEACRRAKKMNGETPLLVLKLR-EGSSLQRVYNEV-VALACDRRLCHVVIEVPLESL  403 (550)
T ss_pred             HHHHHHHcCCCCcccHHHHHHHHHHHHHHHHHhCCCCEEEEEEec-CCCcHHHHHHHH-HHHHccchhheeeeeehHhhc
Confidence            999999999743222 1 1244444444432 3 67777777632 210  0122222 233444556777776655543


Q ss_pred             HHHhCC---CCeeeCCCCCCCc
Q 036619          333 ARMMGS---TDIISIEQLAEEE  351 (352)
Q Consensus       333 a~~~~~---~~~~~l~~L~~~e  351 (352)
                      .-..-.   -+.|.+.+++.++
T Consensus       404 t~~~~~lprldf~~vp~fsr~q  425 (550)
T PTZ00202        404 TIANTLLPRLDFYLVPNFSRSQ  425 (550)
T ss_pred             chhcccCccceeEecCCCCHHH
Confidence            322111   3345555555443

>PRK05564 DNA polymerase III subunit delta'; Validated

Probab=98.61  E-value=3.1e-07  Score=84.19  Aligned_cols=146  Identities=16%  Similarity=0.249  Sum_probs=96.0

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhh----hhhccCCeEEEEEe-CCCCCHHHH
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNND----EVKRNFEKVIWVCV-SDTFDQIRI  258 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~----~~~~~F~~~~wv~v-s~~~~~~~~  258 (352)
                      .+++|.+..++.+.+.+....     -.....++|+.|+||||+|+.++..-    ....|+|...|... +....+.. 
T Consensus         4 ~~i~g~~~~~~~l~~~~~~~~-----~~ha~Lf~G~~G~Gk~~la~~~a~~l~c~~~~~~h~D~~~~~~~~~~~i~v~~-   77 (313)
T PRK05564          4 HTIIGHENIKNRIKNSIIKNR-----FSHAHIIVGEDGIGKSLLAKEIALKILGKSQQREYVDIIEFKPINKKSIGVDD-   77 (313)
T ss_pred             hhccCcHHHHHHHHHHHHcCC-----CCceEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCeEEeccccCCCCCHHH-
Confidence            357898888888888885432     34677899999999999999888732    12346676666542 22233333 


Q ss_pred             HHHHHHHhCCCCCCcccHHHHHHHHHHhcCCceEEEEecCCCCCCccChhHHHHhhccCCCCcEEEEecCChH-HHHHh-
Q 036619          259 AKAIIEGLGKSASGLNEFQSLMSRIQSSIKGKKNFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKILVTTRNES-VARMM-  336 (352)
Q Consensus       259 ~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTTR~~~-va~~~-  336 (352)
                      .+++.+.+...                -..+++-++|+|++...+...++.|...+.....++.+|++|.+.+ +...+ 
T Consensus        78 ir~~~~~~~~~----------------p~~~~~kv~iI~~ad~m~~~a~naLLK~LEepp~~t~~il~~~~~~~ll~TI~  141 (313)
T PRK05564         78 IRNIIEEVNKK----------------PYEGDKKVIIIYNSEKMTEQAQNAFLKTIEEPPKGVFIILLCENLEQILDTIK  141 (313)
T ss_pred             HHHHHHHHhcC----------------cccCCceEEEEechhhcCHHHHHHHHHHhcCCCCCeEEEEEeCChHhCcHHHH
Confidence            22233322211                1135666778888877766789999999998888999988886653 22222 


Q ss_pred             CCCCeeeCCCCCCCc
Q 036619          337 GSTDIISIEQLAEEE  351 (352)
Q Consensus       337 ~~~~~~~l~~L~~~e  351 (352)
                      +-...+++.++++++
T Consensus       142 SRc~~~~~~~~~~~~  156 (313)
T PRK05564        142 SRCQIYKLNRLSKEE  156 (313)
T ss_pred             hhceeeeCCCcCHHH
Confidence            225678888887654

>TIGR02903 spore_lon_C ATP-dependent protease, Lon family

Probab=98.59  E-value=7.5e-06  Score=81.47  Aligned_cols=162  Identities=21%  Similarity=0.260  Sum_probs=99.3

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccC---CeEEEEEeCC---CCCHHH
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNF---EKVIWVCVSD---TFDQIR  257 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F---~~~~wv~vs~---~~~~~~  257 (352)
                      +.++|+...+..+...+...      ....+.|+|++|+||||||+.+++......++   ....|+.+..   ..+...
T Consensus       154 ~~iiGqs~~~~~l~~~ia~~------~~~~vlL~Gp~GtGKTTLAr~i~~~~~~~~~~~~~~~~~fv~i~~~~l~~d~~~  227 (615)
T TIGR02903       154 SEIVGQERAIKALLAKVASP------FPQHIILYGPPGVGKTTAARLALEEAKKLKHTPFAEDAPFVEVDGTTLRWDPRE  227 (615)
T ss_pred             HhceeCcHHHHHHHHHHhcC------CCCeEEEECCCCCCHHHHHHHHHHhhhhccCCcccCCCCeEEEechhccCCHHH
Confidence            35889999988888777432      24568899999999999999998764333333   1234555432   112222


Q ss_pred             HHHHH---------------HHHhCCCC----------------CCccc-HHHHHHHHHHhcCCceEEEEecCCCCCCcc
Q 036619          258 IAKAI---------------IEGLGKSA----------------SGLNE-FQSLMSRIQSSIKGKKNFLVLDDVWDGDYN  305 (352)
Q Consensus       258 ~~~~i---------------~~~l~~~~----------------~~~~~-~~~~~~~l~~~l~~kr~LlVlDdvw~~~~~  305 (352)
                      +...+               +...+...                +.... ....+..|.+.+++++++++.|+.|..+..
T Consensus       228 i~~~llg~~~~~~~~~a~~~l~~~gl~~~~~g~v~~asgGvL~LDEi~~Ld~~~Q~~Ll~~Le~~~v~~~~~~~~~~~~~  307 (615)
T TIGR02903       228 VTNPLLGSVHDPIYQGARRDLAETGVPEPKTGLVTDAHGGVLFIDEIGELDPLLQNKLLKVLEDKRVEFSSSYYDPDDPN  307 (615)
T ss_pred             HhHHhcCCccHHHHHHHHHHHHHcCCCchhcCchhhcCCCeEEEeccccCCHHHHHHHHHHHhhCeEEeecceeccCCcc
Confidence            21111               11111100                00111 134578889999999999998888887767


Q ss_pred             ChhHHHHhhccCCCCcEEEE--ecCChH-HHHHh-CCCCeeeCCCCCCCc
Q 036619          306 KWQPFFRCLKNGLHGSKILV--TTRNES-VARMM-GSTDIISIEQLAEEE  351 (352)
Q Consensus       306 ~~~~l~~~l~~~~~gs~Iiv--TTR~~~-va~~~-~~~~~~~l~~L~~~e  351 (352)
                      .|+.++..+..+.+...|++  ||++.. +...+ .....+.+.+++.+|
T Consensus       308 ~~~~ik~~~~~~~~~~~VLI~aTt~~~~~l~~aLrSR~~~i~~~pls~ed  357 (615)
T TIGR02903       308 VPKYIKKLFEEGAPADFVLIGATTRDPEEINPALRSRCAEVFFEPLTPED  357 (615)
T ss_pred             cchhhhhhcccCccceEEEEEeccccccccCHHHHhceeEEEeCCCCHHH
Confidence            89999888887766665665  566443 22222 223466777777654

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.

>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda

Probab=98.58  E-value=3.9e-07  Score=79.42  Aligned_cols=128  Identities=19%  Similarity=0.287  Sum_probs=72.5

Q ss_pred             chHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCCC
Q 036619          191 DEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSA  270 (352)
Q Consensus       191 ~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~  270 (352)
                      ..++.+..++..      .....+.|+|++|+|||+||+.+++..  .......++++++.-.+      ..        
T Consensus        24 ~~~~~l~~~~~~------~~~~~lll~G~~G~GKT~la~~~~~~~--~~~~~~~~~i~~~~~~~------~~--------   81 (226)
T TIGR03420        24 ELLAALRQLAAG------KGDRFLYLWGESGSGKSHLLQAACAAA--EERGKSAIYLPLAELAQ------AD--------   81 (226)
T ss_pred             HHHHHHHHHHhc------CCCCeEEEECCCCCCHHHHHHHHHHHH--HhcCCcEEEEeHHHHHH------hH--------
Confidence            345566665432      235678899999999999999999852  22333455565443211      00        


Q ss_pred             CCcccHHHHHHHHHHhcCCceEEEEecCCCCCCcc-Ch-hHHHHhhcc-CCCCcEEEEecCChH---------HHHHhCC
Q 036619          271 SGLNEFQSLMSRIQSSIKGKKNFLVLDDVWDGDYN-KW-QPFFRCLKN-GLHGSKILVTTRNES---------VARMMGS  338 (352)
Q Consensus       271 ~~~~~~~~~~~~l~~~l~~kr~LlVlDdvw~~~~~-~~-~~l~~~l~~-~~~gs~IivTTR~~~---------va~~~~~  338 (352)
                                ..+...+.+ .-+|||||++..... .| ..+...+.. ...+..+|+||+...         +...+..
T Consensus        82 ----------~~~~~~~~~-~~lLvIDdi~~l~~~~~~~~~L~~~l~~~~~~~~~iIits~~~~~~~~~~~~~L~~r~~~  150 (226)
T TIGR03420        82 ----------PEVLEGLEQ-ADLVCLDDVEAIAGQPEWQEALFHLYNRVREAGGRLLIAGRAAPAQLPLRLPDLRTRLAW  150 (226)
T ss_pred             ----------HHHHhhccc-CCEEEEeChhhhcCChHHHHHHHHHHHHHHHcCCeEEEECCCChHHCCcccHHHHHHHhc
Confidence                      011112222 238999999765332 23 345555442 123447888887532         2223333


Q ss_pred             CCeeeCCCCCCCc
Q 036619          339 TDIISIEQLAEEE  351 (352)
Q Consensus       339 ~~~~~l~~L~~~e  351 (352)
                      ...+++.+|++++
T Consensus       151 ~~~i~l~~l~~~e  163 (226)
T TIGR03420       151 GLVFQLPPLSDEE  163 (226)
T ss_pred             CeeEecCCCCHHH
Confidence            4678899988653

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.

>PRK07003 DNA polymerase III subunits gamma and tau; Validated

Probab=98.54  E-value=6.1e-07  Score=88.74  Aligned_cols=156  Identities=15%  Similarity=0.195  Sum_probs=89.4

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHH
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAII  263 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~  263 (352)
                      .+++|.+..++.|.+++....     -...+.++|..|+||||+|+.+.+.-.....+.       +..+..-..+..|.
T Consensus        16 dEVIGQe~Vv~~L~~aL~~gR-----L~HAyLFtGPpGvGKTTlAriLAKaLnCe~~~~-------~~PCG~C~sCr~I~   83 (830)
T PRK07003         16 ASLVGQEHVVRALTHALDGGR-----LHHAYLFTGTRGVGKTTLSRIFAKALNCETGVT-------SQPCGVCRACREID   83 (830)
T ss_pred             HHHcCcHHHHHHHHHHHhcCC-----CCeEEEEECCCCCCHHHHHHHHHHHhcCccCCC-------CCCCcccHHHHHHh
Confidence            468999999999999886533     245567999999999999998876422111110       01111111111221


Q ss_pred             HHh-----CCCCCCcccHHHHHHHHHHh----cCCceEEEEecCCCCCCccChhHHHHhhccCCCCcEEEEecCCh-HHH
Q 036619          264 EGL-----GKSASGLNEFQSLMSRIQSS----IKGKKNFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKILVTTRNE-SVA  333 (352)
Q Consensus       264 ~~l-----~~~~~~~~~~~~~~~~l~~~----l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTTR~~-~va  333 (352)
                      ..-     ..........+++...+...    ..++.-++|||++...+...|+.|+..+..-....++|+||.+. .+.
T Consensus        84 ~G~h~DviEIDAas~rgVDdIReLIe~a~~~P~~gr~KVIIIDEah~LT~~A~NALLKtLEEPP~~v~FILaTtd~~KIp  163 (830)
T PRK07003         84 EGRFVDYVEMDAASNRGVDEMAALLERAVYAPVDARFKVYMIDEVHMLTNHAFNAMLKTLEEPPPHVKFILATTDPQKIP  163 (830)
T ss_pred             cCCCceEEEecccccccHHHHHHHHHHHHhccccCCceEEEEeChhhCCHHHHHHHHHHHHhcCCCeEEEEEECChhhcc
Confidence            100     00000011122222222221    13455689999998887677899988887766677777766654 443


Q ss_pred             HHhCC-CCeeeCCCCCCCc
Q 036619          334 RMMGS-TDIISIEQLAEEE  351 (352)
Q Consensus       334 ~~~~~-~~~~~l~~L~~~e  351 (352)
                      ..+-+ ...|++.+|+.++
T Consensus       164 ~TIrSRCq~f~Fk~Ls~ee  182 (830)
T PRK07003        164 VTVLSRCLQFNLKQMPAGH  182 (830)
T ss_pred             chhhhheEEEecCCcCHHH
Confidence            33322 5678888887654

>PRK14961 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.53  E-value=1e-06  Score=82.30  Aligned_cols=156  Identities=19%  Similarity=0.287  Sum_probs=88.2

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHH
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAII  263 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~  263 (352)
                      .+++|.+.-++.+.+.+....     -...+.++|+.|+||||+|+.+.+.-.....+.       ..++..-.....+.
T Consensus        16 ~~iiGq~~~~~~l~~~~~~~~-----~~h~~L~~Gp~G~GKTtla~~la~~l~c~~~~~-------~~pc~~c~~c~~~~   83 (363)
T PRK14961         16 RDIIGQKHIVTAISNGLSLGR-----IHHAWLLSGTRGVGKTTIARLLAKSLNCQNGIT-------SNPCRKCIICKEIE   83 (363)
T ss_pred             hhccChHHHHHHHHHHHHcCC-----CCeEEEEecCCCCCHHHHHHHHHHHhcCCCCCC-------CCCCCCCHHHHHHh
Confidence            468999999999888886532     245678999999999999999987422111110       00111001111111


Q ss_pred             HHhCCC-----C---CCcccHHHHHHHHHHh-cCCceEEEEecCCCCCCccChhHHHHhhccCCCCcEEEEecCC-hHHH
Q 036619          264 EGLGKS-----A---SGLNEFQSLMSRIQSS-IKGKKNFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKILVTTRN-ESVA  333 (352)
Q Consensus       264 ~~l~~~-----~---~~~~~~~~~~~~l~~~-l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTTR~-~~va  333 (352)
                      ......     .   ....+..++...+... ..+++-++|||++.......++.+...+.......++|++|.+ ..+.
T Consensus        84 ~~~~~d~~~~~~~~~~~v~~ir~i~~~~~~~p~~~~~kviIIDEa~~l~~~a~naLLk~lEe~~~~~~fIl~t~~~~~l~  163 (363)
T PRK14961         84 KGLCLDLIEIDAASRTKVEEMREILDNIYYSPSKSRFKVYLIDEVHMLSRHSFNALLKTLEEPPQHIKFILATTDVEKIP  163 (363)
T ss_pred             cCCCCceEEecccccCCHHHHHHHHHHHhcCcccCCceEEEEEChhhcCHHHHHHHHHHHhcCCCCeEEEEEcCChHhhh
Confidence            110000     0   0111122222222111 1345669999999887655688888888776667777776644 3444


Q ss_pred             HHh-CCCCeeeCCCCCCCc
Q 036619          334 RMM-GSTDIISIEQLAEEE  351 (352)
Q Consensus       334 ~~~-~~~~~~~l~~L~~~e  351 (352)
                      ..+ +-...+++.+++.++
T Consensus       164 ~tI~SRc~~~~~~~l~~~e  182 (363)
T PRK14961        164 KTILSRCLQFKLKIISEEK  182 (363)
T ss_pred             HHHHhhceEEeCCCCCHHH
Confidence            333 225678999988664

>PTZ00112 origin recognition complex 1 protein; Provisional

Probab=98.53  E-value=1.3e-06  Score=87.22  Aligned_cols=142  Identities=13%  Similarity=0.093  Sum_probs=87.8

Q ss_pred             CCccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhh---hccCC--eEEEEEeCCCCCHHH
Q 036619          183 EGEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEV---KRNFE--KVIWVCVSDTFDQIR  257 (352)
Q Consensus       183 ~~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~---~~~F~--~~~wv~vs~~~~~~~  257 (352)
                      +..+.||++|+++|...|...-.+ .....++-|+|++|.|||++++.|.+.-..   .....  ..++|++..-.+...
T Consensus       754 PD~LPhREeEIeeLasfL~paIkg-sgpnnvLYIyG~PGTGKTATVK~VLrELqeeaeqk~lp~f~vVYINCm~Lstp~s  832 (1164)
T PTZ00112        754 PKYLPCREKEIKEVHGFLESGIKQ-SGSNQILYISGMPGTGKTATVYSVIQLLQHKTKQKLLPSFNVFEINGMNVVHPNA  832 (1164)
T ss_pred             CCcCCChHHHHHHHHHHHHHHHhc-CCCCceEEEECCCCCCHHHHHHHHHHHHHHHHhhccCCCceEEEEeCCccCCHHH
Confidence            357899999999999888653321 123467789999999999999999875221   11222  356777777677888


Q ss_pred             HHHHHHHHhCCCCC-CcccHHHHHHHHHHhc-C--CceEEEEecCCCCCCccChhHHHHhhcc-CCCCcEEEE
Q 036619          258 IAKAIIEGLGKSAS-GLNEFQSLMSRIQSSI-K--GKKNFLVLDDVWDGDYNKWQPFFRCLKN-GLHGSKILV  325 (352)
Q Consensus       258 ~~~~i~~~l~~~~~-~~~~~~~~~~~l~~~l-~--~kr~LlVlDdvw~~~~~~~~~l~~~l~~-~~~gs~Iiv  325 (352)
                      ++..|.+++....+ .......+...+...+ .  ....+||||++..-....-+.|...|.. ...+++|+|
T Consensus       833 IYqvI~qqL~g~~P~~GlsS~evLerLF~~L~k~~r~v~IIILDEID~L~kK~QDVLYnLFR~~~~s~SKLiL  905 (1164)
T PTZ00112        833 AYQVLYKQLFNKKPPNALNSFKILDRLFNQNKKDNRNVSILIIDEIDYLITKTQKVLFTLFDWPTKINSKLVL  905 (1164)
T ss_pred             HHHHHHHHHcCCCCCccccHHHHHHHHHhhhhcccccceEEEeehHhhhCccHHHHHHHHHHHhhccCCeEEE
Confidence            89999988854432 2222333444454444 2  2245999999965421111234433332 234566554

>PRK12402 replication factor C small subunit 2; Reviewed

Probab=98.50  E-value=6.8e-07  Score=82.80  Aligned_cols=159  Identities=15%  Similarity=0.150  Sum_probs=83.4

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCC-eEEEEEeCCCCCHHHHHHHH
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFE-KVIWVCVSDTFDQIRIAKAI  262 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~-~~~wv~vs~~~~~~~~~~~i  262 (352)
                      ..++|++..++.|..++...      ..+.+.++|++|+||||+|+.+.+... ...+. ..+.++++...+.  ....+
T Consensus        15 ~~~~g~~~~~~~L~~~~~~~------~~~~lll~Gp~GtGKT~la~~~~~~l~-~~~~~~~~~~i~~~~~~~~--~~~~~   85 (337)
T PRK12402         15 EDILGQDEVVERLSRAVDSP------NLPHLLVQGPPGSGKTAAVRALARELY-GDPWENNFTEFNVADFFDQ--GKKYL   85 (337)
T ss_pred             HHhcCCHHHHHHHHHHHhCC------CCceEEEECCCCCCHHHHHHHHHHHhc-CcccccceEEechhhhhhc--chhhh
Confidence            45889999999988887543      234577999999999999999987421 12222 2334444331100  00000


Q ss_pred             H------HHhCCC-CCCcccHHHHHHHHHH---hc--CCceEEEEecCCCCCCccChhHHHHhhccCCCCcEEEEecCCh
Q 036619          263 I------EGLGKS-ASGLNEFQSLMSRIQS---SI--KGKKNFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKILVTTRNE  330 (352)
Q Consensus       263 ~------~~l~~~-~~~~~~~~~~~~~l~~---~l--~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTTR~~  330 (352)
                      .      ..++.. .......+.+...++.   ..  .+.+-+|||||+..........|...+......+++|+||.+.
T Consensus        86 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vlilDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~~~  165 (337)
T PRK12402         86 VEDPRFAHFLGTDKRIRSSKIDNFKHVLKEYASYRPLSADYKTILLDNAEALREDAQQALRRIMEQYSRTCRFIIATRQP  165 (337)
T ss_pred             hcCcchhhhhhhhhhhccchHHHHHHHHHHHHhcCCCCCCCcEEEEeCcccCCHHHHHHHHHHHHhccCCCeEEEEeCCh
Confidence            0      000000 0000011122222222   11  2345589999996654344556666665544557787777543


Q ss_pred             -HHHHHh-CCCCeeeCCCCCCCc
Q 036619          331 -SVARMM-GSTDIISIEQLAEEE  351 (352)
Q Consensus       331 -~va~~~-~~~~~~~l~~L~~~e  351 (352)
                       .+...+ .....+.+.+++.++
T Consensus       166 ~~~~~~L~sr~~~v~~~~~~~~~  188 (337)
T PRK12402        166 SKLIPPIRSRCLPLFFRAPTDDE  188 (337)
T ss_pred             hhCchhhcCCceEEEecCCCHHH
Confidence             222222 224567777777543

>PRK14963 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.50  E-value=1e-07  Score=92.22  Aligned_cols=162  Identities=20%  Similarity=0.220  Sum_probs=90.0

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHH
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAII  263 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~  263 (352)
                      .+++|.+.....|.+++....     -...+.++|++|+||||+|+.+.+.-...+.+...+|.|.+... +.......+
T Consensus        14 ~dvvGq~~v~~~L~~~i~~~~-----l~ha~Lf~GppGtGKTTlA~~lA~~l~c~~~~~~~cg~C~sc~~-i~~~~h~dv   87 (504)
T PRK14963         14 DEVVGQEHVKEVLLAALRQGR-----LGHAYLFSGPRGVGKTTTARLIAMAVNCSGEDPKPCGECESCLA-VRRGAHPDV   87 (504)
T ss_pred             HHhcChHHHHHHHHHHHHcCC-----CCeEEEEECCCCCCHHHHHHHHHHHHhccCCCCCCCCcChhhHH-HhcCCCCce
Confidence            358998888888888776533     24567899999999999999998754333333333343321100 000000000


Q ss_pred             HHhCCC-CCCcccHHHHHHHHHHh-cCCceEEEEecCCCCCCccChhHHHHhhccCCCCcEEEEec-CChHHHHHhCC-C
Q 036619          264 EGLGKS-ASGLNEFQSLMSRIQSS-IKGKKNFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKILVTT-RNESVARMMGS-T  339 (352)
Q Consensus       264 ~~l~~~-~~~~~~~~~~~~~l~~~-l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTT-R~~~va~~~~~-~  339 (352)
                      ..+... .....+..++...+... ..+++-++|||+++......++.|...+......+.+|++| ....+...+.+ .
T Consensus        88 ~el~~~~~~~vd~iR~l~~~~~~~p~~~~~kVVIIDEad~ls~~a~naLLk~LEep~~~t~~Il~t~~~~kl~~~I~SRc  167 (504)
T PRK14963         88 LEIDAASNNSVEDVRDLREKVLLAPLRGGRKVYILDEAHMMSKSAFNALLKTLEEPPEHVIFILATTEPEKMPPTILSRT  167 (504)
T ss_pred             EEecccccCCHHHHHHHHHHHhhccccCCCeEEEEECccccCHHHHHHHHHHHHhCCCCEEEEEEcCChhhCChHHhcce
Confidence            000000 00111122222222221 23566799999998776567888888887655555555555 44444433332 5


Q ss_pred             CeeeCCCCCCCc
Q 036619          340 DIISIEQLAEEE  351 (352)
Q Consensus       340 ~~~~l~~L~~~e  351 (352)
                      ..+++.+|++++
T Consensus       168 ~~~~f~~ls~~e  179 (504)
T PRK14963        168 QHFRFRRLTEEE  179 (504)
T ss_pred             EEEEecCCCHHH
Confidence            678999888764

>PRK14957 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.49  E-value=9.3e-07  Score=85.89  Aligned_cols=145  Identities=18%  Similarity=0.271  Sum_probs=89.7

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhc-------------------cCCeE
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKR-------------------NFEKV  244 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~-------------------~F~~~  244 (352)
                      .+++|.+..+..|.+.+....     -...+.++|+.|+||||+|+.+.+.-....                   .|...
T Consensus        16 ~diiGq~~~v~~L~~~i~~~r-----l~ha~Lf~Gp~GvGKTTlAr~lAk~L~c~~~~~~~pCg~C~sC~~i~~~~~~dl   90 (546)
T PRK14957         16 AEVAGQQHALNSLVHALETQK-----VHHAYLFTGTRGVGKTTLGRLLAKCLNCKTGVTAEPCNKCENCVAINNNSFIDL   90 (546)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-----CCeEEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCcccHHHHHHhcCCCCce
Confidence            468899999999988886432     245577899999999999999986321110                   11122


Q ss_pred             EEEEeCCCCCHHHHHHHHHHHhCCCCCCcccHHHHHHHHHHh-cCCceEEEEecCCCCCCccChhHHHHhhccCCCCcEE
Q 036619          245 IWVCVSDTFDQIRIAKAIIEGLGKSASGLNEFQSLMSRIQSS-IKGKKNFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKI  323 (352)
Q Consensus       245 ~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~-l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~I  323 (352)
                      +++.......+                  .+...+...+... ..+++-++|+|++...+...++.|+..+......+.+
T Consensus        91 ieidaas~~gv------------------d~ir~ii~~~~~~p~~g~~kViIIDEa~~ls~~a~naLLK~LEepp~~v~f  152 (546)
T PRK14957         91 IEIDAASRTGV------------------EETKEILDNIQYMPSQGRYKVYLIDEVHMLSKQSFNALLKTLEEPPEYVKF  152 (546)
T ss_pred             EEeecccccCH------------------HHHHHHHHHHHhhhhcCCcEEEEEechhhccHHHHHHHHHHHhcCCCCceE
Confidence            22222111111                  1222333333221 2456679999999877766788899988876666666


Q ss_pred             EE-ecCChHHHHHh-CCCCeeeCCCCCCCc
Q 036619          324 LV-TTRNESVARMM-GSTDIISIEQLAEEE  351 (352)
Q Consensus       324 iv-TTR~~~va~~~-~~~~~~~l~~L~~~e  351 (352)
                      |+ ||....+...+ +-...+++.+|+.++
T Consensus       153 IL~Ttd~~kil~tI~SRc~~~~f~~Ls~~e  182 (546)
T PRK14957        153 ILATTDYHKIPVTILSRCIQLHLKHISQAD  182 (546)
T ss_pred             EEEECChhhhhhhHHHheeeEEeCCCCHHH
Confidence            54 55444444333 336788999887654

>PLN03025 replication factor C subunit; Provisional

Probab=98.47  E-value=9.8e-07  Score=81.08  Aligned_cols=147  Identities=16%  Similarity=0.190  Sum_probs=81.9

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCC-eEEEEEeCCCCCHHHHHHHH
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFE-KVIWVCVSDTFDQIRIAKAI  262 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~-~~~wv~vs~~~~~~~~~~~i  262 (352)
                      .+++|.++.+..|..++...      ....+.++|++|+||||+|+.+.+.- ....|. ..+-++.++..+.. ..+++
T Consensus        13 ~~~~g~~~~~~~L~~~~~~~------~~~~lll~Gp~G~GKTtla~~la~~l-~~~~~~~~~~eln~sd~~~~~-~vr~~   84 (319)
T PLN03025         13 DDIVGNEDAVSRLQVIARDG------NMPNLILSGPPGTGKTTSILALAHEL-LGPNYKEAVLELNASDDRGID-VVRNK   84 (319)
T ss_pred             HHhcCcHHHHHHHHHHHhcC------CCceEEEECCCCCCHHHHHHHHHHHH-hcccCccceeeecccccccHH-HHHHH
Confidence            35788888777777766432      23446799999999999999998742 112222 12222333322221 12222


Q ss_pred             HHHhCCCCCCcccHHHHHHHHHHhcCCceEEEEecCCCCCCccChhHHHHhhccCCCCcEEEEecCC-hHHHHHhC-CCC
Q 036619          263 IEGLGKSASGLNEFQSLMSRIQSSIKGKKNFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKILVTTRN-ESVARMMG-STD  340 (352)
Q Consensus       263 ~~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTTR~-~~va~~~~-~~~  340 (352)
                      ++.+......             .-.++.-+++||++........+.|...+......+++|+++.. ..+-..+. -..
T Consensus        85 i~~~~~~~~~-------------~~~~~~kviiiDE~d~lt~~aq~aL~~~lE~~~~~t~~il~~n~~~~i~~~L~SRc~  151 (319)
T PLN03025         85 IKMFAQKKVT-------------LPPGRHKIVILDEADSMTSGAQQALRRTMEIYSNTTRFALACNTSSKIIEPIQSRCA  151 (319)
T ss_pred             HHHHHhcccc-------------CCCCCeEEEEEechhhcCHHHHHHHHHHHhcccCCceEEEEeCCccccchhHHHhhh
Confidence            2211110000             00245679999999877655566676666554456777766643 23322221 245


Q ss_pred             eeeCCCCCCCc
Q 036619          341 IISIEQLAEEE  351 (352)
Q Consensus       341 ~~~l~~L~~~e  351 (352)
                      .+++.++++++
T Consensus       152 ~i~f~~l~~~~  162 (319)
T PLN03025        152 IVRFSRLSDQE  162 (319)
T ss_pred             cccCCCCCHHH
Confidence            78888887654

>PRK12323 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.46  E-value=1e-06  Score=86.04  Aligned_cols=161  Identities=16%  Similarity=0.180  Sum_probs=89.7

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHH
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAII  263 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~  263 (352)
                      .+++|.+..++.|.+.+....     -...+.++|..|+||||+|+.+.+.-.....-...- + .+..+..-.....|.
T Consensus        16 ddVIGQe~vv~~L~~al~~gR-----LpHA~LFtGP~GvGKTTLAriLAkaLnC~~p~~~~g-~-~~~PCG~C~sC~~I~   88 (700)
T PRK12323         16 TTLVGQEHVVRALTHALEQQR-----LHHAYLFTGTRGVGKTTLSRILAKSLNCTGADGEGG-I-TAQPCGQCRACTEID   88 (700)
T ss_pred             HHHcCcHHHHHHHHHHHHhCC-----CceEEEEECCCCCCHHHHHHHHHHHhcCCCcccccc-C-CCCCCcccHHHHHHH
Confidence            468999999999999886543     245678999999999999998876422110000000 0 000111111111111


Q ss_pred             HH-----hCCCCCCcccHHHHHHHHHHh----cCCceEEEEecCCCCCCccChhHHHHhhccCCCCcEE-EEecCChHHH
Q 036619          264 EG-----LGKSASGLNEFQSLMSRIQSS----IKGKKNFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKI-LVTTRNESVA  333 (352)
Q Consensus       264 ~~-----l~~~~~~~~~~~~~~~~l~~~----l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~I-ivTTR~~~va  333 (352)
                      ..     +..........+++.+.+...    ..++.-++|||++...+...++.|+..|..-..++++ ++||....+.
T Consensus        89 aG~hpDviEIdAas~~gVDdIReLie~~~~~P~~gr~KViIIDEah~Ls~~AaNALLKTLEEPP~~v~FILaTtep~kLl  168 (700)
T PRK12323         89 AGRFVDYIEMDAASNRGVDEMAQLLDKAVYAPTAGRFKVYMIDEVHMLTNHAFNAMLKTLEEPPEHVKFILATTDPQKIP  168 (700)
T ss_pred             cCCCCcceEecccccCCHHHHHHHHHHHHhchhcCCceEEEEEChHhcCHHHHHHHHHhhccCCCCceEEEEeCChHhhh
Confidence            10     000000111223322222221    2456679999999988777888888888765455554 5555555665


Q ss_pred             HHhCC-CCeeeCCCCCCCc
Q 036619          334 RMMGS-TDIISIEQLAEEE  351 (352)
Q Consensus       334 ~~~~~-~~~~~l~~L~~~e  351 (352)
                      ..+-+ ...|++.+++.++
T Consensus       169 pTIrSRCq~f~f~~ls~ee  187 (700)
T PRK12323        169 VTVLSRCLQFNLKQMPPGH  187 (700)
T ss_pred             hHHHHHHHhcccCCCChHH
Confidence            44433 5677888877654

>TIGR00767 rho transcription termination factor Rho

Probab=98.46  E-value=4.8e-07  Score=83.65  Aligned_cols=90  Identities=16%  Similarity=0.073  Sum_probs=63.1

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCC--CCHHHHHHHHHHHhCCCCCCccc------HHHHHHH
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDT--FDQIRIAKAIIEGLGKSASGLNE------FQSLMSR  282 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~--~~~~~~~~~i~~~l~~~~~~~~~------~~~~~~~  282 (352)
                      -..++|+|++|+|||||++.+++... .+||+..+||.+++.  .++.++++.|+..+-...-+...      ...+...
T Consensus       168 Gq~~~IvG~~g~GKTtL~~~i~~~I~-~nhfdv~v~VlLIgER~~EVtDLqrsIlg~Vvast~d~p~~~~~~va~~v~e~  246 (415)
T TIGR00767       168 GQRGLIVAPPKAGKTVLLQKIAQAIT-RNHPEVELIVLLIDERPEEVTDMQRSVKGEVVASTFDEPASRHVQVAEMVIEK  246 (415)
T ss_pred             CCEEEEECCCCCChhHHHHHHHHhhc-ccCCceEEEEEEcCCCCccHHHHHHHhhceEEEecCCCChHHHHHHHHHHHHH
Confidence            46788999999999999999999643 347999999999876  78899998885443222111111      1222233


Q ss_pred             HHHh-cCCceEEEEecCCCC
Q 036619          283 IQSS-IKGKKNFLVLDDVWD  301 (352)
Q Consensus       283 l~~~-l~~kr~LlVlDdvw~  301 (352)
                      ...+ -++++.+|++|++..
T Consensus       247 Ae~~~~~GkdVVLlIDEitR  266 (415)
T TIGR00767       247 AKRLVEHKKDVVILLDSITR  266 (415)
T ss_pred             HHHHHHcCCCeEEEEEChhH
Confidence            3333 268999999999953

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

>PRK14949 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.44  E-value=1.2e-06  Score=88.20  Aligned_cols=156  Identities=15%  Similarity=0.250  Sum_probs=90.0

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHH
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAII  263 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~  263 (352)
                      ..++|.+.-+..|.+++....     -...+.++|+.|+||||+|+.+.+.-.......      .. ++..-.....|.
T Consensus        16 ddIIGQe~Iv~~LknaI~~~r-----l~HAyLFtGPpGtGKTTLARiLAk~Lnce~~~~------~~-pCg~C~sC~~i~   83 (944)
T PRK14949         16 EQMVGQSHVLHALTNALTQQR-----LHHAYLFTGTRGVGKTSLARLFAKGLNCEQGVT------AT-PCGVCSSCVEIA   83 (944)
T ss_pred             HHhcCcHHHHHHHHHHHHhCC-----CCeEEEEECCCCCCHHHHHHHHHHhccCccCCC------CC-CCCCchHHHHHh
Confidence            468999999999988886533     235567999999999999999987421111100      00 000000011111


Q ss_pred             HHh-------CCC-CCCcccHHHHHHHHHHh-cCCceEEEEecCCCCCCccChhHHHHhhccCCCCcEEEEec-CChHHH
Q 036619          264 EGL-------GKS-ASGLNEFQSLMSRIQSS-IKGKKNFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKILVTT-RNESVA  333 (352)
Q Consensus       264 ~~l-------~~~-~~~~~~~~~~~~~l~~~-l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTT-R~~~va  333 (352)
                      ...       ... ..+..++.++...+... ..+++-++|||++.......++.|+..+.......++|++| ....+.
T Consensus        84 ~g~~~DviEidAas~~kVDdIReLie~v~~~P~~gk~KViIIDEAh~LT~eAqNALLKtLEEPP~~vrFILaTTe~~kLl  163 (944)
T PRK14949         84 QGRFVDLIEVDAASRTKVDDTRELLDNVQYRPSRGRFKVYLIDEVHMLSRSSFNALLKTLEEPPEHVKFLLATTDPQKLP  163 (944)
T ss_pred             cCCCceEEEeccccccCHHHHHHHHHHHHhhhhcCCcEEEEEechHhcCHHHHHHHHHHHhccCCCeEEEEECCCchhch
Confidence            100       000 01111222233222211 24677799999998887778888888887655566665554 445554


Q ss_pred             HHh-CCCCeeeCCCCCCCc
Q 036619          334 RMM-GSTDIISIEQLAEEE  351 (352)
Q Consensus       334 ~~~-~~~~~~~l~~L~~~e  351 (352)
                      ..+ .-...|++.+|+.++
T Consensus       164 ~TIlSRCq~f~fkpLs~eE  182 (944)
T PRK14949        164 VTVLSRCLQFNLKSLTQDE  182 (944)
T ss_pred             HHHHHhheEEeCCCCCHHH
Confidence            333 235679999998654

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

Probab=98.44  E-value=5.5e-07  Score=90.51  Aligned_cols=135  Identities=21%  Similarity=0.358  Sum_probs=76.3

Q ss_pred             CccccccchHH---HHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHH
Q 036619          184 GEVCGRVDEKS---ELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAK  260 (352)
Q Consensus       184 ~~~~gr~~~~~---~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~  260 (352)
                      .+++|.+..+.   .+...+..      .....+.++|++|+||||||+.+++.  ...+|.   .++.+. ...     
T Consensus        28 dd~vGQe~ii~~~~~L~~~i~~------~~~~slLL~GPpGtGKTTLA~aIA~~--~~~~f~---~lna~~-~~i-----   90 (725)
T PRK13341         28 EEFVGQDHILGEGRLLRRAIKA------DRVGSLILYGPPGVGKTTLARIIANH--TRAHFS---SLNAVL-AGV-----   90 (725)
T ss_pred             HHhcCcHHHhhhhHHHHHHHhc------CCCceEEEECCCCCCHHHHHHHHHHH--hcCcce---eehhhh-hhh-----
Confidence            35788877664   34444433      23556789999999999999999974  333441   111110 000     


Q ss_pred             HHHHHhCCCCCCcccHHHHHHHHHHhc--CCceEEEEecCCCCCCccChhHHHHhhccCCCCcEEEE--ecCChH--HHH
Q 036619          261 AIIEGLGKSASGLNEFQSLMSRIQSSI--KGKKNFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKILV--TTRNES--VAR  334 (352)
Q Consensus       261 ~i~~~l~~~~~~~~~~~~~~~~l~~~l--~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~Iiv--TTR~~~--va~  334 (352)
                                   .+...........+  .+++.+|||||++..+...++.|...+.   .|+.+++  ||.+..  +..
T Consensus        91 -------------~dir~~i~~a~~~l~~~~~~~IL~IDEIh~Ln~~qQdaLL~~lE---~g~IiLI~aTTenp~~~l~~  154 (725)
T PRK13341         91 -------------KDLRAEVDRAKERLERHGKRTILFIDEVHRFNKAQQDALLPWVE---NGTITLIGATTENPYFEVNK  154 (725)
T ss_pred             -------------HHHHHHHHHHHHHhhhcCCceEEEEeChhhCCHHHHHHHHHHhc---CceEEEEEecCCChHhhhhh
Confidence                         11111222222222  2467799999998765555666665554   3565555  344432  222


Q ss_pred             Hh-CCCCeeeCCCCCCCc
Q 036619          335 MM-GSTDIISIEQLAEEE  351 (352)
Q Consensus       335 ~~-~~~~~~~l~~L~~~e  351 (352)
                      .+ +-...+.+.+|+.++
T Consensus       155 aL~SR~~v~~l~pLs~ed  172 (725)
T PRK13341        155 ALVSRSRLFRLKSLSDED  172 (725)
T ss_pred             HhhccccceecCCCCHHH
Confidence            22 225678999998764

>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed

Probab=98.41  E-value=5.7e-07  Score=82.98  Aligned_cols=50  Identities=30%  Similarity=0.370  Sum_probs=38.9

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..|+|+++.++.+..++..... .......+.|+|++|+|||+||+.+.+.
T Consensus        25 ~~~vG~~~~~~~l~~~l~~~~~-~~~~~~~~ll~GppG~GKT~la~~ia~~   74 (328)
T PRK00080         25 DEFIGQEKVKENLKIFIEAAKK-RGEALDHVLLYGPPGLGKTTLANIIANE   74 (328)
T ss_pred             HHhcCcHHHHHHHHHHHHHHHh-cCCCCCcEEEECCCCccHHHHHHHHHHH
Confidence            5699999999998877753211 1134567789999999999999999985

>PRK14960 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.41  E-value=2.1e-06  Score=84.01  Aligned_cols=156  Identities=18%  Similarity=0.209  Sum_probs=90.0

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHH
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAII  263 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~  263 (352)
                      .+++|.+.....|.+++....     -...+.++|+.|+||||+|+.+.+.-....      |+.. .+++.-...+.|.
T Consensus        15 ddVIGQe~vv~~L~~aI~~gr-----l~HAyLF~GPpGvGKTTlAriLAK~LnC~~------~~~~-~pCg~C~sC~~I~   82 (702)
T PRK14960         15 NELVGQNHVSRALSSALERGR-----LHHAYLFTGTRGVGKTTIARILAKCLNCET------GVTS-TPCEVCATCKAVN   82 (702)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-----CCeEEEEECCCCCCHHHHHHHHHHHhCCCc------CCCC-CCCccCHHHHHHh
Confidence            468999999999999886543     246778999999999999998876421111      1111 1111111111111


Q ss_pred             HHhCC-----CCCCcccHHHHH---HHHHHh-cCCceEEEEecCCCCCCccChhHHHHhhccCCCCcEEEEecCCh-HHH
Q 036619          264 EGLGK-----SASGLNEFQSLM---SRIQSS-IKGKKNFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKILVTTRNE-SVA  333 (352)
Q Consensus       264 ~~l~~-----~~~~~~~~~~~~---~~l~~~-l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTTR~~-~va  333 (352)
                      ..-..     ........+++.   ..+... ..++.-++|||++...+....+.|...+.....+.++|++|.+. .+.
T Consensus        83 ~g~hpDviEIDAAs~~~VddIReli~~~~y~P~~gk~KV~IIDEVh~LS~~A~NALLKtLEEPP~~v~FILaTtd~~kIp  162 (702)
T PRK14960         83 EGRFIDLIEIDAASRTKVEDTRELLDNVPYAPTQGRFKVYLIDEVHMLSTHSFNALLKTLEEPPEHVKFLFATTDPQKLP  162 (702)
T ss_pred             cCCCCceEEecccccCCHHHHHHHHHHHhhhhhcCCcEEEEEechHhcCHHHHHHHHHHHhcCCCCcEEEEEECChHhhh
Confidence            10000     000011222222   222111 23566799999998876667888888887766667777766553 333


Q ss_pred             HH-hCCCCeeeCCCCCCCc
Q 036619          334 RM-MGSTDIISIEQLAEEE  351 (352)
Q Consensus       334 ~~-~~~~~~~~l~~L~~~e  351 (352)
                      .. .+-...+++.+|+.++
T Consensus       163 ~TIlSRCq~feFkpLs~eE  181 (702)
T PRK14960        163 ITVISRCLQFTLRPLAVDE  181 (702)
T ss_pred             HHHHHhhheeeccCCCHHH
Confidence            22 2335678888888654

>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit

Probab=98.40  E-value=1.1e-06  Score=80.15  Aligned_cols=153  Identities=20%  Similarity=0.137  Sum_probs=79.6

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHH
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAII  263 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~  263 (352)
                      .+|+|+++.+++|..++..... ....+..+.++|++|+|||+||+.+.+..  ...|   ..++.+...... .+...+
T Consensus         4 ~~~iG~~~~~~~l~~~l~~~~~-~~~~~~~~ll~Gp~G~GKT~la~~ia~~~--~~~~---~~~~~~~~~~~~-~l~~~l   76 (305)
T TIGR00635         4 AEFIGQEKVKEQLQLFIEAAKM-RQEALDHLLLYGPPGLGKTTLAHIIANEM--GVNL---KITSGPALEKPG-DLAAIL   76 (305)
T ss_pred             HHHcCHHHHHHHHHHHHHHHHh-cCCCCCeEEEECCCCCCHHHHHHHHHHHh--CCCE---EEeccchhcCch-hHHHHH
Confidence            4689999999999888853221 11335567899999999999999998742  2221   122221111111 222223


Q ss_pred             HHhCCCCC-CcccH----HHHHHHHHHhcCCceEEEEecCCCCCCccChhHHHHhhccCCCCcEEEEecCChHHHHHhCC
Q 036619          264 EGLGKSAS-GLNEF----QSLMSRIQSSIKGKKNFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKILVTTRNESVARMMGS  338 (352)
Q Consensus       264 ~~l~~~~~-~~~~~----~~~~~~l~~~l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTTR~~~va~~~~~  338 (352)
                      ..+..... -.++.    ......+...+.+.+..+|+++....  ..|..   .+   .+.+-|..||+...+...+-.
T Consensus        77 ~~~~~~~vl~iDEi~~l~~~~~e~l~~~~~~~~~~~v~~~~~~~--~~~~~---~~---~~~~li~~t~~~~~l~~~l~s  148 (305)
T TIGR00635        77 TNLEEGDVLFIDEIHRLSPAVEELLYPAMEDFRLDIVIGKGPSA--RSVRL---DL---PPFTLVGATTRAGMLTSPLRD  148 (305)
T ss_pred             HhcccCCEEEEehHhhhCHHHHHHhhHHHhhhheeeeeccCccc--cceee---cC---CCeEEEEecCCccccCHHHHh
Confidence            33322110 00010    11233455555556666666655332  11211   11   224556667776554443211


Q ss_pred             --CCeeeCCCCCCCc
Q 036619          339 --TDIISIEQLAEEE  351 (352)
Q Consensus       339 --~~~~~l~~L~~~e  351 (352)
                        ...+++++++++|
T Consensus       149 R~~~~~~l~~l~~~e  163 (305)
T TIGR00635       149 RFGIILRLEFYTVEE  163 (305)
T ss_pred             hcceEEEeCCCCHHH
Confidence              3567888888765

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.

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=98.40  E-value=8.1e-06  Score=80.95  Aligned_cols=130  Identities=23%  Similarity=0.305  Sum_probs=89.9

Q ss_pred             HHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCC-CCCHHHHHHHHHHHhCCCCC
Q 036619          193 KSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSD-TFDQIRIAKAIIEGLGKSAS  271 (352)
Q Consensus       193 ~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~-~~~~~~~~~~i~~~l~~~~~  271 (352)
                      +.+|++.|...     .+.+.+.|..++|.|||||+-.....   ...=..+.|.++.. +.+...+++.++..++.-.+
T Consensus        24 R~rL~~~L~~~-----~~~RL~li~APAGfGKttl~aq~~~~---~~~~~~v~Wlslde~dndp~rF~~yLi~al~~~~p   95 (894)
T COG2909          24 RPRLLDRLRRA-----NDYRLILISAPAGFGKTTLLAQWREL---AADGAAVAWLSLDESDNDPARFLSYLIAALQQATP   95 (894)
T ss_pred             cHHHHHHHhcC-----CCceEEEEeCCCCCcHHHHHHHHHHh---cCcccceeEeecCCccCCHHHHHHHHHHHHHHhCc
Confidence            44577777543     35799999999999999999888751   22234699999866 56788999999988875433


Q ss_pred             Cc-------------ccHHHHHHHHHHhcC--CceEEEEecCCCCCCccChhH-HHHhhccCCCCcEEEEecCCh
Q 036619          272 GL-------------NEFQSLMSRIQSSIK--GKKNFLVLDDVWDGDYNKWQP-FFRCLKNGLHGSKILVTTRNE  330 (352)
Q Consensus       272 ~~-------------~~~~~~~~~l~~~l~--~kr~LlVlDdvw~~~~~~~~~-l~~~l~~~~~gs~IivTTR~~  330 (352)
                      ..             .+...+...+..-|.  .++.++||||..-........ +...+...+.+-.+|||||+.
T Consensus        96 ~~~~~a~~l~q~~~~~~l~~l~~~L~~Ela~~~~pl~LVlDDyHli~~~~l~~~l~fLl~~~P~~l~lvv~SR~r  170 (894)
T COG2909          96 TLGDEAQTLLQKHQYVSLESLLSSLLNELASYEGPLYLVLDDYHLISDPALHEALRFLLKHAPENLTLVVTSRSR  170 (894)
T ss_pred             cccHHHHHHHHhcccccHHHHHHHHHHHHHhhcCceEEEeccccccCcccHHHHHHHHHHhCCCCeEEEEEeccC
Confidence            22             123334444444342  467999999987654445554 444455667788999999986

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

Probab=98.39  E-value=1.8e-06  Score=81.18  Aligned_cols=120  Identities=14%  Similarity=0.163  Sum_probs=77.7

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHH
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAII  263 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~  263 (352)
                      ..+++.++..+.++..|..        .+.+.++|++|+|||++|+.+++......+|+.+.||++++.++...++..+ 
T Consensus       175 ~d~~i~e~~le~l~~~L~~--------~~~iil~GppGtGKT~lA~~la~~l~~~~~~~~v~~VtFHpsySYeDFI~G~-  245 (459)
T PRK11331        175 NDLFIPETTIETILKRLTI--------KKNIILQGPPGVGKTFVARRLAYLLTGEKAPQRVNMVQFHQSYSYEDFIQGY-  245 (459)
T ss_pred             hcccCCHHHHHHHHHHHhc--------CCCEEEECCCCCCHHHHHHHHHHHhcCCcccceeeEEeecccccHHHHhccc-
Confidence            4578888899999998864        2457789999999999999999865445578899999999988877665322 


Q ss_pred             HHhCCCCCCcccH-HHHHHHHHHhc--CCceEEEEecCCCCCCccC-hhHHHHhhc
Q 036619          264 EGLGKSASGLNEF-QSLMSRIQSSI--KGKKNFLVLDDVWDGDYNK-WQPFFRCLK  315 (352)
Q Consensus       264 ~~l~~~~~~~~~~-~~~~~~l~~~l--~~kr~LlVlDdvw~~~~~~-~~~l~~~l~  315 (352)
                         .....+-.-. .-+.+.+....  .+++++||||++...+.+. +..+...+.
T Consensus       246 ---rP~~vgy~~~~G~f~~~~~~A~~~p~~~~vliIDEINRani~kiFGel~~lLE  298 (459)
T PRK11331        246 ---RPNGVGFRRKDGIFYNFCQQAKEQPEKKYVFIIDEINRANLSKVFGEVMMLME  298 (459)
T ss_pred             ---CCCCCCeEecCchHHHHHHHHHhcccCCcEEEEehhhccCHHHhhhhhhhhcc
Confidence               1111110000 11122222222  2468999999996654332 455555443

>PRK06645 DNA polymerase III subunits gamma and tau; Validated

Probab=98.39  E-value=3.2e-06  Score=81.68  Aligned_cols=159  Identities=16%  Similarity=0.192  Sum_probs=90.6

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCe-EEEEEeCCCCCHHHHHHHH
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEK-VIWVCVSDTFDQIRIAKAI  262 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~-~~wv~vs~~~~~~~~~~~i  262 (352)
                      .+++|.+..+..|.+.+....     -...+.++|+.|+||||+|+.+++.-.....+.. ..+..+    ..-.....|
T Consensus        21 ~dliGq~~vv~~L~~ai~~~r-----i~~a~Lf~Gp~G~GKTT~ArilAk~Lnc~~~~~~~~~~~~C----~~C~~C~~i   91 (507)
T PRK06645         21 AELQGQEVLVKVLSYTILNDR-----LAGGYLLTGIRGVGKTTSARIIAKAVNCSALITENTTIKTC----EQCTNCISF   91 (507)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-----CCceEEEECCCCCCHHHHHHHHHHHhcCccccccCcCcCCC----CCChHHHHH
Confidence            458899888888888775432     2457789999999999999999874221111100 000000    000111111


Q ss_pred             HHHhCC--------CCCCcccHHHHHHHHHHh-cCCceEEEEecCCCCCCccChhHHHHhhccCCCCcEEE-EecCChHH
Q 036619          263 IEGLGK--------SASGLNEFQSLMSRIQSS-IKGKKNFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKIL-VTTRNESV  332 (352)
Q Consensus       263 ~~~l~~--------~~~~~~~~~~~~~~l~~~-l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~Ii-vTTR~~~v  332 (352)
                      ......        ...+..++..+.+..... +.+++-++|+|+++......|+.|...+......+.+| .||+.+.+
T Consensus        92 ~~~~h~Dv~eidaas~~~vd~Ir~iie~a~~~P~~~~~KVvIIDEa~~Ls~~a~naLLk~LEepp~~~vfI~aTte~~kI  171 (507)
T PRK06645         92 NNHNHPDIIEIDAASKTSVDDIRRIIESAEYKPLQGKHKIFIIDEVHMLSKGAFNALLKTLEEPPPHIIFIFATTEVQKI  171 (507)
T ss_pred             hcCCCCcEEEeeccCCCCHHHHHHHHHHHHhccccCCcEEEEEEChhhcCHHHHHHHHHHHhhcCCCEEEEEEeCChHHh
Confidence            111000        001112222222222211 24667799999998876677899988888765666655 46666666


Q ss_pred             HHHhCC-CCeeeCCCCCCCc
Q 036619          333 ARMMGS-TDIISIEQLAEEE  351 (352)
Q Consensus       333 a~~~~~-~~~~~l~~L~~~e  351 (352)
                      ...+.. ...+++.+++.++
T Consensus       172 ~~tI~SRc~~~ef~~ls~~e  191 (507)
T PRK06645        172 PATIISRCQRYDLRRLSFEE  191 (507)
T ss_pred             hHHHHhcceEEEccCCCHHH
Confidence            654433 5678888887654

>PRK00440 rfc replication factor C small subunit; Reviewed

Probab=98.37  E-value=3.9e-06  Score=77.06  Aligned_cols=145  Identities=14%  Similarity=0.170  Sum_probs=80.7

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEe--CCCCCHHHHHHH
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCV--SDTFDQIRIAKA  261 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~v--s~~~~~~~~~~~  261 (352)
                      .+++|+++.++.+..++....      .+.+.++|.+|+||||+++.+.+.- ....+. ..++.+  +...... ...+
T Consensus        17 ~~~~g~~~~~~~l~~~i~~~~------~~~~ll~G~~G~GKt~~~~~l~~~l-~~~~~~-~~~i~~~~~~~~~~~-~~~~   87 (319)
T PRK00440         17 DEIVGQEEIVERLKSYVKEKN------MPHLLFAGPPGTGKTTAALALAREL-YGEDWR-ENFLELNASDERGID-VIRN   87 (319)
T ss_pred             HHhcCcHHHHHHHHHHHhCCC------CCeEEEECCCCCCHHHHHHHHHHHH-cCCccc-cceEEeccccccchH-HHHH
Confidence            458899999999998885432      3346899999999999999998752 111221 112222  2222211 1111


Q ss_pred             HHHHhCCCCCCcccHHHHHHHHHHhcCCceEEEEecCCCCCCccChhHHHHhhccCCCCcEEEEecCCh-HHHHHh-CCC
Q 036619          262 IIEGLGKSASGLNEFQSLMSRIQSSIKGKKNFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKILVTTRNE-SVARMM-GST  339 (352)
Q Consensus       262 i~~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTTR~~-~va~~~-~~~  339 (352)
                      .+..+....+              .....+-+|++|++..........|...+......+.+|+++... .+...+ ...
T Consensus        88 ~i~~~~~~~~--------------~~~~~~~vviiDe~~~l~~~~~~~L~~~le~~~~~~~lIl~~~~~~~l~~~l~sr~  153 (319)
T PRK00440         88 KIKEFARTAP--------------VGGAPFKIIFLDEADNLTSDAQQALRRTMEMYSQNTRFILSCNYSSKIIDPIQSRC  153 (319)
T ss_pred             HHHHHHhcCC--------------CCCCCceEEEEeCcccCCHHHHHHHHHHHhcCCCCCeEEEEeCCccccchhHHHHh
Confidence            1111110000              001345689999986654445566777776555566777766432 222211 123


Q ss_pred             CeeeCCCCCCCc
Q 036619          340 DIISIEQLAEEE  351 (352)
Q Consensus       340 ~~~~l~~L~~~e  351 (352)
                      ..+++.++++++
T Consensus       154 ~~~~~~~l~~~e  165 (319)
T PRK00440        154 AVFRFSPLKKEA  165 (319)
T ss_pred             heeeeCCCCHHH
Confidence            467777777654

>PRK14962 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.36  E-value=2.9e-06  Score=81.48  Aligned_cols=145  Identities=19%  Similarity=0.239  Sum_probs=81.3

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhcc--C-----------------CeE
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRN--F-----------------EKV  244 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~--F-----------------~~~  244 (352)
                      .+++|.+.....|...+....     -...+.++|++|+||||+|+.+.+.-.....  +                 ...
T Consensus        14 ~divGq~~i~~~L~~~i~~~~-----l~~~~Lf~GPpGtGKTTlA~~lA~~l~~~~~~~~~pc~~c~~c~~i~~g~~~dv   88 (472)
T PRK14962         14 SEVVGQDHVKKLIINALKKNS-----ISHAYIFAGPRGTGKTTVARILAKSLNCENRKGVEPCNECRACRSIDEGTFMDV   88 (472)
T ss_pred             HHccCcHHHHHHHHHHHHcCC-----CCeEEEEECCCCCCHHHHHHHHHHHhccccCCCCCCCcccHHHHHHhcCCCCcc
Confidence            468998877777777665432     2356789999999999999999874211110  0                 011


Q ss_pred             EEEEeCCCCCHHHHHHHHHHHhCCCCCCcccHHHHHHHHHHh-cCCceEEEEecCCCCCCccChhHHHHhhccCCCCcEE
Q 036619          245 IWVCVSDTFDQIRIAKAIIEGLGKSASGLNEFQSLMSRIQSS-IKGKKNFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKI  323 (352)
Q Consensus       245 ~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~-l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~I  323 (352)
                      ..++.+......                  +...+...+... ..+++-++|+|+++.......+.|...+........+
T Consensus        89 ~el~aa~~~gid------------------~iR~i~~~~~~~p~~~~~kVvIIDE~h~Lt~~a~~~LLk~LE~p~~~vv~  150 (472)
T PRK14962         89 IELDAASNRGID------------------EIRKIRDAVGYRPMEGKYKVYIIDEVHMLTKEAFNALLKTLEEPPSHVVF  150 (472)
T ss_pred             EEEeCcccCCHH------------------HHHHHHHHHhhChhcCCeEEEEEEChHHhHHHHHHHHHHHHHhCCCcEEE
Confidence            112221111111                  111111211111 2356679999999765445566777777654444444


Q ss_pred             EEecCC-hHHHHHhC-CCCeeeCCCCCCCc
Q 036619          324 LVTTRN-ESVARMMG-STDIISIEQLAEEE  351 (352)
Q Consensus       324 ivTTR~-~~va~~~~-~~~~~~l~~L~~~e  351 (352)
                      |++|.+ ..+...+. ....+++.++++++
T Consensus       151 Ilattn~~kl~~~L~SR~~vv~f~~l~~~e  180 (472)
T PRK14962        151 VLATTNLEKVPPTIISRCQVIEFRNISDEL  180 (472)
T ss_pred             EEEeCChHhhhHHHhcCcEEEEECCccHHH
Confidence            444433 44544433 35678888887654

>PRK14955 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.35  E-value=2.1e-06  Score=81.18  Aligned_cols=163  Identities=15%  Similarity=0.209  Sum_probs=88.2

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEE-eCCCCCHHHHHHHH
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVC-VSDTFDQIRIAKAI  262 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~-vs~~~~~~~~~~~i  262 (352)
                      .+++|.+.-++.|.+++....     -...+.++|+.|+||||+|..+.+.-.....+....|.. ...++..-...+.+
T Consensus        16 ~eiiGq~~~~~~L~~~~~~~~-----~~ha~lf~Gp~G~GKtt~A~~~a~~l~c~~~~~~~~~~~~~~~~c~~c~~c~~~   90 (397)
T PRK14955         16 ADITAQEHITRTIQNSLRMGR-----VGHGYIFSGLRGVGKTTAARVFAKAVNCQRMIDDADYLQEVTEPCGECESCRDF   90 (397)
T ss_pred             hhccChHHHHHHHHHHHHhCC-----cceeEEEECCCCCCHHHHHHHHHHHhcCCCCcCcccccccCCCCCCCCHHHHHH
Confidence            468898888888888775432     234577999999999999998876422211111111110 01111111122222


Q ss_pred             HHHhCCC-----CCCcccHHHHHHHHHHh----cCCceEEEEecCCCCCCccChhHHHHhhccCCCCcEEEEec-CChHH
Q 036619          263 IEGLGKS-----ASGLNEFQSLMSRIQSS----IKGKKNFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKILVTT-RNESV  332 (352)
Q Consensus       263 ~~~l~~~-----~~~~~~~~~~~~~l~~~----l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTT-R~~~v  332 (352)
                      .......     .......+++.+.+...    ..+++-++|+|++.......++.+...+....+.+.+|++| +...+
T Consensus        91 ~~~~~~n~~~~~~~~~~~id~Ir~l~~~~~~~p~~~~~kvvIIdea~~l~~~~~~~LLk~LEep~~~t~~Il~t~~~~kl  170 (397)
T PRK14955         91 DAGTSLNISEFDAASNNSVDDIRLLRENVRYGPQKGRYRVYIIDEVHMLSIAAFNAFLKTLEEPPPHAIFIFATTELHKI  170 (397)
T ss_pred             hcCCCCCeEeecccccCCHHHHHHHHHHHhhchhcCCeEEEEEeChhhCCHHHHHHHHHHHhcCCCCeEEEEEeCChHHh
Confidence            2111110     00111123333222111    23556688999998776567888988888766677666554 44444


Q ss_pred             HHHhCC-CCeeeCCCCCCCc
Q 036619          333 ARMMGS-TDIISIEQLAEEE  351 (352)
Q Consensus       333 a~~~~~-~~~~~l~~L~~~e  351 (352)
                      ...+.. ...+++.++++++
T Consensus       171 ~~tl~sR~~~v~f~~l~~~e  190 (397)
T PRK14955        171 PATIASRCQRFNFKRIPLEE  190 (397)
T ss_pred             HHHHHHHHHHhhcCCCCHHH
Confidence            433221 3467777777553

>PRK14951 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.34  E-value=3e-06  Score=83.45  Aligned_cols=159  Identities=14%  Similarity=0.185  Sum_probs=88.6

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccC--CeEEEEEeCCCCCHHHHHHH
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNF--EKVIWVCVSDTFDQIRIAKA  261 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F--~~~~wv~vs~~~~~~~~~~~  261 (352)
                      .+++|.+..+..|.+++....     -...+.++|+.|+||||+|+.+.+.-......  ...-    ..+++.-...+.
T Consensus        16 ~dviGQe~vv~~L~~~l~~~r-----l~ha~Lf~Gp~GvGKTtlAr~lAk~LnC~~~~~~~~~~----~~pCg~C~~C~~   86 (618)
T PRK14951         16 SEMVGQEHVVQALTNALTQQR-----LHHAYLFTGTRGVGKTTVSRILAKSLNCQGPDGQGGIT----ATPCGVCQACRD   86 (618)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-----CCeEEEEECCCCCCHHHHHHHHHHHhcCCCcccccCCC----CCCCCccHHHHH
Confidence            468998888888888886543     24667899999999999999886532111100  0000    011111122222


Q ss_pred             HHHHhCC-----CCCCcccHHHHHHHHHHh----cCCceEEEEecCCCCCCccChhHHHHhhccCCCCcEEEEec-CChH
Q 036619          262 IIEGLGK-----SASGLNEFQSLMSRIQSS----IKGKKNFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKILVTT-RNES  331 (352)
Q Consensus       262 i~~~l~~-----~~~~~~~~~~~~~~l~~~----l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTT-R~~~  331 (352)
                      |...-..     ........+++.+.+...    ..++.-++|||+++..+...++.|+..+......+++|++| ....
T Consensus        87 i~~g~h~D~~eldaas~~~Vd~iReli~~~~~~p~~g~~KV~IIDEvh~Ls~~a~NaLLKtLEEPP~~~~fIL~Ttd~~k  166 (618)
T PRK14951         87 IDSGRFVDYTELDAASNRGVDEVQQLLEQAVYKPVQGRFKVFMIDEVHMLTNTAFNAMLKTLEEPPEYLKFVLATTDPQK  166 (618)
T ss_pred             HHcCCCCceeecCcccccCHHHHHHHHHHHHhCcccCCceEEEEEChhhCCHHHHHHHHHhcccCCCCeEEEEEECCchh
Confidence            2110000     000111222222222211    13445589999999887778888888887655566665554 4445


Q ss_pred             HHHHh-CCCCeeeCCCCCCCc
Q 036619          332 VARMM-GSTDIISIEQLAEEE  351 (352)
Q Consensus       332 va~~~-~~~~~~~l~~L~~~e  351 (352)
                      +...+ +-...+++.+|++++
T Consensus       167 il~TIlSRc~~~~f~~Ls~ee  187 (618)
T PRK14951        167 VPVTVLSRCLQFNLRPMAPET  187 (618)
T ss_pred             hhHHHHHhceeeecCCCCHHH
Confidence            44333 336788999988754

>PRK08084 DNA replication initiation factor; Provisional

Probab=98.33  E-value=6.1e-06  Score=72.35  Aligned_cols=114  Identities=17%  Similarity=0.214  Sum_probs=66.6

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCcccHHHHHHHHHHhcCCc
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSASGLNEFQSLMSRIQSSIKGK  290 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~k  290 (352)
                      ...+.|+|+.|+|||+|++.+++..  ...-..+.++++.....                    ...++.+.+.+     
T Consensus        45 ~~~l~l~Gp~G~GKThLl~a~~~~~--~~~~~~v~y~~~~~~~~--------------------~~~~~~~~~~~-----   97 (235)
T PRK08084         45 SGYIYLWSREGAGRSHLLHAACAEL--SQRGRAVGYVPLDKRAW--------------------FVPEVLEGMEQ-----   97 (235)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHH--HhCCCeEEEEEHHHHhh--------------------hhHHHHHHhhh-----
Confidence            3578899999999999999999852  22233456666543110                    00111111111     


Q ss_pred             eEEEEecCCCCCC-ccChhH-HHHhhccC-CCC-cEEEEecCCh---------HHHHHhCCCCeeeCCCCCCCc
Q 036619          291 KNFLVLDDVWDGD-YNKWQP-FFRCLKNG-LHG-SKILVTTRNE---------SVARMMGSTDIISIEQLAEEE  351 (352)
Q Consensus       291 r~LlVlDdvw~~~-~~~~~~-l~~~l~~~-~~g-s~IivTTR~~---------~va~~~~~~~~~~l~~L~~~e  351 (352)
                      --+|+|||+.... ...|+. +...+... ..| .++|+||+..         ++...+....++++.++++++
T Consensus        98 ~dlliiDdi~~~~~~~~~~~~lf~l~n~~~e~g~~~li~ts~~~p~~l~~~~~~L~SRl~~g~~~~l~~~~~~~  171 (235)
T PRK08084         98 LSLVCIDNIECIAGDELWEMAIFDLYNRILESGRTRLLITGDRPPRQLNLGLPDLASRLDWGQIYKLQPLSDEE  171 (235)
T ss_pred             CCEEEEeChhhhcCCHHHHHHHHHHHHHHHHcCCCeEEEeCCCChHHcCcccHHHHHHHhCCceeeecCCCHHH
Confidence            2389999996542 134543 33333221 123 3699998754         445555667889999987653

>PRK14958 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.30  E-value=3.5e-06  Score=81.76  Aligned_cols=156  Identities=16%  Similarity=0.210  Sum_probs=87.6

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHH
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAII  263 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~  263 (352)
                      .+++|.+..+..|.+++....     -...+.++|+.|+||||+|+.+...-.....+.       ..+++.-.....|.
T Consensus        16 ~divGq~~v~~~L~~~~~~~~-----l~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~-------~~pCg~C~~C~~i~   83 (509)
T PRK14958         16 QEVIGQAPVVRALSNALDQQY-----LHHAYLFTGTRGVGKTTISRILAKCLNCEKGVS-------ANPCNDCENCREID   83 (509)
T ss_pred             HHhcCCHHHHHHHHHHHHhCC-----CCeeEEEECCCCCCHHHHHHHHHHHhcCCCCCC-------cccCCCCHHHHHHh
Confidence            468999999999999996533     245678999999999999998886422111111       00111111111111


Q ss_pred             HHhCC-----CCCCcccHHHH---HHHHHHh-cCCceEEEEecCCCCCCccChhHHHHhhccCCCCcEEEEec-CChHHH
Q 036619          264 EGLGK-----SASGLNEFQSL---MSRIQSS-IKGKKNFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKILVTT-RNESVA  333 (352)
Q Consensus       264 ~~l~~-----~~~~~~~~~~~---~~~l~~~-l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTT-R~~~va  333 (352)
                      ..-..     ........+++   ...+... ..++.-++|||++........+.|...+......+++|++| ....+.
T Consensus        84 ~g~~~d~~eidaas~~~v~~iR~l~~~~~~~p~~~~~kV~iIDE~~~ls~~a~naLLk~LEepp~~~~fIlattd~~kl~  163 (509)
T PRK14958         84 EGRFPDLFEVDAASRTKVEDTRELLDNIPYAPTKGRFKVYLIDEVHMLSGHSFNALLKTLEEPPSHVKFILATTDHHKLP  163 (509)
T ss_pred             cCCCceEEEEcccccCCHHHHHHHHHHHhhccccCCcEEEEEEChHhcCHHHHHHHHHHHhccCCCeEEEEEECChHhch
Confidence            10000     00011112222   2221111 13566689999998877677888888888766677666654 444444


Q ss_pred             HHh-CCCCeeeCCCCCCCc
Q 036619          334 RMM-GSTDIISIEQLAEEE  351 (352)
Q Consensus       334 ~~~-~~~~~~~l~~L~~~e  351 (352)
                      ..+ +-...+++.+++.++
T Consensus       164 ~tI~SRc~~~~f~~l~~~~  182 (509)
T PRK14958        164 VTVLSRCLQFHLAQLPPLQ  182 (509)
T ss_pred             HHHHHHhhhhhcCCCCHHH
Confidence            333 224567788777543

>PRK04195 replication factor C large subunit; Provisional

Probab=98.30  E-value=5.1e-06  Score=80.68  Aligned_cols=143  Identities=20%  Similarity=0.243  Sum_probs=83.1

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHH
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAII  263 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~  263 (352)
                      .+++|.+..+++|.+|+.....+  ...+.+.|+|++|+||||+|+.+++..    .|+ .+-++.++..+.. .+..++
T Consensus        14 ~dlvg~~~~~~~l~~~l~~~~~g--~~~~~lLL~GppG~GKTtla~ala~el----~~~-~ielnasd~r~~~-~i~~~i   85 (482)
T PRK04195         14 SDVVGNEKAKEQLREWIESWLKG--KPKKALLLYGPPGVGKTSLAHALANDY----GWE-VIELNASDQRTAD-VIERVA   85 (482)
T ss_pred             HHhcCCHHHHHHHHHHHHHHhcC--CCCCeEEEECCCCCCHHHHHHHHHHHc----CCC-EEEEcccccccHH-HHHHHH
Confidence            46899999999999998653311  236788999999999999999999853    232 2334444433222 222322


Q ss_pred             HHhCCCCCCcccHHHHHHHHHHhcCCceEEEEecCCCCCCc----cChhHHHHhhccCCCCcEEEEecCCh-HHHH-Hh-
Q 036619          264 EGLGKSASGLNEFQSLMSRIQSSIKGKKNFLVLDDVWDGDY----NKWQPFFRCLKNGLHGSKILVTTRNE-SVAR-MM-  336 (352)
Q Consensus       264 ~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdvw~~~~----~~~~~l~~~l~~~~~gs~IivTTR~~-~va~-~~-  336 (352)
                      .......              .....++-+||||+++....    ..+..|...+...  +..||+|+-+. .... .+ 
T Consensus        86 ~~~~~~~--------------sl~~~~~kvIiIDEaD~L~~~~d~~~~~aL~~~l~~~--~~~iIli~n~~~~~~~k~Lr  149 (482)
T PRK04195         86 GEAATSG--------------SLFGARRKLILLDEVDGIHGNEDRGGARAILELIKKA--KQPIILTANDPYDPSLRELR  149 (482)
T ss_pred             HHhhccC--------------cccCCCCeEEEEecCcccccccchhHHHHHHHHHHcC--CCCEEEeccCccccchhhHh
Confidence            2211100              01113678999999976432    2356666666533  33466655332 2211 12 


Q ss_pred             CCCCeeeCCCCCCC
Q 036619          337 GSTDIISIEQLAEE  350 (352)
Q Consensus       337 ~~~~~~~l~~L~~~  350 (352)
                      .....+++.+++.+
T Consensus       150 sr~~~I~f~~~~~~  163 (482)
T PRK04195        150 NACLMIEFKRLSTR  163 (482)
T ss_pred             ccceEEEecCCCHH
Confidence            22456777777654

>PRK08727 hypothetical protein; Validated

Probab=98.27  E-value=8e-06  Score=71.51  Aligned_cols=113  Identities=16%  Similarity=0.194  Sum_probs=65.0

Q ss_pred             EEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCcccHHHHHHHHHHhcCCce
Q 036619          212 QVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSASGLNEFQSLMSRIQSSIKGKK  291 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~kr  291 (352)
                      ..+.|+|..|+|||+|++.+++.  ..+......|+++.+      ....+.                 ..+. .+ .+-
T Consensus        42 ~~l~l~G~~G~GKThL~~a~~~~--~~~~~~~~~y~~~~~------~~~~~~-----------------~~~~-~l-~~~   94 (233)
T PRK08727         42 DWLYLSGPAGTGKTHLALALCAA--AEQAGRSSAYLPLQA------AAGRLR-----------------DALE-AL-EGR   94 (233)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH--HHHcCCcEEEEeHHH------hhhhHH-----------------HHHH-HH-hcC
Confidence            44889999999999999999885  333333556665432      111111                 1111 11 123


Q ss_pred             EEEEecCCCCCC-ccChhH-HHHhhcc-CCCCcEEEEecCCh---------HHHHHhCCCCeeeCCCCCCCc
Q 036619          292 NFLVLDDVWDGD-YNKWQP-FFRCLKN-GLHGSKILVTTRNE---------SVARMMGSTDIISIEQLAEEE  351 (352)
Q Consensus       292 ~LlVlDdvw~~~-~~~~~~-l~~~l~~-~~~gs~IivTTR~~---------~va~~~~~~~~~~l~~L~~~e  351 (352)
                      -+|||||+.... ...|.. +...+.. ..+|..||+|++..         ++...+.....++++++++++
T Consensus        95 dlLiIDDi~~l~~~~~~~~~lf~l~n~~~~~~~~vI~ts~~~p~~l~~~~~dL~SRl~~~~~~~l~~~~~e~  166 (233)
T PRK08727         95 SLVALDGLESIAGQREDEVALFDFHNRARAAGITLLYTARQMPDGLALVLPDLRSRLAQCIRIGLPVLDDVA  166 (233)
T ss_pred             CEEEEeCcccccCChHHHHHHHHHHHHHHHcCCeEEEECCCChhhhhhhhHHHHHHHhcCceEEecCCCHHH
Confidence            489999996532 123443 3333322 12356699999853         333344446688898887653

>PRK14964 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.27  E-value=8.1e-06  Score=78.32  Aligned_cols=145  Identities=16%  Similarity=0.177  Sum_probs=87.5

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhh-------------------ccCCeE
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVK-------------------RNFEKV  244 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~-------------------~~F~~~  244 (352)
                      .+++|.+...+.|.+.+....     -...+.++|+.|+||||+|+.+...-...                   ..+.-+
T Consensus        13 ~dliGQe~vv~~L~~a~~~~r-----i~ha~Lf~Gp~G~GKTT~ArilAk~LnC~~~~~~~pCg~C~~C~~i~~~~~~Dv   87 (491)
T PRK14964         13 KDLVGQDVLVRILRNAFTLNK-----IPQSILLVGASGVGKTTCARIISLCLNCSNGPTSDPCGTCHNCISIKNSNHPDV   87 (491)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-----CCceEEEECCCCccHHHHHHHHHHHHcCcCCCCCCCccccHHHHHHhccCCCCE
Confidence            468998888888887775432     24578899999999999998887521100                   011112


Q ss_pred             EEEEeCCCCCHHHHHHHHHHHhCCCCCCcccHHHHHHHHHHh-cCCceEEEEecCCCCCCccChhHHHHhhccCCCCcEE
Q 036619          245 IWVCVSDTFDQIRIAKAIIEGLGKSASGLNEFQSLMSRIQSS-IKGKKNFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKI  323 (352)
Q Consensus       245 ~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~-l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~I  323 (352)
                      +.++.+....+..                  ..++.+.+... +.++.-++|+|++........+.|...+....+.+++
T Consensus        88 ~eidaas~~~vdd------------------IR~Iie~~~~~P~~~~~KVvIIDEah~Ls~~A~NaLLK~LEePp~~v~f  149 (491)
T PRK14964         88 IEIDAASNTSVDD------------------IKVILENSCYLPISSKFKVYIIDEVHMLSNSAFNALLKTLEEPAPHVKF  149 (491)
T ss_pred             EEEecccCCCHHH------------------HHHHHHHHHhccccCCceEEEEeChHhCCHHHHHHHHHHHhCCCCCeEE
Confidence            2333332222222                  12222222111 1356668999999776656788888888876667766


Q ss_pred             EEec-CChHHHHHhC-CCCeeeCCCCCCCc
Q 036619          324 LVTT-RNESVARMMG-STDIISIEQLAEEE  351 (352)
Q Consensus       324 ivTT-R~~~va~~~~-~~~~~~l~~L~~~e  351 (352)
                      |++| ..+.+...+. -...+++.+++.++
T Consensus       150 Ilatte~~Kl~~tI~SRc~~~~f~~l~~~e  179 (491)
T PRK14964        150 ILATTEVKKIPVTIISRCQRFDLQKIPTDK  179 (491)
T ss_pred             EEEeCChHHHHHHHHHhheeeecccccHHH
Confidence            6554 4556655443 35678888877653

>PRK07994 DNA polymerase III subunits gamma and tau; Validated

Probab=98.27  E-value=6.7e-06  Score=81.31  Aligned_cols=156  Identities=18%  Similarity=0.245  Sum_probs=91.5

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHH
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAII  263 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~  263 (352)
                      .+++|.+.-+..|.+.+....     -...+.++|+.|+||||+|+.+.+.-.....+       ...++..-...+.|.
T Consensus        16 ~divGQe~vv~~L~~~l~~~r-----l~hAyLf~Gp~GvGKTTlAr~lAk~L~c~~~~-------~~~pCg~C~~C~~i~   83 (647)
T PRK07994         16 AEVVGQEHVLTALANALDLGR-----LHHAYLFSGTRGVGKTTIARLLAKGLNCETGI-------TATPCGECDNCREIE   83 (647)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-----CCeEEEEECCCCCCHHHHHHHHHHhhhhccCC-------CCCCCCCCHHHHHHH
Confidence            468999998888888886533     23556799999999999999998642221110       011111112222222


Q ss_pred             HHhCC-----CC---CCcccHHHHHHHHHHh-cCCceEEEEecCCCCCCccChhHHHHhhccCCCCcEEEE-ecCChHHH
Q 036619          264 EGLGK-----SA---SGLNEFQSLMSRIQSS-IKGKKNFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKILV-TTRNESVA  333 (352)
Q Consensus       264 ~~l~~-----~~---~~~~~~~~~~~~l~~~-l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~Iiv-TTR~~~va  333 (352)
                      ..-..     ..   ....+..++...+... ..+++-++|||++...+....+.|+..+.......++|+ ||....+.
T Consensus        84 ~g~~~D~ieidaas~~~VddiR~li~~~~~~p~~g~~KV~IIDEah~Ls~~a~NALLKtLEEPp~~v~FIL~Tt~~~kLl  163 (647)
T PRK07994         84 QGRFVDLIEIDAASRTKVEDTRELLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLP  163 (647)
T ss_pred             cCCCCCceeecccccCCHHHHHHHHHHHHhhhhcCCCEEEEEechHhCCHHHHHHHHHHHHcCCCCeEEEEecCCccccc
Confidence            11000     00   1112222333332221 246677999999998877788889888877655665555 44445554


Q ss_pred             HHh-CCCCeeeCCCCCCCc
Q 036619          334 RMM-GSTDIISIEQLAEEE  351 (352)
Q Consensus       334 ~~~-~~~~~~~l~~L~~~e  351 (352)
                      ..+ +-...|++.+|+.++
T Consensus       164 ~TI~SRC~~~~f~~Ls~~e  182 (647)
T PRK07994        164 VTILSRCLQFHLKALDVEQ  182 (647)
T ss_pred             hHHHhhheEeeCCCCCHHH
Confidence            333 225678999998764

>PRK07940 DNA polymerase III subunit delta'; Validated

Probab=98.25  E-value=8.6e-06  Score=76.47  Aligned_cols=160  Identities=11%  Similarity=0.104  Sum_probs=87.4

Q ss_pred             CccccccchHHHHHHHHcCcccc----CCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHH
Q 036619          184 GEVCGRVDEKSELFSKLLCESSE----QQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIA  259 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~----~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~  259 (352)
                      ..++|.+.-++.|.+.+......    +..-..-+.++|+.|+|||++|+.+...-.....-    +    .+++.-...
T Consensus         5 ~~IiGq~~~~~~L~~~i~~~~~~~~~~~~~l~ha~Lf~Gp~G~GKt~lA~~lA~~l~c~~~~----~----~~Cg~C~~C   76 (394)
T PRK07940          5 DDLVGQEAVVAELRAAARAARADVAAAGSGMTHAWLFTGPPGSGRSVAARAFAAALQCTDPD----E----PGCGECRAC   76 (394)
T ss_pred             hhccChHHHHHHHHHHHHhccccccccCCCCCeEEEEECCCCCcHHHHHHHHHHHhCCCCCC----C----CCCCCCHHH
Confidence            35889888888888888654310    00134668899999999999999887531111100    0    000000111


Q ss_pred             HHHHHHhCCC-----CC-CcccHHH---HHHHHHHh-cCCceEEEEecCCCCCCccChhHHHHhhccCCCCcEEEEecCC
Q 036619          260 KAIIEGLGKS-----AS-GLNEFQS---LMSRIQSS-IKGKKNFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKILVTTRN  329 (352)
Q Consensus       260 ~~i~~~l~~~-----~~-~~~~~~~---~~~~l~~~-l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTTR~  329 (352)
                      +.+...-...     +. .....++   +.+.+... ..+++-++++|++...+....+.|...+.....+..+|++|.+
T Consensus        77 ~~~~~~~hpD~~~i~~~~~~i~i~~iR~l~~~~~~~p~~~~~kViiIDead~m~~~aanaLLk~LEep~~~~~fIL~a~~  156 (394)
T PRK07940         77 RTVLAGTHPDVRVVAPEGLSIGVDEVRELVTIAARRPSTGRWRIVVIEDADRLTERAANALLKAVEEPPPRTVWLLCAPS  156 (394)
T ss_pred             HHHhcCCCCCEEEeccccccCCHHHHHHHHHHHHhCcccCCcEEEEEechhhcCHHHHHHHHHHhhcCCCCCeEEEEECC
Confidence            1111100000     00 0011222   22222111 1345568889999888766777788888766566666666555


Q ss_pred             -hHHHHHhCC-CCeeeCCCCCCCc
Q 036619          330 -ESVARMMGS-TDIISIEQLAEEE  351 (352)
Q Consensus       330 -~~va~~~~~-~~~~~l~~L~~~e  351 (352)
                       ..+...+-+ ...+++.+++.++
T Consensus       157 ~~~llpTIrSRc~~i~f~~~~~~~  180 (394)
T PRK07940        157 PEDVLPTIRSRCRHVALRTPSVEA  180 (394)
T ss_pred             hHHChHHHHhhCeEEECCCCCHHH
Confidence             455544332 5678888887654

>PRK07764 DNA polymerase III subunits gamma and tau; Validated

Probab=98.24  E-value=6.3e-06  Score=84.02  Aligned_cols=155  Identities=15%  Similarity=0.184  Sum_probs=88.8

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHH
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAII  263 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~  263 (352)
                      .+++|.+..++.|.+.+....     -...+.++|+.|+||||+|+.+.+.-...+....       ..++.-...+.|.
T Consensus        15 ~eiiGqe~v~~~L~~~i~~~r-----i~Ha~Lf~Gp~G~GKTt~A~~lAr~L~C~~~~~~-------~pCg~C~sC~~~~   82 (824)
T PRK07764         15 AEVIGQEHVTEPLSTALDSGR-----INHAYLFSGPRGCGKTSSARILARSLNCVEGPTS-------TPCGECDSCVALA   82 (824)
T ss_pred             HHhcCcHHHHHHHHHHHHhCC-----CCceEEEECCCCCCHHHHHHHHHHHhCcccCCCC-------CCCcccHHHHHHH
Confidence            468999998999988886533     2356789999999999999998765322111100       0001001111111


Q ss_pred             HH---------hCC-CCCCcccHHHHHHHHHH-hcCCceEEEEecCCCCCCccChhHHHHhhccCCCCcEEEEec-CChH
Q 036619          264 EG---------LGK-SASGLNEFQSLMSRIQS-SIKGKKNFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKILVTT-RNES  331 (352)
Q Consensus       264 ~~---------l~~-~~~~~~~~~~~~~~l~~-~l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTT-R~~~  331 (352)
                      ..         +.. ...+.+++.++...+.. -..++.-++|||++.......++.|+..+..-...+.+|++| ..+.
T Consensus        83 ~g~~~~~dv~eidaas~~~Vd~iR~l~~~~~~~p~~~~~KV~IIDEad~lt~~a~NaLLK~LEEpP~~~~fIl~tt~~~k  162 (824)
T PRK07764         83 PGGPGSLDVTEIDAASHGGVDDARELRERAFFAPAESRYKIFIIDEAHMVTPQGFNALLKIVEEPPEHLKFIFATTEPDK  162 (824)
T ss_pred             cCCCCCCcEEEecccccCCHHHHHHHHHHHHhchhcCCceEEEEechhhcCHHHHHHHHHHHhCCCCCeEEEEEeCChhh
Confidence            11         000 00011112222222211 124566688999999887778889999998766666665544 4455


Q ss_pred             HHHHhCC-CCeeeCCCCCCC
Q 036619          332 VARMMGS-TDIISIEQLAEE  350 (352)
Q Consensus       332 va~~~~~-~~~~~l~~L~~~  350 (352)
                      +...+.+ ...|++.+|+.+
T Consensus       163 Ll~TIrSRc~~v~F~~l~~~  182 (824)
T PRK07764        163 VIGTIRSRTHHYPFRLVPPE  182 (824)
T ss_pred             hhHHHHhheeEEEeeCCCHH
Confidence            5544433 567888888654

>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau

Probab=98.24  E-value=1.5e-05  Score=74.38  Aligned_cols=144  Identities=12%  Similarity=0.215  Sum_probs=84.0

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhh--------------------ccCCe
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVK--------------------RNFEK  243 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~--------------------~~F~~  243 (352)
                      ..++|.+..++.|.+++....     -...+.++|++|+||||+|+.+...-...                    .+|+.
T Consensus        14 ~~iig~~~~~~~l~~~~~~~~-----~~~~~Ll~G~~G~GKt~~a~~la~~l~~~~~~~~~~c~~c~~c~~~~~~~~~~~   88 (355)
T TIGR02397        14 EDVIGQEHIVQTLKNAIKNGR-----IAHAYLFSGPRGTGKTSIARIFAKALNCQNGPDGEPCNECESCKEINSGSSLDV   88 (355)
T ss_pred             hhccCcHHHHHHHHHHHHcCC-----CCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHHHHhcCCCCCE
Confidence            468999999999998886432     24577899999999999998887642111                    02221


Q ss_pred             EEEEEeCCCCCHHHHHHHHHHHhCCCCCCcccHHHHHHHHHHh-cCCceEEEEecCCCCCCccChhHHHHhhccCCCCcE
Q 036619          244 VIWVCVSDTFDQIRIAKAIIEGLGKSASGLNEFQSLMSRIQSS-IKGKKNFLVLDDVWDGDYNKWQPFFRCLKNGLHGSK  322 (352)
Q Consensus       244 ~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~-l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~  322 (352)
                       .++..+.....                  .+..++.+.+... ..+++-++|+|++........+.+...+......+.
T Consensus        89 -~~~~~~~~~~~------------------~~~~~l~~~~~~~p~~~~~~vviidea~~l~~~~~~~Ll~~le~~~~~~~  149 (355)
T TIGR02397        89 -IEIDAASNNGV------------------DDIREILDNVKYAPSSGKYKVYIIDEVHMLSKSAFNALLKTLEEPPEHVV  149 (355)
T ss_pred             -EEeeccccCCH------------------HHHHHHHHHHhcCcccCCceEEEEeChhhcCHHHHHHHHHHHhCCcccee
Confidence             22221111111                  1122222222211 234556889999866554567778888866556677


Q ss_pred             EEEecCChH-HHHHh-CCCCeeeCCCCCCCc
Q 036619          323 ILVTTRNES-VARMM-GSTDIISIEQLAEEE  351 (352)
Q Consensus       323 IivTTR~~~-va~~~-~~~~~~~l~~L~~~e  351 (352)
                      +|++|.+.. +...+ .....+++.++++++
T Consensus       150 lIl~~~~~~~l~~~l~sr~~~~~~~~~~~~~  180 (355)
T TIGR02397       150 FILATTEPHKIPATILSRCQRFDFKRIPLED  180 (355)
T ss_pred             EEEEeCCHHHHHHHHHhheeEEEcCCCCHHH
Confidence            666665443 33322 224567777776543

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.

>PRK14956 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.23  E-value=3.2e-06  Score=80.35  Aligned_cols=155  Identities=14%  Similarity=0.178  Sum_probs=88.8

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHH
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAII  263 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~  263 (352)
                      .+++|.+..+..|..++....     -...+.++|+.|+||||+|+.+.+.-.......   ...+....+    ...|.
T Consensus        18 ~dvVGQe~iv~~L~~~i~~~r-----i~ha~Lf~GP~GtGKTTlAriLAk~Lnce~~~~---~~pCg~C~s----C~~i~   85 (484)
T PRK14956         18 RDVIHQDLAIGALQNALKSGK-----IGHAYIFFGPRGVGKTTIARILAKRLNCENPIG---NEPCNECTS----CLEIT   85 (484)
T ss_pred             HHHhChHHHHHHHHHHHHcCC-----CCeEEEEECCCCCCHHHHHHHHHHhcCcccccC---ccccCCCcH----HHHHH
Confidence            468999888888888886533     134678999999999999999987421111000   000111111    11222


Q ss_pred             HHhCCC--------CCCcccHHHHHHHHHHh-cCCceEEEEecCCCCCCccChhHHHHhhccCCCCcEEE-EecCChHHH
Q 036619          264 EGLGKS--------ASGLNEFQSLMSRIQSS-IKGKKNFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKIL-VTTRNESVA  333 (352)
Q Consensus       264 ~~l~~~--------~~~~~~~~~~~~~l~~~-l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~Ii-vTTR~~~va  333 (352)
                      ......        ..+..+..++...+... ..++.-++|||++.......++.|+..+........+| .||....+.
T Consensus        86 ~g~~~dviEIdaas~~gVd~IReL~e~l~~~p~~g~~KV~IIDEah~Ls~~A~NALLKtLEEPp~~viFILaTte~~kI~  165 (484)
T PRK14956         86 KGISSDVLEIDAASNRGIENIRELRDNVKFAPMGGKYKVYIIDEVHMLTDQSFNALLKTLEEPPAHIVFILATTEFHKIP  165 (484)
T ss_pred             ccCCccceeechhhcccHHHHHHHHHHHHhhhhcCCCEEEEEechhhcCHHHHHHHHHHhhcCCCceEEEeecCChhhcc
Confidence            211110        01112223333333322 24566699999998877778888888886654455544 455555554


Q ss_pred             HHhCC-CCeeeCCCCCCC
Q 036619          334 RMMGS-TDIISIEQLAEE  350 (352)
Q Consensus       334 ~~~~~-~~~~~l~~L~~~  350 (352)
                      ..+.+ ...|.+.+++.+
T Consensus       166 ~TI~SRCq~~~f~~ls~~  183 (484)
T PRK14956        166 ETILSRCQDFIFKKVPLS  183 (484)
T ss_pred             HHHHhhhheeeecCCCHH
Confidence            44433 567888888754

>PRK05896 DNA polymerase III subunits gamma and tau; Validated

Probab=98.21  E-value=4e-06  Score=81.83  Aligned_cols=156  Identities=15%  Similarity=0.209  Sum_probs=88.1

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHH
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAII  263 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~  263 (352)
                      ..++|++..+..|.+.+....     -...+.++|+.|+||||+|+.+.+.-..      .-|.... +++.-...+.+.
T Consensus        16 ~dIIGQe~iv~~L~~aI~~~r-----l~hA~Lf~GP~GvGKTTlA~~lAk~L~C------~~~~~~~-~Cg~C~sCr~i~   83 (605)
T PRK05896         16 KQIIGQELIKKILVNAILNNK-----LTHAYIFSGPRGIGKTSIAKIFAKAINC------LNPKDGD-CCNSCSVCESIN   83 (605)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-----CCceEEEECCCCCCHHHHHHHHHHHhcC------CCCCCCC-CCcccHHHHHHH
Confidence            468999999999998885533     2356789999999999999998864211      1122111 111112222222


Q ss_pred             HHhCCC-----C---CCcccHHHHHHHHHHh-cCCceEEEEecCCCCCCccChhHHHHhhccCCCCcEEEEec-CChHHH
Q 036619          264 EGLGKS-----A---SGLNEFQSLMSRIQSS-IKGKKNFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKILVTT-RNESVA  333 (352)
Q Consensus       264 ~~l~~~-----~---~~~~~~~~~~~~l~~~-l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTT-R~~~va  333 (352)
                      ......     .   .+..+...+...+... ..+++-++|+|++.......++.|...+......+.+|++| ....+-
T Consensus        84 ~~~h~DiieIdaas~igVd~IReIi~~~~~~P~~~~~KVIIIDEad~Lt~~A~NaLLKtLEEPp~~tvfIL~Tt~~~KLl  163 (605)
T PRK05896         84 TNQSVDIVELDAASNNGVDEIRNIIDNINYLPTTFKYKVYIIDEAHMLSTSAWNALLKTLEEPPKHVVFIFATTEFQKIP  163 (605)
T ss_pred             cCCCCceEEeccccccCHHHHHHHHHHHHhchhhCCcEEEEEechHhCCHHHHHHHHHHHHhCCCcEEEEEECCChHhhh
Confidence            211110     0   0111122222222221 12344579999998776667888888887655566555544 444554


Q ss_pred             HHh-CCCCeeeCCCCCCCc
Q 036619          334 RMM-GSTDIISIEQLAEEE  351 (352)
Q Consensus       334 ~~~-~~~~~~~l~~L~~~e  351 (352)
                      ..+ +....+++.++++++
T Consensus       164 ~TI~SRcq~ieF~~Ls~~e  182 (605)
T PRK05896        164 LTIISRCQRYNFKKLNNSE  182 (605)
T ss_pred             HHHHhhhhhcccCCCCHHH
Confidence            332 335678888887653

>PRK14954 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.19  E-value=1.6e-05  Score=78.70  Aligned_cols=163  Identities=14%  Similarity=0.226  Sum_probs=89.2

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEE-eCCCCCHHHHHHHH
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVC-VSDTFDQIRIAKAI  262 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~-vs~~~~~~~~~~~i  262 (352)
                      ..++|.+..+..|.+.+....     -...+.++|+.|+||||+|+.+.+.-.....++...|.. +..+++.-...+.+
T Consensus        16 ~eivGQe~i~~~L~~~i~~~r-----i~ha~Lf~Gp~GvGKttlA~~lAk~L~c~~~~~~~~~~~~~~~~Cg~C~sC~~~   90 (620)
T PRK14954         16 ADITAQEHITHTIQNSLRMDR-----VGHGYIFSGLRGVGKTTAARVFAKAVNCQRMIDDPVYLQEVTEPCGECESCRDF   90 (620)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-----CCeeEEEECCCCCCHHHHHHHHHHHhCCCCcCCccccccccCCCCccCHHHHHH
Confidence            468998888888888775432     235588999999999999988876422211111011111 01111111112222


Q ss_pred             HHHhCCC-----CCCcccHHHHHHHHHHh----cCCceEEEEecCCCCCCccChhHHHHhhccCCCCcEEEE-ecCChHH
Q 036619          263 IEGLGKS-----ASGLNEFQSLMSRIQSS----IKGKKNFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKILV-TTRNESV  332 (352)
Q Consensus       263 ~~~l~~~-----~~~~~~~~~~~~~l~~~----l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~Iiv-TTR~~~v  332 (352)
                      ...-...     .......+++...+...    ..+.+-++|+|++........+.|...+......+.+|+ |++...+
T Consensus        91 ~~g~~~n~~~~d~~s~~~vd~Ir~l~e~~~~~P~~~~~KVvIIdEad~Lt~~a~naLLK~LEePp~~tv~IL~t~~~~kL  170 (620)
T PRK14954         91 DAGTSLNISEFDAASNNSVDDIRQLRENVRYGPQKGRYRVYIIDEVHMLSTAAFNAFLKTLEEPPPHAIFIFATTELHKI  170 (620)
T ss_pred             hccCCCCeEEecccccCCHHHHHHHHHHHHhhhhcCCCEEEEEeChhhcCHHHHHHHHHHHhCCCCCeEEEEEeCChhhh
Confidence            1110000     00111133333322222    235566889999987765667888888877655665554 5454555


Q ss_pred             HHHh-CCCCeeeCCCCCCCc
Q 036619          333 ARMM-GSTDIISIEQLAEEE  351 (352)
Q Consensus       333 a~~~-~~~~~~~l~~L~~~e  351 (352)
                      ...+ .....+++.+++.++
T Consensus       171 l~TI~SRc~~vef~~l~~~e  190 (620)
T PRK14954        171 PATIASRCQRFNFKRIPLDE  190 (620)
T ss_pred             hHHHHhhceEEecCCCCHHH
Confidence            4433 336678888887653

>PRK08903 DnaA regulatory inactivator Hda; Validated

Probab=98.19  E-value=9.5e-06  Score=70.77  Aligned_cols=109  Identities=17%  Similarity=0.206  Sum_probs=60.6

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCcccHHHHHHHHHHhcCCc
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSASGLNEFQSLMSRIQSSIKGK  290 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~k  290 (352)
                      ...+.|+|..|+|||+||+.+++... ...+ ...+++......      .    +                  ... ..
T Consensus        42 ~~~~~l~G~~G~GKT~La~ai~~~~~-~~~~-~~~~i~~~~~~~------~----~------------------~~~-~~   90 (227)
T PRK08903         42 DRFFYLWGEAGSGRSHLLQALVADAS-YGGR-NARYLDAASPLL------A----F------------------DFD-PE   90 (227)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHH-hCCC-cEEEEehHHhHH------H----H------------------hhc-cc
Confidence            45678999999999999999998521 2222 334444332110      0    0                  111 23


Q ss_pred             eEEEEecCCCCCCccChhHHHHhhccC-CCCc-EEEEecCChHHH--------HHhCCCCeeeCCCCCCC
Q 036619          291 KNFLVLDDVWDGDYNKWQPFFRCLKNG-LHGS-KILVTTRNESVA--------RMMGSTDIISIEQLAEE  350 (352)
Q Consensus       291 r~LlVlDdvw~~~~~~~~~l~~~l~~~-~~gs-~IivTTR~~~va--------~~~~~~~~~~l~~L~~~  350 (352)
                      .-+||+||+...+...-..+...+... ..|. .||+|++.....        ..+.....+++.+|+++
T Consensus        91 ~~~liiDdi~~l~~~~~~~L~~~~~~~~~~~~~~vl~~~~~~~~~~~l~~~L~sr~~~~~~i~l~pl~~~  160 (227)
T PRK08903         91 AELYAVDDVERLDDAQQIALFNLFNRVRAHGQGALLVAGPAAPLALPLREDLRTRLGWGLVYELKPLSDA  160 (227)
T ss_pred             CCEEEEeChhhcCchHHHHHHHHHHHHHHcCCcEEEEeCCCCHHhCCCCHHHHHHHhcCeEEEecCCCHH
Confidence            347899999654333333455555421 2344 366666643321        12233468889998864

>PRK08691 DNA polymerase III subunits gamma and tau; Validated

Probab=98.18  E-value=1.1e-05  Score=79.61  Aligned_cols=144  Identities=14%  Similarity=0.223  Sum_probs=82.7

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhcc-------------------CCeE
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRN-------------------FEKV  244 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~-------------------F~~~  244 (352)
                      .+++|.+..+..|.+++....     -...+.++|+.|+||||+|+.+...-.....                   |--.
T Consensus        16 ddIIGQe~vv~~L~~ai~~~r-----l~Ha~Lf~GP~GvGKTTlAriLAk~LnC~~~~~~~pCg~C~sCr~i~~g~~~Dv   90 (709)
T PRK08691         16 ADLVGQEHVVKALQNALDEGR-----LHHAYLLTGTRGVGKTTIARILAKSLNCENAQHGEPCGVCQSCTQIDAGRYVDL   90 (709)
T ss_pred             HHHcCcHHHHHHHHHHHHcCC-----CCeEEEEECCCCCcHHHHHHHHHHHhcccCCCCCCCCcccHHHHHHhccCccce
Confidence            468999999999999886533     2456789999999999999988764211111                   1011


Q ss_pred             EEEEeCCCCCHHHHHHHHHHHhCCCCCCcccHHHHHHHHHHh-cCCceEEEEecCCCCCCccChhHHHHhhccCCCCcEE
Q 036619          245 IWVCVSDTFDQIRIAKAIIEGLGKSASGLNEFQSLMSRIQSS-IKGKKNFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKI  323 (352)
Q Consensus       245 ~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~-l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~I  323 (352)
                      +.+..+....+                  .++.++...+... ..+++-++|||++...+....+.|+..+......+++
T Consensus        91 lEidaAs~~gV------------------d~IRelle~a~~~P~~gk~KVIIIDEad~Ls~~A~NALLKtLEEPp~~v~f  152 (709)
T PRK08691         91 LEIDAASNTGI------------------DNIREVLENAQYAPTAGKYKVYIIDEVHMLSKSAFNAMLKTLEEPPEHVKF  152 (709)
T ss_pred             EEEeccccCCH------------------HHHHHHHHHHHhhhhhCCcEEEEEECccccCHHHHHHHHHHHHhCCCCcEE
Confidence            11211111111                  1122222221111 2356678999999776555677788888665456666


Q ss_pred             EEecCCh-HHHHHh-CCCCeeeCCCCCCC
Q 036619          324 LVTTRNE-SVARMM-GSTDIISIEQLAEE  350 (352)
Q Consensus       324 ivTTR~~-~va~~~-~~~~~~~l~~L~~~  350 (352)
                      |++|.+. .+...+ +-...|++.+++.+
T Consensus       153 ILaTtd~~kL~~TIrSRC~~f~f~~Ls~e  181 (709)
T PRK08691        153 ILATTDPHKVPVTVLSRCLQFVLRNMTAQ  181 (709)
T ss_pred             EEEeCCccccchHHHHHHhhhhcCCCCHH
Confidence            6666443 333222 22345666677654

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

Probab=98.18  E-value=3.7e-05  Score=68.52  Aligned_cols=107  Identities=18%  Similarity=0.212  Sum_probs=76.7

Q ss_pred             hHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhc----cCCeEEEEEeCCCCCHHHHHHHHHHHhC
Q 036619          192 EKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKR----NFEKVIWVCVSDTFDQIRIAKAIIEGLG  267 (352)
Q Consensus       192 ~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~----~F~~~~wv~vs~~~~~~~~~~~i~~~l~  267 (352)
                      -+++|.++|..+..   ....-+.|||..|.|||++++.++...-...    .--.++.|.+...++...+...|+.+++
T Consensus        45 ~L~~L~~Ll~~P~~---~Rmp~lLivG~snnGKT~Ii~rF~~~hp~~~d~~~~~~PVv~vq~P~~p~~~~~Y~~IL~~lg  121 (302)
T PF05621_consen   45 ALDRLEELLEYPKR---HRMPNLLIVGDSNNGKTMIIERFRRLHPPQSDEDAERIPVVYVQMPPEPDERRFYSAILEALG  121 (302)
T ss_pred             HHHHHHHHHhCCcc---cCCCceEEecCCCCcHHHHHHHHHHHCCCCCCCCCccccEEEEecCCCCChHHHHHHHHHHhC
Confidence            34555555554432   4567789999999999999999986532111    1115777888899999999999999999


Q ss_pred             CCCCCcccHHHHHHHHHHhcCC-ceEEEEecCCCC
Q 036619          268 KSASGLNEFQSLMSRIQSSIKG-KKNFLVLDDVWD  301 (352)
Q Consensus       268 ~~~~~~~~~~~~~~~l~~~l~~-kr~LlVlDdvw~  301 (352)
                      ...........+...+...|+. +--+||||.+++
T Consensus       122 aP~~~~~~~~~~~~~~~~llr~~~vrmLIIDE~H~  156 (302)
T PF05621_consen  122 APYRPRDRVAKLEQQVLRLLRRLGVRMLIIDEFHN  156 (302)
T ss_pred             cccCCCCCHHHHHHHHHHHHHHcCCcEEEeechHH
Confidence            8866666666666666666643 455889999976

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

>TIGR00678 holB DNA polymerase III, delta' subunit

Probab=98.17  E-value=2.8e-05  Score=65.67  Aligned_cols=64  Identities=9%  Similarity=0.222  Sum_probs=44.0

Q ss_pred             CCceEEEEecCCCCCCccChhHHHHhhccCCCCcEEEEecCCh-HHHHHh-CCCCeeeCCCCCCCc
Q 036619          288 KGKKNFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKILVTTRNE-SVARMM-GSTDIISIEQLAEEE  351 (352)
Q Consensus       288 ~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTTR~~-~va~~~-~~~~~~~l~~L~~~e  351 (352)
                      .+.+-++|+|++.....+.++.|...+......+.+|++|.+. .+...+ .....+++.+++.++
T Consensus        94 ~~~~kviiide~~~l~~~~~~~Ll~~le~~~~~~~~il~~~~~~~l~~~i~sr~~~~~~~~~~~~~  159 (188)
T TIGR00678        94 ESGRRVVIIEDAERMNEAAANALLKTLEEPPPNTLFILITPSPEKLLPTIRSRCQVLPFPPLSEEA  159 (188)
T ss_pred             cCCeEEEEEechhhhCHHHHHHHHHHhcCCCCCeEEEEEECChHhChHHHHhhcEEeeCCCCCHHH
Confidence            3566789999997766566888888887766666777766543 333322 225688899888654

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.

>PRK05642 DNA replication initiation factor; Validated

Probab=98.16  E-value=2.1e-05  Score=68.92  Aligned_cols=114  Identities=16%  Similarity=0.301  Sum_probs=66.6

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCcccHHHHHHHHHHhcCCc
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSASGLNEFQSLMSRIQSSIKGK  290 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~k  290 (352)
                      ...+.|+|..|+|||.|++.+++..  ...-..++|++..+      +...              ..    .+.+.+.+-
T Consensus        45 ~~~l~l~G~~G~GKTHLl~a~~~~~--~~~~~~v~y~~~~~------~~~~--------------~~----~~~~~~~~~   98 (234)
T PRK05642         45 ESLIYLWGKDGVGRSHLLQAACLRF--EQRGEPAVYLPLAE------LLDR--------------GP----ELLDNLEQY   98 (234)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHH--HhCCCcEEEeeHHH------HHhh--------------hH----HHHHhhhhC
Confidence            3567899999999999999998742  22223466666432      1110              01    122222222


Q ss_pred             eEEEEecCCCCC-CccChhH-HHHhhcc-CCCCcEEEEecCCh---------HHHHHhCCCCeeeCCCCCCCc
Q 036619          291 KNFLVLDDVWDG-DYNKWQP-FFRCLKN-GLHGSKILVTTRNE---------SVARMMGSTDIISIEQLAEEE  351 (352)
Q Consensus       291 r~LlVlDdvw~~-~~~~~~~-l~~~l~~-~~~gs~IivTTR~~---------~va~~~~~~~~~~l~~L~~~e  351 (352)
                      . +||+||+... ....|.. +...+.. ..+|..||+|+...         ++...++...+++++++++++
T Consensus        99 d-~LiiDDi~~~~~~~~~~~~Lf~l~n~~~~~g~~ilits~~~p~~l~~~~~~L~SRl~~gl~~~l~~~~~e~  170 (234)
T PRK05642         99 E-LVCLDDLDVIAGKADWEEALFHLFNRLRDSGRRLLLAASKSPRELPIKLPDLKSRLTLALVFQMRGLSDED  170 (234)
T ss_pred             C-EEEEechhhhcCChHHHHHHHHHHHHHHhcCCEEEEeCCCCHHHcCccCccHHHHHhcCeeeecCCCCHHH
Confidence            2 6889999643 2235554 5555542 23466788888753         233334445778888888754

>PRK08116 hypothetical protein; Validated

Probab=98.15  E-value=1.7e-05  Score=70.80  Aligned_cols=104  Identities=24%  Similarity=0.253  Sum_probs=60.8

Q ss_pred             EEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCcccHHHHHHHHHHhcCCce
Q 036619          212 QVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSASGLNEFQSLMSRIQSSIKGKK  291 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~kr  291 (352)
                      .-+.++|.+|+|||.||..+++.  ...+...+++++      ...++..|........  ..+.    ..+.+.+.+-.
T Consensus       115 ~gl~l~G~~GtGKThLa~aia~~--l~~~~~~v~~~~------~~~ll~~i~~~~~~~~--~~~~----~~~~~~l~~~d  180 (268)
T PRK08116        115 VGLLLWGSVGTGKTYLAACIANE--LIEKGVPVIFVN------FPQLLNRIKSTYKSSG--KEDE----NEIIRSLVNAD  180 (268)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHH--HHHcCCeEEEEE------HHHHHHHHHHHHhccc--cccH----HHHHHHhcCCC
Confidence            34779999999999999999985  332334456665      3345555555443211  1111    12233334333


Q ss_pred             EEEEecCCCCCCccChhH--HHHhhcc-CCCCcEEEEecCCh
Q 036619          292 NFLVLDDVWDGDYNKWQP--FFRCLKN-GLHGSKILVTTRNE  330 (352)
Q Consensus       292 ~LlVlDdvw~~~~~~~~~--l~~~l~~-~~~gs~IivTTR~~  330 (352)
                       ||||||+.......|..  |...+.. -.+|..+|+||...
T Consensus       181 -lLviDDlg~e~~t~~~~~~l~~iin~r~~~~~~~IiTsN~~  221 (268)
T PRK08116        181 -LLILDDLGAERDTEWAREKVYNIIDSRYRKGLPTIVTTNLS  221 (268)
T ss_pred             -EEEEecccCCCCCHHHHHHHHHHHHHHHHCCCCEEEECCCC
Confidence             89999996554445543  4444432 13456688888753

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

Probab=98.15  E-value=1.5e-05  Score=72.28  Aligned_cols=111  Identities=21%  Similarity=0.266  Sum_probs=82.3

Q ss_pred             CCccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHH
Q 036619          183 EGEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAI  262 (352)
Q Consensus       183 ~~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i  262 (352)
                      ++.+.+|+.+...+..++-+.+.   .-+..+-|.|-.|.|||.+++.+.+..  ..   ..+|+++-..++...++..|
T Consensus         5 ~~~v~~Re~qi~~L~~Llg~~~~---~~PS~~~iyG~sgTGKT~~~r~~l~~~--n~---~~vw~n~~ecft~~~lle~I   76 (438)
T KOG2543|consen    5 EPNVPCRESQIRRLKSLLGNNSC---TIPSIVHIYGHSGTGKTYLVRQLLRKL--NL---ENVWLNCVECFTYAILLEKI   76 (438)
T ss_pred             ccCccchHHHHHHHHHHhCCCCc---ccceeEEEeccCCCchhHHHHHHHhhc--CC---cceeeehHHhccHHHHHHHH
Confidence            46788999999999988866542   246677899999999999999999864  22   36899999999999999999


Q ss_pred             HHHhC-CCCCCc------ccHHHHHHHHHHh--c--CCceEEEEecCCCC
Q 036619          263 IEGLG-KSASGL------NEFQSLMSRIQSS--I--KGKKNFLVLDDVWD  301 (352)
Q Consensus       263 ~~~l~-~~~~~~------~~~~~~~~~l~~~--l--~~kr~LlVlDdvw~  301 (352)
                      +.... .+.++.      ....+....+.++  .  .++.++||||++..
T Consensus        77 L~~~~~~d~dg~~~~~~~en~~d~i~~l~q~~~~t~~d~~~~liLDnad~  126 (438)
T KOG2543|consen   77 LNKSQLADKDGDKVEGDAENFSDFIYLLVQWPAATNRDQKVFLILDNADA  126 (438)
T ss_pred             HHHhccCCCchhhhhhHHHHHHHHHHHHHhhHHhhccCceEEEEEcCHHh
Confidence            99985 222211      2233444444442  2  25689999999955

>PRK14952 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.15  E-value=1.8e-05  Score=77.71  Aligned_cols=156  Identities=15%  Similarity=0.145  Sum_probs=89.7

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHH
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAII  263 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~  263 (352)
                      .+++|.+...+.|.+++....     -...+.++|+.|+||||+|+.+...-......+       ..+++.-...+.|.
T Consensus        13 ~eivGq~~i~~~L~~~i~~~r-----~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~-------~~pCg~C~~C~~i~   80 (584)
T PRK14952         13 AEVVGQEHVTEPLSSALDAGR-----INHAYLFSGPRGCGKTSSARILARSLNCAQGPT-------ATPCGVCESCVALA   80 (584)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-----CCeEEEEECCCCCCHHHHHHHHHHHhccccCCC-------CCcccccHHHHHhh
Confidence            468999999999999886532     245578999999999999998886422111110       00111111111111


Q ss_pred             HHhCC----------CCCCcccHHHHHHHHHHh-cCCceEEEEecCCCCCCccChhHHHHhhccCCCCcEEEE-ecCChH
Q 036619          264 EGLGK----------SASGLNEFQSLMSRIQSS-IKGKKNFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKILV-TTRNES  331 (352)
Q Consensus       264 ~~l~~----------~~~~~~~~~~~~~~l~~~-l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~Iiv-TTR~~~  331 (352)
                      ..-+.          ...+.++..++...+... ..+++-++|+|++........+.|+..+......+.+|+ ||....
T Consensus        81 ~~~~~~~dvieidaas~~gvd~iRel~~~~~~~P~~~~~KVvIIDEah~Lt~~A~NALLK~LEEpp~~~~fIL~tte~~k  160 (584)
T PRK14952         81 PNGPGSIDVVELDAASHGGVDDTRELRDRAFYAPAQSRYRIFIVDEAHMVTTAGFNALLKIVEEPPEHLIFIFATTEPEK  160 (584)
T ss_pred             cccCCCceEEEeccccccCHHHHHHHHHHHHhhhhcCCceEEEEECCCcCCHHHHHHHHHHHhcCCCCeEEEEEeCChHh
Confidence            10000          001112223333333221 135566899999988777788888888887655665554 555555


Q ss_pred             HHHHhC-CCCeeeCCCCCCCc
Q 036619          332 VARMMG-STDIISIEQLAEEE  351 (352)
Q Consensus       332 va~~~~-~~~~~~l~~L~~~e  351 (352)
                      +-..+. -...|++.+++.++
T Consensus       161 ll~TI~SRc~~~~F~~l~~~~  181 (584)
T PRK14952        161 VLPTIRSRTHHYPFRLLPPRT  181 (584)
T ss_pred             hHHHHHHhceEEEeeCCCHHH
Confidence            554432 35678888887653

>PRK07471 DNA polymerase III subunit delta'; Validated

Probab=98.14  E-value=2.8e-05  Score=72.38  Aligned_cols=162  Identities=15%  Similarity=0.097  Sum_probs=92.9

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEE---EEeCCCCCHHHHHH
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIW---VCVSDTFDQIRIAK  260 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~w---v~vs~~~~~~~~~~  260 (352)
                      ..++|.+.....|.+.+....     -...+.++|+.|+||+|||..+...--..........   .........-...+
T Consensus        19 ~~iiGq~~~~~~L~~~~~~~r-----l~HA~Lf~Gp~G~GK~~lA~~~A~~Llc~~~~~~~~~~~~~~~l~~~~~c~~c~   93 (365)
T PRK07471         19 TALFGHAAAEAALLDAYRSGR-----LHHAWLIGGPQGIGKATLAYRMARFLLATPPPGGDGAVPPPTSLAIDPDHPVAR   93 (365)
T ss_pred             hhccChHHHHHHHHHHHHcCC-----CCceEEEECCCCCCHHHHHHHHHHHHhCCCCCCCCccccccccccCCCCChHHH
Confidence            568999999899988886543     2456889999999999999777664211111100000   00000000001122


Q ss_pred             HHHHHhCCC-----C---C------CcccHHHHHHHHHHhc-----CCceEEEEecCCCCCCccChhHHHHhhccCCCCc
Q 036619          261 AIIEGLGKS-----A---S------GLNEFQSLMSRIQSSI-----KGKKNFLVLDDVWDGDYNKWQPFFRCLKNGLHGS  321 (352)
Q Consensus       261 ~i~~~l~~~-----~---~------~~~~~~~~~~~l~~~l-----~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs  321 (352)
                      .|...-...     .   .      ..-..++ ++.+.+++     .+.+-++|||++...+....+.|...+.....++
T Consensus        94 ~i~~~~HPDl~~i~~~~~~~~~~~~~~I~Vdq-iR~l~~~~~~~~~~~~~kVviIDead~m~~~aanaLLK~LEepp~~~  172 (365)
T PRK07471         94 RIAAGAHGGLLTLERSWNEKGKRLRTVITVDE-VRELISFFGLTAAEGGWRVVIVDTADEMNANAANALLKVLEEPPARS  172 (365)
T ss_pred             HHHccCCCCeEEEecccccccccccccccHHH-HHHHHHHhCcCcccCCCEEEEEechHhcCHHHHHHHHHHHhcCCCCe
Confidence            222111110     0   0      0011333 23333333     3556799999999888788888988888766667


Q ss_pred             EEEEecCCh-HHHHHhCC-CCeeeCCCCCCCc
Q 036619          322 KILVTTRNE-SVARMMGS-TDIISIEQLAEEE  351 (352)
Q Consensus       322 ~IivTTR~~-~va~~~~~-~~~~~l~~L~~~e  351 (352)
                      .+|++|.+. .+...+.+ ...+++.+|+.++
T Consensus       173 ~~IL~t~~~~~llpti~SRc~~i~l~~l~~~~  204 (365)
T PRK07471        173 LFLLVSHAPARLLPTIRSRCRKLRLRPLAPED  204 (365)
T ss_pred             EEEEEECCchhchHHhhccceEEECCCCCHHH
Confidence            677777665 44433333 6688999998765

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

Probab=98.14  E-value=8.7e-06  Score=69.36  Aligned_cols=50  Identities=28%  Similarity=0.365  Sum_probs=33.4

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .+|+|.+.-+..+.-++..... ..+.+..+.+||++|+||||||..+.+.
T Consensus        24 ~efiGQ~~l~~~l~i~i~aa~~-r~~~l~h~lf~GPPG~GKTTLA~IIA~e   73 (233)
T PF05496_consen   24 DEFIGQEHLKGNLKILIRAAKK-RGEALDHMLFYGPPGLGKTTLARIIANE   73 (233)
T ss_dssp             CCS-S-HHHHHHHHHHHHHHHC-TTS---EEEEESSTTSSHHHHHHHHHHH
T ss_pred             HHccCcHHHHhhhHHHHHHHHh-cCCCcceEEEECCCccchhHHHHHHHhc
Confidence            5799998888776544432110 1245788889999999999999999985

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.

>PHA02544 44 clamp loader, small subunit; Provisional

Probab=98.13  E-value=2.3e-05  Score=71.92  Aligned_cols=120  Identities=16%  Similarity=0.139  Sum_probs=71.5

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHH
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAII  263 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~  263 (352)
                      .+++|.+...+.+..++...     ....++.++|++|+||||+|+.+++..  ...   ...++.+. .... ..+..+
T Consensus        21 ~~~~~~~~~~~~l~~~~~~~-----~~~~~lll~G~~G~GKT~la~~l~~~~--~~~---~~~i~~~~-~~~~-~i~~~l   88 (316)
T PHA02544         21 DECILPAADKETFKSIVKKG-----RIPNMLLHSPSPGTGKTTVAKALCNEV--GAE---VLFVNGSD-CRID-FVRNRL   88 (316)
T ss_pred             HHhcCcHHHHHHHHHHHhcC-----CCCeEEEeeCcCCCCHHHHHHHHHHHh--Ccc---ceEeccCc-ccHH-HHHHHH
Confidence            46899999999999888642     235677789999999999999998742  211   23444443 2211 111111


Q ss_pred             HHhCCCCCCcccHHHHHHHHHHhcCCceEEEEecCCCCC-CccChhHHHHhhccCCCCcEEEEecCCh
Q 036619          264 EGLGKSASGLNEFQSLMSRIQSSIKGKKNFLVLDDVWDG-DYNKWQPFFRCLKNGLHGSKILVTTRNE  330 (352)
Q Consensus       264 ~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdvw~~-~~~~~~~l~~~l~~~~~gs~IivTTR~~  330 (352)
                      ..+..             ..  -+.+.+-+||||++... ..+....+...+.....++++|+||...
T Consensus        89 ~~~~~-------------~~--~~~~~~~vliiDe~d~l~~~~~~~~L~~~le~~~~~~~~Ilt~n~~  141 (316)
T PHA02544         89 TRFAS-------------TV--SLTGGGKVIIIDEFDRLGLADAQRHLRSFMEAYSKNCSFIITANNK  141 (316)
T ss_pred             HHHHH-------------hh--cccCCCeEEEEECcccccCHHHHHHHHHHHHhcCCCceEEEEcCCh
Confidence            11100             00  01234568899999655 2223344555565555677888888653

>PRK09087 hypothetical protein; Validated

Probab=98.12  E-value=8.8e-06  Score=70.78  Aligned_cols=104  Identities=17%  Similarity=0.288  Sum_probs=60.7

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCcccHHHHHHHHHHhcCCc
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSASGLNEFQSLMSRIQSSIKGK  290 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~k  290 (352)
                      .+.+.|+|+.|+|||+|++.++....       ..+++..      .+...++.                     .+.+ 
T Consensus        44 ~~~l~l~G~~GsGKThLl~~~~~~~~-------~~~i~~~------~~~~~~~~---------------------~~~~-   88 (226)
T PRK09087         44 SPVVVLAGPVGSGKTHLASIWREKSD-------ALLIHPN------EIGSDAAN---------------------AAAE-   88 (226)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHhcC-------CEEecHH------HcchHHHH---------------------hhhc-
Confidence            35689999999999999998886421       1133221      11111111                     1111 


Q ss_pred             eEEEEecCCCCCCccChhHHHHhhcc-CCCCcEEEEecCC---------hHHHHHhCCCCeeeCCCCCCCc
Q 036619          291 KNFLVLDDVWDGDYNKWQPFFRCLKN-GLHGSKILVTTRN---------ESVARMMGSTDIISIEQLAEEE  351 (352)
Q Consensus       291 r~LlVlDdvw~~~~~~~~~l~~~l~~-~~~gs~IivTTR~---------~~va~~~~~~~~~~l~~L~~~e  351 (352)
                       -+|+|||+.... ..-..+...+.. ...|..||+|++.         +++...+....+++++++++++
T Consensus        89 -~~l~iDDi~~~~-~~~~~lf~l~n~~~~~g~~ilits~~~p~~~~~~~~dL~SRl~~gl~~~l~~pd~e~  157 (226)
T PRK09087         89 -GPVLIEDIDAGG-FDETGLFHLINSVRQAGTSLLMTSRLWPSSWNVKLPDLKSRLKAATVVEIGEPDDAL  157 (226)
T ss_pred             -CeEEEECCCCCC-CCHHHHHHHHHHHHhCCCeEEEECCCChHHhccccccHHHHHhCCceeecCCCCHHH
Confidence             278899996431 111234444431 1236678988873         3455556667889999988653

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

Probab=98.12  E-value=1.3e-05  Score=63.24  Aligned_cols=96  Identities=22%  Similarity=0.136  Sum_probs=52.1

Q ss_pred             EEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCcccHHHHHHHHHHhcCC-ceE
Q 036619          214 ISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSASGLNEFQSLMSRIQSSIKG-KKN  292 (352)
Q Consensus       214 i~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~-kr~  292 (352)
                      |.|+|++|+|||++|+.+.+.-  ..+   .+.++.+.-.+.               ........+...+.+.-.. ++.
T Consensus         1 ill~G~~G~GKT~l~~~la~~l--~~~---~~~i~~~~~~~~---------------~~~~~~~~i~~~~~~~~~~~~~~   60 (132)
T PF00004_consen    1 ILLHGPPGTGKTTLARALAQYL--GFP---FIEIDGSELISS---------------YAGDSEQKIRDFFKKAKKSAKPC   60 (132)
T ss_dssp             EEEESSTTSSHHHHHHHHHHHT--TSE---EEEEETTHHHTS---------------STTHHHHHHHHHHHHHHHTSTSE
T ss_pred             CEEECcCCCCeeHHHHHHHhhc--ccc---cccccccccccc---------------cccccccccccccccccccccce
Confidence            5689999999999999999853  211   334443321100               0111122223333332223 489


Q ss_pred             EEEecCCCCCCccC-----------hhHHHHhhccCCC---CcEEEEecCC
Q 036619          293 FLVLDDVWDGDYNK-----------WQPFFRCLKNGLH---GSKILVTTRN  329 (352)
Q Consensus       293 LlVlDdvw~~~~~~-----------~~~l~~~l~~~~~---gs~IivTTR~  329 (352)
                      +|+|||+.......           ...+...+.....   +..||.||..
T Consensus        61 vl~iDe~d~l~~~~~~~~~~~~~~~~~~L~~~l~~~~~~~~~~~vI~ttn~  111 (132)
T PF00004_consen   61 VLFIDEIDKLFPKSQPSSSSFEQRLLNQLLSLLDNPSSKNSRVIVIATTNS  111 (132)
T ss_dssp             EEEEETGGGTSHHCSTSSSHHHHHHHHHHHHHHHTTTTTSSSEEEEEEESS
T ss_pred             eeeeccchhcccccccccccccccccceeeecccccccccccceeEEeeCC
Confidence            99999996543222           3445555544322   3456666665

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 ....

>PRK14969 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.11  E-value=2.9e-05  Score=75.91  Aligned_cols=155  Identities=15%  Similarity=0.207  Sum_probs=82.7

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHH
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAII  263 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~  263 (352)
                      .+++|.+.-++.|.+++....     -...+.++|+.|+||||+|+.+...-.....      +. ..++..-.....|.
T Consensus        16 ~divGq~~v~~~L~~~i~~~~-----~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~------~~-~~pcg~C~~C~~i~   83 (527)
T PRK14969         16 SELVGQEHVVRALTNALEQQR-----LHHAYLFTGTRGVGKTTLARILAKSLNCETG------VT-ATPCGVCSACLEID   83 (527)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-----CCEEEEEECCCCCCHHHHHHHHHHHhcCCCC------CC-CCCCCCCHHHHHHh
Confidence            468999999999988886533     2355679999999999999998764211110      00 00111001111111


Q ss_pred             HHhC-----CCCCCcccHHHHH---HHHHH-hcCCceEEEEecCCCCCCccChhHHHHhhccCCCCcEEEEecCC-hHHH
Q 036619          264 EGLG-----KSASGLNEFQSLM---SRIQS-SIKGKKNFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKILVTTRN-ESVA  333 (352)
Q Consensus       264 ~~l~-----~~~~~~~~~~~~~---~~l~~-~l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTTR~-~~va  333 (352)
                      ..-.     .........+++.   ..+.. -..+++-++|+|++........+.|...+......+.+|++|.+ +.+.
T Consensus        84 ~~~~~d~~ei~~~~~~~vd~ir~l~~~~~~~p~~~~~kVvIIDEad~ls~~a~naLLK~LEepp~~~~fIL~t~d~~kil  163 (527)
T PRK14969         84 SGRFVDLIEVDAASNTQVDAMRELLDNAQYAPTRGRFKVYIIDEVHMLSKSAFNAMLKTLEEPPEHVKFILATTDPQKIP  163 (527)
T ss_pred             cCCCCceeEeeccccCCHHHHHHHHHHHhhCcccCCceEEEEcCcccCCHHHHHHHHHHHhCCCCCEEEEEEeCChhhCc
Confidence            0000     0000011122222   21111 11356779999999877656678888888776556666665543 3333


Q ss_pred             HHh-CCCCeeeCCCCCCC
Q 036619          334 RMM-GSTDIISIEQLAEE  350 (352)
Q Consensus       334 ~~~-~~~~~~~l~~L~~~  350 (352)
                      ..+ +-...+++.+++.+
T Consensus       164 ~tI~SRc~~~~f~~l~~~  181 (527)
T PRK14969        164 VTVLSRCLQFNLKQMPPP  181 (527)
T ss_pred             hhHHHHHHHHhcCCCCHH
Confidence            221 11345666666554

>PRK09111 DNA polymerase III subunits gamma and tau; Validated

Probab=98.11  E-value=2e-05  Score=77.78  Aligned_cols=159  Identities=15%  Similarity=0.209  Sum_probs=89.7

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCe--EEEEEeCCCCCHHHHHHH
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEK--VIWVCVSDTFDQIRIAKA  261 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~--~~wv~vs~~~~~~~~~~~  261 (352)
                      .+++|.+..++.|.+.+....     -...+.++|+.|+||||+|+.+.+.-........  ..+    ..+..-.-.+.
T Consensus        24 ~dliGq~~~v~~L~~~~~~gr-----i~ha~L~~Gp~GvGKTt~Ar~lAk~L~c~~~~~~~~~~~----~~cg~c~~C~~   94 (598)
T PRK09111         24 DDLIGQEAMVRTLTNAFETGR-----IAQAFMLTGVRGVGKTTTARILARALNYEGPDGDGGPTI----DLCGVGEHCQA   94 (598)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-----CCceEEEECCCCCCHHHHHHHHHHhhCcCCccccCCCcc----ccCcccHHHHH
Confidence            468999999999999886533     2456789999999999999999874221111100  000    01111111222


Q ss_pred             HHHHhCCC--------CCCcccHHHHHHHHHHh-cCCceEEEEecCCCCCCccChhHHHHhhccCCCCcEEEE-ecCChH
Q 036619          262 IIEGLGKS--------ASGLNEFQSLMSRIQSS-IKGKKNFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKILV-TTRNES  331 (352)
Q Consensus       262 i~~~l~~~--------~~~~~~~~~~~~~l~~~-l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~Iiv-TTR~~~  331 (352)
                      |.......        ..+..++.++...++.. ..+++-++|+|++........+.|...+..-...+++|+ ||....
T Consensus        95 i~~g~h~Dv~e~~a~s~~gvd~IReIie~~~~~P~~a~~KVvIIDEad~Ls~~a~naLLKtLEePp~~~~fIl~tte~~k  174 (598)
T PRK09111         95 IMEGRHVDVLEMDAASHTGVDDIREIIESVRYRPVSARYKVYIIDEVHMLSTAAFNALLKTLEEPPPHVKFIFATTEIRK  174 (598)
T ss_pred             HhcCCCCceEEecccccCCHHHHHHHHHHHHhchhcCCcEEEEEEChHhCCHHHHHHHHHHHHhCCCCeEEEEEeCChhh
Confidence            22211111        01111222233322211 234556899999977765667888888877666676655 445455


Q ss_pred             HHHHhC-CCCeeeCCCCCCCc
Q 036619          332 VARMMG-STDIISIEQLAEEE  351 (352)
Q Consensus       332 va~~~~-~~~~~~l~~L~~~e  351 (352)
                      +...+. -...+++.+++.++
T Consensus       175 ll~tI~SRcq~~~f~~l~~~e  195 (598)
T PRK09111        175 VPVTVLSRCQRFDLRRIEADV  195 (598)
T ss_pred             hhHHHHhheeEEEecCCCHHH
Confidence            544332 25578888877653

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

Probab=98.09  E-value=2.1e-05  Score=73.17  Aligned_cols=117  Identities=18%  Similarity=0.145  Sum_probs=82.1

Q ss_pred             CCccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHH
Q 036619          183 EGEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAI  262 (352)
Q Consensus       183 ~~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i  262 (352)
                      +..++||+.|++.+.+|+...-+.  ...+.+-|.|-+|.|||.+...++.+......=-+++++++..-.....++..|
T Consensus       149 p~~l~gRe~e~~~v~~F~~~hle~--~t~gSlYVsG~PGtgkt~~l~rvl~~~~~~~~~~~~v~inc~sl~~~~aiF~kI  226 (529)
T KOG2227|consen  149 PGTLKGRELEMDIVREFFSLHLEL--NTSGSLYVSGQPGTGKTALLSRVLDSLSKSSKSPVTVYINCTSLTEASAIFKKI  226 (529)
T ss_pred             CCCccchHHHHHHHHHHHHhhhhc--ccCcceEeeCCCCcchHHHHHHHHHhhhhhcccceeEEEeeccccchHHHHHHH
Confidence            467999999999999999765532  456788899999999999999999864322221255777777656777888888


Q ss_pred             HHHhCCCCCCcccHHHHHHHHHHhcCC-c-eEEEEecCCCC
Q 036619          263 IEGLGKSASGLNEFQSLMSRIQSSIKG-K-KNFLVLDDVWD  301 (352)
Q Consensus       263 ~~~l~~~~~~~~~~~~~~~~l~~~l~~-k-r~LlVlDdvw~  301 (352)
                      ...+...........+....+...... + -+|+|+|.+..
T Consensus       227 ~~~~~q~~~s~~~~~~~~~~~~~h~~q~k~~~llVlDEmD~  267 (529)
T KOG2227|consen  227 FSSLLQDLVSPGTGMQHLEKFEKHTKQSKFMLLLVLDEMDH  267 (529)
T ss_pred             HHHHHHHhcCCchhHHHHHHHHHHHhcccceEEEEechhhH
Confidence            887733222222224555666666643 3 68999999854

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

Probab=98.09  E-value=2.7e-05  Score=67.31  Aligned_cols=109  Identities=18%  Similarity=0.205  Sum_probs=68.4

Q ss_pred             cCCccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHH
Q 036619          182 DEGEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKA  261 (352)
Q Consensus       182 ~~~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~  261 (352)
                      .-..++|.+.+++.|++-...--.+  ....-+.+||..|.|||+|++.+.+...-+.    .--|.++.          
T Consensus        25 ~l~~L~Gie~Qk~~l~~Nt~~Fl~G--~pannvLL~G~rGtGKSSlVkall~~y~~~G----LRlIev~k----------   88 (249)
T PF05673_consen   25 RLDDLIGIERQKEALIENTEQFLQG--LPANNVLLWGARGTGKSSLVKALLNEYADQG----LRLIEVSK----------   88 (249)
T ss_pred             CHHHhcCHHHHHHHHHHHHHHHHcC--CCCcceEEecCCCCCHHHHHHHHHHHHhhcC----ceEEEECH----------
Confidence            3457999999998887654322211  2345566899999999999999988532222    11122322          


Q ss_pred             HHHHhCCCCCCcccHHHHHHHHHHhcCCceEEEEecCCCCC-CccChhHHHHhhccC
Q 036619          262 IIEGLGKSASGLNEFQSLMSRIQSSIKGKKNFLVLDDVWDG-DYNKWQPFFRCLKNG  317 (352)
Q Consensus       262 i~~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdvw~~-~~~~~~~l~~~l~~~  317 (352)
                               ....++..+...|+.  ...||+|++||+.-. +...+..|++.|..+
T Consensus        89 ---------~~L~~l~~l~~~l~~--~~~kFIlf~DDLsFe~~d~~yk~LKs~LeGg  134 (249)
T PF05673_consen   89 ---------EDLGDLPELLDLLRD--RPYKFILFCDDLSFEEGDTEYKALKSVLEGG  134 (249)
T ss_pred             ---------HHhccHHHHHHHHhc--CCCCEEEEecCCCCCCCcHHHHHHHHHhcCc
Confidence                     112233444444442  467999999999654 334688888888643

>PRK09112 DNA polymerase III subunit delta'; Validated

Probab=98.06  E-value=3.1e-05  Score=71.70  Aligned_cols=160  Identities=16%  Similarity=0.162  Sum_probs=93.4

Q ss_pred             CCccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhc--cCCeEEEEEeCCCCCHHHHHH
Q 036619          183 EGEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKR--NFEKVIWVCVSDTFDQIRIAK  260 (352)
Q Consensus       183 ~~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~--~F~~~~wv~vs~~~~~~~~~~  260 (352)
                      ...++|.++....|...+....     -...+.|+|+.|+||||||..+...--...  .+...   ....++..-...+
T Consensus        22 ~~~l~Gh~~a~~~L~~a~~~gr-----l~ha~L~~G~~G~GKttlA~~lA~~Llc~~~~~~~~~---~~~~~~~~c~~c~   93 (351)
T PRK09112         22 NTRLFGHEEAEAFLAQAYREGK-----LHHALLFEGPEGIGKATLAFHLANHILSHPDPAEAPE---TLADPDPASPVWR   93 (351)
T ss_pred             hhhccCcHHHHHHHHHHHHcCC-----CCeeEeeECCCCCCHHHHHHHHHHHHcCCCccccCcc---ccCCCCCCCHHHH
Confidence            3568999999999999886533     245688999999999999998876421110  01111   0111111112333


Q ss_pred             HHHHHhCC-------CC-C------CcccHHHHHHHHHHhc-----CCceEEEEecCCCCCCccChhHHHHhhccCCCCc
Q 036619          261 AIIEGLGK-------SA-S------GLNEFQSLMSRIQSSI-----KGKKNFLVLDDVWDGDYNKWQPFFRCLKNGLHGS  321 (352)
Q Consensus       261 ~i~~~l~~-------~~-~------~~~~~~~~~~~l~~~l-----~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs  321 (352)
                      .|...-..       .. .      ..-..+++ ..+.+++     .+++-++|+|++...+....+.|...+.....+.
T Consensus        94 ~i~~~~hPdl~~l~~~~~~~~~~~~~~I~vd~i-R~l~~~l~~~~~~g~~rVviIDeAd~l~~~aanaLLk~LEEpp~~~  172 (351)
T PRK09112         94 QIAQGAHPNLLHITRPFDEKTGKFKTAITVDEI-RRVGHFLSQTSGDGNWRIVIIDPADDMNRNAANAILKTLEEPPARA  172 (351)
T ss_pred             HHHcCCCCCEEEeecccccccccccccCCHHHH-HHHHHHhhhccccCCceEEEEEchhhcCHHHHHHHHHHHhcCCCCc
Confidence            33222110       00 0      01113332 2344443     3567799999999887777888888887655555


Q ss_pred             EEEEec-CChHHHHHhCC-CCeeeCCCCCCCc
Q 036619          322 KILVTT-RNESVARMMGS-TDIISIEQLAEEE  351 (352)
Q Consensus       322 ~IivTT-R~~~va~~~~~-~~~~~l~~L~~~e  351 (352)
                      .+|++| +...+...+.+ ...+++.+++.++
T Consensus       173 ~fiLit~~~~~llptIrSRc~~i~l~pl~~~~  204 (351)
T PRK09112        173 LFILISHSSGRLLPTIRSRCQPISLKPLDDDE  204 (351)
T ss_pred             eEEEEECChhhccHHHHhhccEEEecCCCHHH
Confidence            555544 44444433322 5689999998765

>PRK14970 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.06  E-value=3.2e-05  Score=72.60  Aligned_cols=145  Identities=15%  Similarity=0.266  Sum_probs=80.9

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhh------ccCCeEE-EEEeCCCCCHH
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVK------RNFEKVI-WVCVSDTFDQI  256 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~------~~F~~~~-wv~vs~~~~~~  256 (352)
                      .+++|.+...+.+.+.+....     -...+.++|++|+||||+|+.+.+.-...      ..|...+ -+......+..
T Consensus        17 ~~iig~~~~~~~l~~~i~~~~-----~~~~~L~~G~~G~GKt~~a~~la~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~   91 (367)
T PRK14970         17 DDVVGQSHITNTLLNAIENNH-----LAQALLFCGPRGVGKTTCARILARKINQPGYDDPNEDFSFNIFELDAASNNSVD   91 (367)
T ss_pred             HhcCCcHHHHHHHHHHHHcCC-----CCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCcceEEeccccCCCHH
Confidence            457899999998888886532     24678899999999999999887642110      1121111 11111111111


Q ss_pred             HHHHHHHHHhCCCCCCcccHHHHHHHHHH-hcCCceEEEEecCCCCCCccChhHHHHhhccCCCCcEEEEec-CChHHHH
Q 036619          257 RIAKAIIEGLGKSASGLNEFQSLMSRIQS-SIKGKKNFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKILVTT-RNESVAR  334 (352)
Q Consensus       257 ~~~~~i~~~l~~~~~~~~~~~~~~~~l~~-~l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTT-R~~~va~  334 (352)
                                        +..++...+.. -..+++-++++|++.......++.+...+......+.+|++| ....+..
T Consensus        92 ------------------~i~~l~~~~~~~p~~~~~kiviIDE~~~l~~~~~~~ll~~le~~~~~~~~Il~~~~~~kl~~  153 (367)
T PRK14970         92 ------------------DIRNLIDQVRIPPQTGKYKIYIIDEVHMLSSAAFNAFLKTLEEPPAHAIFILATTEKHKIIP  153 (367)
T ss_pred             ------------------HHHHHHHHHhhccccCCcEEEEEeChhhcCHHHHHHHHHHHhCCCCceEEEEEeCCcccCCH
Confidence                              11111111111 113455689999997654445777777776544455555544 4434332


Q ss_pred             H-hCCCCeeeCCCCCCCc
Q 036619          335 M-MGSTDIISIEQLAEEE  351 (352)
Q Consensus       335 ~-~~~~~~~~l~~L~~~e  351 (352)
                      . .+...++++.++++++
T Consensus       154 ~l~sr~~~v~~~~~~~~~  171 (367)
T PRK14970        154 TILSRCQIFDFKRITIKD  171 (367)
T ss_pred             HHHhcceeEecCCccHHH
Confidence            2 2334578888887654

>PRK14950 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.05  E-value=1.9e-05  Score=78.43  Aligned_cols=156  Identities=14%  Similarity=0.187  Sum_probs=86.8

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHH
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAII  263 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~  263 (352)
                      .+++|.+.-++.|.+++....     -...+.++|+.|+||||+|+.+.+.-.....+      .-...++.-...+.|.
T Consensus        16 ~eiiGq~~~~~~L~~~i~~~~-----i~~a~Lf~Gp~G~GKTtlA~~lA~~l~c~~~~------~~~~~c~~c~~c~~i~   84 (585)
T PRK14950         16 AELVGQEHVVQTLRNAIAEGR-----VAHAYLFTGPRGVGKTSTARILAKAVNCTTND------PKGRPCGTCEMCRAIA   84 (585)
T ss_pred             HHhcCCHHHHHHHHHHHHhCC-----CceEEEEECCCCCCHHHHHHHHHHHhcCCCCC------CCCCCCccCHHHHHHh
Confidence            468999998888888886432     23566799999999999999998642111100      0001122223333333


Q ss_pred             HHhCCC-----CCCcccHH---HHHHHHHHh-cCCceEEEEecCCCCCCccChhHHHHhhccCCCCcEEEEecC-ChHHH
Q 036619          264 EGLGKS-----ASGLNEFQ---SLMSRIQSS-IKGKKNFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKILVTTR-NESVA  333 (352)
Q Consensus       264 ~~l~~~-----~~~~~~~~---~~~~~l~~~-l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTTR-~~~va  333 (352)
                      ......     .......+   ++...+... ..+++-++|||++.....+..+.|...+......+.+|++|. ...+.
T Consensus        85 ~~~~~d~~~i~~~~~~~vd~ir~ii~~~~~~p~~~~~kVvIIDEa~~L~~~a~naLLk~LEepp~~tv~Il~t~~~~kll  164 (585)
T PRK14950         85 EGSAVDVIEMDAASHTSVDDAREIIERVQFRPALARYKVYIIDEVHMLSTAAFNALLKTLEEPPPHAIFILATTEVHKVP  164 (585)
T ss_pred             cCCCCeEEEEeccccCCHHHHHHHHHHHhhCcccCCeEEEEEeChHhCCHHHHHHHHHHHhcCCCCeEEEEEeCChhhhh
Confidence            322111     00111122   222222221 235567899999977665667788888876655666666553 33443


Q ss_pred             HHh-CCCCeeeCCCCCCC
Q 036619          334 RMM-GSTDIISIEQLAEE  350 (352)
Q Consensus       334 ~~~-~~~~~~~l~~L~~~  350 (352)
                      ..+ .-...+++.+++.+
T Consensus       165 ~tI~SR~~~i~f~~l~~~  182 (585)
T PRK14950        165 ATILSRCQRFDFHRHSVA  182 (585)
T ss_pred             HHHHhccceeeCCCCCHH
Confidence            322 22456667666543

>PRK14959 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.05  E-value=3.4e-05  Score=75.84  Aligned_cols=156  Identities=14%  Similarity=0.238  Sum_probs=85.1

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHH
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAII  263 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~  263 (352)
                      .+++|.+..+..|.+.+....     -...+.++|+.|+||||+|+.+.+.-.......       ...++.-...+.|.
T Consensus        16 ~dIiGQe~v~~~L~~ai~~~r-----i~ha~Lf~GPpG~GKTtiArilAk~L~C~~~~~-------~~pCg~C~sC~~i~   83 (624)
T PRK14959         16 AEVAGQETVKAILSRAAQENR-----VAPAYLFSGTRGVGKTTIARIFAKALNCETAPT-------GEPCNTCEQCRKVT   83 (624)
T ss_pred             HHhcCCHHHHHHHHHHHHcCC-----CCceEEEECCCCCCHHHHHHHHHHhccccCCCC-------CCCCcccHHHHHHh
Confidence            457898877777777775432     246777899999999999998887422111000       00111111122221


Q ss_pred             HHhCCC--------CCCcccHHHHHHHHHH-hcCCceEEEEecCCCCCCccChhHHHHhhccCCCCcEEEEec-CChHHH
Q 036619          264 EGLGKS--------ASGLNEFQSLMSRIQS-SIKGKKNFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKILVTT-RNESVA  333 (352)
Q Consensus       264 ~~l~~~--------~~~~~~~~~~~~~l~~-~l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTT-R~~~va  333 (352)
                      ......        .....+...+...+.. -..+++-+||||++.......++.|...+........+|++| ....+.
T Consensus        84 ~g~hpDv~eId~a~~~~Id~iR~L~~~~~~~p~~g~~kVIIIDEad~Lt~~a~naLLk~LEEP~~~~ifILaTt~~~kll  163 (624)
T PRK14959         84 QGMHVDVVEIDGASNRGIDDAKRLKEAIGYAPMEGRYKVFIIDEAHMLTREAFNALLKTLEEPPARVTFVLATTEPHKFP  163 (624)
T ss_pred             cCCCCceEEEecccccCHHHHHHHHHHHHhhhhcCCceEEEEEChHhCCHHHHHHHHHHhhccCCCEEEEEecCChhhhh
Confidence            111000        0001111222222221 124566799999998776667788888886544455555545 445555


Q ss_pred             HHh-CCCCeeeCCCCCCCc
Q 036619          334 RMM-GSTDIISIEQLAEEE  351 (352)
Q Consensus       334 ~~~-~~~~~~~l~~L~~~e  351 (352)
                      ..+ .-...|++.+++.++
T Consensus       164 ~TI~SRcq~i~F~pLs~~e  182 (624)
T PRK14959        164 VTIVSRCQHFTFTRLSEAG  182 (624)
T ss_pred             HHHHhhhhccccCCCCHHH
Confidence            333 224577888887654

>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=98.05  E-value=2.4e-05  Score=67.93  Aligned_cols=113  Identities=19%  Similarity=0.287  Sum_probs=59.4

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCcccHH----HHHHHHHHh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSASGLNEFQ----SLMSRIQSS  286 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~----~~~~~l~~~  286 (352)
                      +-.++|+|..|+|||||...+..+  ....|..+++++-.........+..  ..+.... ....++    .....+.+.
T Consensus        13 ~fr~viIG~sGSGKT~li~~lL~~--~~~~f~~I~l~t~~~n~~~~~~i~p--~~i~~~~-~~e~le~~l~~~k~~I~k~   87 (241)
T PF04665_consen   13 PFRMVIIGKSGSGKTTLIKSLLYY--LRHKFDHIFLITPEYNNEYYKYIWP--DHIFKVF-DKEELEYILIRQKEKIEKY   87 (241)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHh--hcccCCEEEEEecCCchhhhhhcch--hhccccc-cHHHHHHHHHHHHHHHHHH
Confidence            346779999999999999888864  6778888877754333222211100  0111100 011111    112222232


Q ss_pred             c----CCc---eEEEEecCCCCCCccChhHHHHhhccCCC-CcEEEEecCC
Q 036619          287 I----KGK---KNFLVLDDVWDGDYNKWQPFFRCLKNGLH-GSKILVTTRN  329 (352)
Q Consensus       287 l----~~k---r~LlVlDdvw~~~~~~~~~l~~~l~~~~~-gs~IivTTR~  329 (352)
                      .    .+|   +.||||||+.... ..-..+...+..+.+ +.-+|++++.
T Consensus        88 ~~k~~~~k~~~~~LiIlDD~~~~~-~k~~~l~~~~~~gRH~~is~i~l~Q~  137 (241)
T PF04665_consen   88 IKKSPQKKNNPRFLIILDDLGDKK-LKSKILRQFFNNGRHYNISIIFLSQS  137 (241)
T ss_pred             hhhhcccCCCCCeEEEEeCCCCch-hhhHHHHHHHhcccccceEEEEEeee
Confidence            2    233   8999999996521 111235555655432 3446666654

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

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=98.03  E-value=3.1e-05  Score=79.78  Aligned_cols=45  Identities=29%  Similarity=0.315  Sum_probs=37.6

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..++||+.++.++++.|....      ..-+.++|++|+||||||+.+.+.
T Consensus       187 d~~iGr~~ei~~~i~~l~r~~------~~n~lLvG~pGvGKTal~~~La~~  231 (852)
T TIGR03345       187 DPVLGRDDEIRQMIDILLRRR------QNNPILTGEAGVGKTAVVEGLALR  231 (852)
T ss_pred             CcccCCHHHHHHHHHHHhcCC------cCceeEECCCCCCHHHHHHHHHHH
Confidence            468999999999999986643      234459999999999999999874

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.

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=98.02  E-value=4.2e-05  Score=60.50  Aligned_cols=88  Identities=20%  Similarity=0.165  Sum_probs=46.8

Q ss_pred             EEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCcccHHHHHHHHHHhcCCc-
Q 036619          212 QVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSASGLNEFQSLMSRIQSSIKGK-  290 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~k-  290 (352)
                      ..+.|+|++|+||||+++.+....  .......+++..+........... .......... .........+.+..+.. 
T Consensus         3 ~~~~l~G~~G~GKTtl~~~l~~~~--~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~-~~~~~~~~~~~~~~~~~~   78 (148)
T smart00382        3 EVILIVGPPGSGKTTLARALAREL--GPPGGGVIYIDGEDILEEVLDQLL-LIIVGGKKAS-GSGELRLRLALALARKLK   78 (148)
T ss_pred             CEEEEECCCCCcHHHHHHHHHhcc--CCCCCCEEEECCEEccccCHHHHH-hhhhhccCCC-CCHHHHHHHHHHHHHhcC
Confidence            578899999999999999998742  222223555554443322221111 0111111111 12222233444444433 


Q ss_pred             eEEEEecCCCCCC
Q 036619          291 KNFLVLDDVWDGD  303 (352)
Q Consensus       291 r~LlVlDdvw~~~  303 (352)
                      ..+|++|++....
T Consensus        79 ~~viiiDei~~~~   91 (148)
T smart00382       79 PDVLILDEITSLL   91 (148)
T ss_pred             CCEEEEECCcccC
Confidence            4999999997763

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.

>CHL00095 clpC Clp protease ATP binding subunit

Probab=98.02  E-value=5.6e-05  Score=78.10  Aligned_cols=45  Identities=27%  Similarity=0.284  Sum_probs=37.5

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..++||+++++++++.|....      ..-+.++|++|+|||++|+.+...
T Consensus       179 ~~~igr~~ei~~~~~~L~r~~------~~n~lL~G~pGvGKTal~~~la~~  223 (821)
T CHL00095        179 DPVIGREKEIERVIQILGRRT------KNNPILIGEPGVGKTAIAEGLAQR  223 (821)
T ss_pred             CCCCCcHHHHHHHHHHHcccc------cCCeEEECCCCCCHHHHHHHHHHH
Confidence            458999999999999997643      234469999999999999998875

>PF13177 DNA_pol3_delta2: DNA polymerase III, delta subunit; PDB: 1NJF_B 3GLG_G 1XXH_I 1NJG_A 3GLF_B 3GLI_G 1IQP_E 2GNO_A 1SXJ_E 1A5T_A

Probab=98.01  E-value=0.00013  Score=59.98  Aligned_cols=137  Identities=15%  Similarity=0.153  Sum_probs=78.1

Q ss_pred             cccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhcc------------------CCeEEEEEe
Q 036619          188 GRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRN------------------FEKVIWVCV  249 (352)
Q Consensus       188 gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~------------------F~~~~wv~v  249 (352)
                      |.++..+.|.+.+....     -...+.++|+.|+||+++|..+...--....                  ..-..|+.-
T Consensus         1 gq~~~~~~L~~~~~~~~-----l~ha~L~~G~~g~gk~~~a~~~a~~ll~~~~~~~~c~~c~~c~~~~~~~~~d~~~~~~   75 (162)
T PF13177_consen    1 GQEEIIELLKNLIKSGR-----LPHALLFHGPSGSGKKTLALAFARALLCSNPNEDPCGECRSCRRIEEGNHPDFIIIKP   75 (162)
T ss_dssp             S-HHHHHHHHHHHHCTC-------SEEEEECSTTSSHHHHHHHHHHHHC-TT-CTT--SSSHHHHHHHTT-CTTEEEEET
T ss_pred             CcHHHHHHHHHHHHcCC-----cceeEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCHHHHHHHhccCcceEEEec
Confidence            34455566666664432     2456789999999999999887764211111                  122223322


Q ss_pred             CCCCCHHHHHHHHHHHhCCCCCCcccHHHHHHHHHHhc-----CCceEEEEecCCCCCCccChhHHHHhhccCCCCcEEE
Q 036619          250 SDTFDQIRIAKAIIEGLGKSASGLNEFQSLMSRIQSSI-----KGKKNFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKIL  324 (352)
Q Consensus       250 s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l-----~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~Ii  324 (352)
                      ....                  ..-..+++. .+.+.+     .+++-++|||++...+.+.++.|+..+.....++.+|
T Consensus        76 ~~~~------------------~~i~i~~ir-~i~~~~~~~~~~~~~KviiI~~ad~l~~~a~NaLLK~LEepp~~~~fi  136 (162)
T PF13177_consen   76 DKKK------------------KSIKIDQIR-EIIEFLSLSPSEGKYKVIIIDEADKLTEEAQNALLKTLEEPPENTYFI  136 (162)
T ss_dssp             TTSS------------------SSBSHHHHH-HHHHHCTSS-TTSSSEEEEEETGGGS-HHHHHHHHHHHHSTTTTEEEE
T ss_pred             cccc------------------chhhHHHHH-HHHHHHHHHHhcCCceEEEeehHhhhhHHHHHHHHHHhcCCCCCEEEE
Confidence            2210                  011233333 333332     3456689999999988888999999998888889888


Q ss_pred             EecCChH-HHHHhCC-CCeeeCCCCC
Q 036619          325 VTTRNES-VARMMGS-TDIISIEQLA  348 (352)
Q Consensus       325 vTTR~~~-va~~~~~-~~~~~l~~L~  348 (352)
                      ++|.+.+ +-..+-+ ...+++.+||
T Consensus       137 L~t~~~~~il~TI~SRc~~i~~~~ls  162 (162)
T PF13177_consen  137 LITNNPSKILPTIRSRCQVIRFRPLS  162 (162)
T ss_dssp             EEES-GGGS-HHHHTTSEEEEE----
T ss_pred             EEECChHHChHHHHhhceEEecCCCC
Confidence            8887764 4444433 5677777764

...

>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=98.00  E-value=4.7e-05  Score=65.92  Aligned_cols=147  Identities=16%  Similarity=0.267  Sum_probs=76.9

Q ss_pred             ccccccch-HHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHH
Q 036619          185 EVCGRVDE-KSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAII  263 (352)
Q Consensus       185 ~~~gr~~~-~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~  263 (352)
                      .++|...+ .......+.....   .....+-|+|..|+|||.|.+.+++...-...=..+++++      ...+...+.
T Consensus        10 fv~g~~N~~a~~~~~~ia~~~~---~~~~~l~l~G~~G~GKTHLL~Ai~~~~~~~~~~~~v~y~~------~~~f~~~~~   80 (219)
T PF00308_consen   10 FVVGESNELAYAAAKAIAENPG---ERYNPLFLYGPSGLGKTHLLQAIANEAQKQHPGKRVVYLS------AEEFIREFA   80 (219)
T ss_dssp             S--TTTTHHHHHHHHHHHHSTT---TSSSEEEEEESTTSSHHHHHHHHHHHHHHHCTTS-EEEEE------HHHHHHHHH
T ss_pred             CCcCCcHHHHHHHHHHHHhcCC---CCCCceEEECCCCCCHHHHHHHHHHHHHhccccccceeec------HHHHHHHHH
Confidence            34564333 3344444443321   2344578999999999999999998532221222455553      345555555


Q ss_pred             HHhCCCCCCcccHHHHHHHHHHhcCCceEEEEecCCCCCCc-cChhH-HHHhhcc-CCCCcEEEEecCCh---------H
Q 036619          264 EGLGKSASGLNEFQSLMSRIQSSIKGKKNFLVLDDVWDGDY-NKWQP-FFRCLKN-GLHGSKILVTTRNE---------S  331 (352)
Q Consensus       264 ~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdvw~~~~-~~~~~-l~~~l~~-~~~gs~IivTTR~~---------~  331 (352)
                      ..+..     ...    ..+++.+. .-=+|+|||++.-.. ..|.. +...+.. ...|-+||+|+...         +
T Consensus        81 ~~~~~-----~~~----~~~~~~~~-~~DlL~iDDi~~l~~~~~~q~~lf~l~n~~~~~~k~li~ts~~~P~~l~~~~~~  150 (219)
T PF00308_consen   81 DALRD-----GEI----EEFKDRLR-SADLLIIDDIQFLAGKQRTQEELFHLFNRLIESGKQLILTSDRPPSELSGLLPD  150 (219)
T ss_dssp             HHHHT-----TSH----HHHHHHHC-TSSEEEEETGGGGTTHHHHHHHHHHHHHHHHHTTSEEEEEESS-TTTTTTS-HH
T ss_pred             HHHHc-----ccc----hhhhhhhh-cCCEEEEecchhhcCchHHHHHHHHHHHHHHhhCCeEEEEeCCCCccccccChh
Confidence            55443     111    22334444 334788999976422 22333 3333332 13466899999643         4


Q ss_pred             HHHHhCCCCeeeCCCCCCC
Q 036619          332 VARMMGSTDIISIEQLAEE  350 (352)
Q Consensus       332 va~~~~~~~~~~l~~L~~~  350 (352)
                      +...+...-++++.+++++
T Consensus       151 L~SRl~~Gl~~~l~~pd~~  169 (219)
T PF00308_consen  151 LRSRLSWGLVVELQPPDDE  169 (219)
T ss_dssp             HHHHHHCSEEEEE----HH
T ss_pred             hhhhHhhcchhhcCCCCHH
Confidence            4455566777888887754

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.

>PRK14965 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.00  E-value=3.8e-05  Score=75.97  Aligned_cols=155  Identities=14%  Similarity=0.238  Sum_probs=86.1

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHH
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAII  263 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~  263 (352)
                      .+++|.+.....|.+.+....     -...+.++|+.|+||||+|+.+.+.-...+..+       ..+++.-.....|.
T Consensus        16 ~~iiGq~~v~~~L~~~i~~~~-----~~hayLf~Gp~G~GKtt~A~~lak~l~c~~~~~-------~~~c~~c~~c~~i~   83 (576)
T PRK14965         16 SDLTGQEHVSRTLQNAIDTGR-----VAHAFLFTGARGVGKTSTARILAKALNCEQGLT-------AEPCNVCPPCVEIT   83 (576)
T ss_pred             HHccCcHHHHHHHHHHHHcCC-----CCeEEEEECCCCCCHHHHHHHHHHhhcCCCCCC-------CCCCCccHHHHHHh
Confidence            468999988888888886532     245678999999999999998876421111110       00111111111111


Q ss_pred             HHhCC--------CCCCcccHHHHHHHHHHh-cCCceEEEEecCCCCCCccChhHHHHhhccCCCCcEEEE-ecCChHHH
Q 036619          264 EGLGK--------SASGLNEFQSLMSRIQSS-IKGKKNFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKILV-TTRNESVA  333 (352)
Q Consensus       264 ~~l~~--------~~~~~~~~~~~~~~l~~~-l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~Iiv-TTR~~~va  333 (352)
                      ..-..        ...+..++.++...+... ..+++-++|||++........+.|...+......+.+|+ ||....+.
T Consensus        84 ~g~~~d~~eid~~s~~~v~~ir~l~~~~~~~p~~~~~KVvIIdev~~Lt~~a~naLLk~LEepp~~~~fIl~t~~~~kl~  163 (576)
T PRK14965         84 EGRSVDVFEIDGASNTGVDDIRELRENVKYLPSRSRYKIFIIDEVHMLSTNAFNALLKTLEEPPPHVKFIFATTEPHKVP  163 (576)
T ss_pred             cCCCCCeeeeeccCccCHHHHHHHHHHHHhccccCCceEEEEEChhhCCHHHHHHHHHHHHcCCCCeEEEEEeCChhhhh
Confidence            10000        001111223333333221 134556899999987766678888888877655666655 55555555


Q ss_pred             HHhC-CCCeeeCCCCCCC
Q 036619          334 RMMG-STDIISIEQLAEE  350 (352)
Q Consensus       334 ~~~~-~~~~~~l~~L~~~  350 (352)
                      ..+. -...+++.+++.+
T Consensus       164 ~tI~SRc~~~~f~~l~~~  181 (576)
T PRK14965        164 ITILSRCQRFDFRRIPLQ  181 (576)
T ss_pred             HHHHHhhhhhhcCCCCHH
Confidence            4432 2456667776654

>TIGR01242 26Sp45 26S proteasome subunit P45 family

Probab=98.00  E-value=2e-05  Score=73.80  Aligned_cols=51  Identities=20%  Similarity=0.189  Sum_probs=37.9

Q ss_pred             CccccccchHHHHHHHHcCcccc-------CCCCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          184 GEVCGRVDEKSELFSKLLCESSE-------QQNGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~-------~~~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .++.|.++.+++|.+.+...-..       +-..++-+.++|++|+|||+||+.+++.
T Consensus       122 ~di~Gl~~~~~~l~~~i~~~~~~~~~~~~~g~~~p~gvLL~GppGtGKT~lakaia~~  179 (364)
T TIGR01242       122 EDIGGLEEQIREIREAVELPLKHPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHE  179 (364)
T ss_pred             HHhCChHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHh
Confidence            46899999999998876422110       1123456889999999999999999984

Many proteins may score above the trusted cutoff because an internal

>PRK14971 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.00  E-value=6.6e-05  Score=74.60  Aligned_cols=144  Identities=15%  Similarity=0.216  Sum_probs=87.9

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhh---------------------hccCC
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEV---------------------KRNFE  242 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~---------------------~~~F~  242 (352)
                      .+++|.+...+.|...+....     -...+.++|+.|+||||+|+.+...-..                     ..+|+
T Consensus        17 ~~viGq~~~~~~L~~~i~~~~-----l~hayLf~Gp~G~GKtt~A~~lAk~l~c~~~~~~~~~Cg~C~sC~~~~~~~~~n   91 (614)
T PRK14971         17 ESVVGQEALTTTLKNAIATNK-----LAHAYLFCGPRGVGKTTCARIFAKTINCQNLTADGEACNECESCVAFNEQRSYN   91 (614)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-----CCeeEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCCCcchHHHHHhcCCCCc
Confidence            468999999999999886532     2456889999999999999887763211                     11232


Q ss_pred             eEEEEEeCCCCCHHHHHHHHHHHhCCCCCCcccHHHHHHHHHHh-cCCceEEEEecCCCCCCccChhHHHHhhccCCCCc
Q 036619          243 KVIWVCVSDTFDQIRIAKAIIEGLGKSASGLNEFQSLMSRIQSS-IKGKKNFLVLDDVWDGDYNKWQPFFRCLKNGLHGS  321 (352)
Q Consensus       243 ~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~-l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs  321 (352)
                      . ..+..+....+..                  +.++...+... ..+++-++|+|++.......++.|...+..-..++
T Consensus        92 ~-~~ld~~~~~~vd~------------------Ir~li~~~~~~P~~~~~KVvIIdea~~Ls~~a~naLLK~LEepp~~t  152 (614)
T PRK14971         92 I-HELDAASNNSVDD------------------IRNLIEQVRIPPQIGKYKIYIIDEVHMLSQAAFNAFLKTLEEPPSYA  152 (614)
T ss_pred             e-EEecccccCCHHH------------------HHHHHHHHhhCcccCCcEEEEEECcccCCHHHHHHHHHHHhCCCCCe
Confidence            1 1122221111111                  11112111111 13456688999998876667888999888766666


Q ss_pred             EEEE-ecCChHHHHHhC-CCCeeeCCCCCCCc
Q 036619          322 KILV-TTRNESVARMMG-STDIISIEQLAEEE  351 (352)
Q Consensus       322 ~Iiv-TTR~~~va~~~~-~~~~~~l~~L~~~e  351 (352)
                      .+|+ ||....+-..+. -..++++.++++++
T Consensus       153 ifIL~tt~~~kIl~tI~SRc~iv~f~~ls~~e  184 (614)
T PRK14971        153 IFILATTEKHKILPTILSRCQIFDFNRIQVAD  184 (614)
T ss_pred             EEEEEeCCchhchHHHHhhhheeecCCCCHHH
Confidence            6555 555555554433 35678888887654

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

Probab=97.98  E-value=3.8e-05  Score=78.39  Aligned_cols=45  Identities=29%  Similarity=0.267  Sum_probs=37.4

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..++||++++.+++..|....      ..-+.++|++|+|||++|+.+.+.
T Consensus       182 ~~~igr~~ei~~~~~~L~~~~------~~n~lL~G~pG~GKT~l~~~la~~  226 (731)
T TIGR02639       182 DPLIGREDELERTIQVLCRRK------KNNPLLVGEPGVGKTAIAEGLALR  226 (731)
T ss_pred             CcccCcHHHHHHHHHHHhcCC------CCceEEECCCCCCHHHHHHHHHHH
Confidence            368999999999999886543      234569999999999999999874

>CHL00181 cbbX CbbX; Provisional

Probab=97.98  E-value=0.00015  Score=65.38  Aligned_cols=124  Identities=12%  Similarity=0.121  Sum_probs=64.3

Q ss_pred             EEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCcccHHHHHHHHHHhcCCce
Q 036619          212 QVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSASGLNEFQSLMSRIQSSIKGKK  291 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~kr  291 (352)
                      ..+.++|++|+||||+|+.++........-....|+.++.    ..    +...+.+..     .......+.+.   ..
T Consensus        60 ~~ill~G~pGtGKT~lAr~la~~~~~~g~~~~~~~~~v~~----~~----l~~~~~g~~-----~~~~~~~l~~a---~g  123 (287)
T CHL00181         60 LHMSFTGSPGTGKTTVALKMADILYKLGYIKKGHLLTVTR----DD----LVGQYIGHT-----APKTKEVLKKA---MG  123 (287)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHHHHcCCCCCCceEEecH----HH----HHHHHhccc-----hHHHHHHHHHc---cC
Confidence            4577899999999999999987421111111223555552    12    222221111     11112222222   23


Q ss_pred             EEEEecCCCCC---------CccChhHHHHhhccCCCCcEEEEecCChHHHHHhC--------CCCeeeCCCCCCCc
Q 036619          292 NFLVLDDVWDG---------DYNKWQPFFRCLKNGLHGSKILVTTRNESVARMMG--------STDIISIEQLAEEE  351 (352)
Q Consensus       292 ~LlVlDdvw~~---------~~~~~~~l~~~l~~~~~gs~IivTTR~~~va~~~~--------~~~~~~l~~L~~~e  351 (352)
                      -+|+||++...         ..+.-+.|...+.....+.+||+++..+.+.....        ....+++.+++.+|
T Consensus       124 gVLfIDE~~~l~~~~~~~~~~~e~~~~L~~~me~~~~~~~vI~ag~~~~~~~~~~~np~L~sR~~~~i~F~~~t~~e  200 (287)
T CHL00181        124 GVLFIDEAYYLYKPDNERDYGSEAIEILLQVMENQRDDLVVIFAGYKDRMDKFYESNPGLSSRIANHVDFPDYTPEE  200 (287)
T ss_pred             CEEEEEccchhccCCCccchHHHHHHHHHHHHhcCCCCEEEEEeCCcHHHHHHHhcCHHHHHhCCceEEcCCcCHHH
Confidence            49999999642         11122334455555555667778876554432221        14467888877654

>PRK07133 DNA polymerase III subunits gamma and tau; Validated

Probab=97.96  E-value=6.3e-05  Score=75.11  Aligned_cols=151  Identities=15%  Similarity=0.253  Sum_probs=86.6

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHH
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAII  263 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~  263 (352)
                      ..++|.+.....|.+.+....     -...+.++|+.|+||||+|+.+...--.....+  .+    .++   ...... 
T Consensus        18 ~dIiGQe~~v~~L~~aI~~~r-----l~HAYLF~GP~GtGKTt~AriLAk~LnC~~~~~--~~----~pC---~~C~~~-   82 (725)
T PRK07133         18 DDIVGQDHIVQTLKNIIKSNK-----ISHAYLFSGPRGTGKTSVAKIFANALNCSHKTD--LL----EPC---QECIEN-   82 (725)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-----CCeEEEEECCCCCcHHHHHHHHHHHhcccccCC--CC----Cch---hHHHHh-
Confidence            458899888888888886533     245667899999999999998876311111000  00    000   000000 


Q ss_pred             HHhCCC-------C---CCcccHHHHHHHHHHh-cCCceEEEEecCCCCCCccChhHHHHhhccCCCCcEEE-EecCChH
Q 036619          264 EGLGKS-------A---SGLNEFQSLMSRIQSS-IKGKKNFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKIL-VTTRNES  331 (352)
Q Consensus       264 ~~l~~~-------~---~~~~~~~~~~~~l~~~-l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~Ii-vTTR~~~  331 (352)
                        .+..       .   .+..+..++...+... ..+++-++|+|++.......+..|...+......+.+| +||....
T Consensus        83 --~~~~~Dvieidaasn~~vd~IReLie~~~~~P~~g~~KV~IIDEa~~LT~~A~NALLKtLEEPP~~tifILaTte~~K  160 (725)
T PRK07133         83 --VNNSLDIIEMDAASNNGVDEIRELIENVKNLPTQSKYKIYIIDEVHMLSKSAFNALLKTLEEPPKHVIFILATTEVHK  160 (725)
T ss_pred             --hcCCCcEEEEeccccCCHHHHHHHHHHHHhchhcCCCEEEEEEChhhCCHHHHHHHHHHhhcCCCceEEEEEcCChhh
Confidence              0000       0   0111223333333321 23566799999998776667888888887655555544 4555555


Q ss_pred             HHHHh-CCCCeeeCCCCCCCc
Q 036619          332 VARMM-GSTDIISIEQLAEEE  351 (352)
Q Consensus       332 va~~~-~~~~~~~l~~L~~~e  351 (352)
                      +...+ .-...+++.+++.++
T Consensus       161 Ll~TI~SRcq~ieF~~L~~ee  181 (725)
T PRK07133        161 IPLTILSRVQRFNFRRISEDE  181 (725)
T ss_pred             hhHHHHhhceeEEccCCCHHH
Confidence            65433 335688898887654

>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX

Probab=97.95  E-value=6.8e-05  Score=67.63  Aligned_cols=123  Identities=13%  Similarity=0.132  Sum_probs=64.0

Q ss_pred             EEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCcccHHHHHHHHHHhcCCceE
Q 036619          213 VISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSASGLNEFQSLMSRIQSSIKGKKN  292 (352)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~kr~  292 (352)
                      -+.++|++|+|||++|+.+.....-........|+.++.    ..    ++..+.+..     .......+.+.   ..-
T Consensus        60 ~vll~G~pGTGKT~lA~~ia~~l~~~g~~~~~~~v~v~~----~~----l~~~~~g~~-----~~~~~~~~~~a---~~g  123 (284)
T TIGR02880        60 HMSFTGNPGTGKTTVALRMAQILHRLGYVRKGHLVSVTR----DD----LVGQYIGHT-----APKTKEILKRA---MGG  123 (284)
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHHHHcCCcccceEEEecH----HH----HhHhhcccc-----hHHHHHHHHHc---cCc
Confidence            467999999999999987775321111111223555442    12    222222111     11122222222   336


Q ss_pred             EEEecCCCCC---------CccChhHHHHhhccCCCCcEEEEecCChHHHHHh--C------CCCeeeCCCCCCCc
Q 036619          293 FLVLDDVWDG---------DYNKWQPFFRCLKNGLHGSKILVTTRNESVARMM--G------STDIISIEQLAEEE  351 (352)
Q Consensus       293 LlVlDdvw~~---------~~~~~~~l~~~l~~~~~gs~IivTTR~~~va~~~--~------~~~~~~l~~L~~~e  351 (352)
                      +|+||++...         ..+.++.|...+.....+.+||+++..+......  .      ....+++.+++.+|
T Consensus       124 vL~iDEi~~L~~~~~~~~~~~~~~~~Ll~~le~~~~~~~vI~a~~~~~~~~~~~~np~L~sR~~~~i~fp~l~~ed  199 (284)
T TIGR02880       124 VLFIDEAYYLYRPDNERDYGQEAIEILLQVMENQRDDLVVILAGYKDRMDSFFESNPGFSSRVAHHVDFPDYSEAE  199 (284)
T ss_pred             EEEEechhhhccCCCccchHHHHHHHHHHHHhcCCCCEEEEEeCCcHHHHHHHhhCHHHHhhCCcEEEeCCcCHHH
Confidence            8999999632         1122345566665555566777777654332221  1      13568888887654

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.

>TIGR02881 spore_V_K stage V sporulation protein K

Probab=97.91  E-value=7.7e-05  Score=66.50  Aligned_cols=50  Identities=20%  Similarity=0.200  Sum_probs=32.7

Q ss_pred             ccccccchHHHHHHH---HcC------ccccCCCCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          185 EVCGRVDEKSELFSK---LLC------ESSEQQNGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       185 ~~~gr~~~~~~l~~~---L~~------~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .++|.++.+++|.+.   ..-      ..-...+....+.++|++|+||||+|+.+++.
T Consensus         7 ~~~Gl~~vk~~i~~~~~~~~~~~~~~~~g~~~~~~~~~vll~GppGtGKTtlA~~ia~~   65 (261)
T TIGR02881         7 RMVGLDEVKALIKEIYAWIQINEKRKEEGLKTSKQVLHMIFKGNPGTGKTTVARILGKL   65 (261)
T ss_pred             HhcChHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCcceEEEEcCCCCCHHHHHHHHHHH
Confidence            477877777665433   211      00001234566789999999999999999864

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.

>PRK14953 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.91  E-value=0.00013  Score=70.63  Aligned_cols=145  Identities=16%  Similarity=0.233  Sum_probs=83.7

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhc-------------------cCCeE
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKR-------------------NFEKV  244 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~-------------------~F~~~  244 (352)
                      ..++|.+.-...|.+.+....     -...+.++|+.|+||||+|+.+...-....                   .|...
T Consensus        16 ~diiGq~~i~~~L~~~i~~~~-----i~hayLf~Gp~G~GKTtlAr~lAk~L~c~~~~~~~pc~~c~nc~~i~~g~~~d~   90 (486)
T PRK14953         16 KEVIGQEIVVRILKNAVKLQR-----VSHAYIFAGPRGTGKTTIARILAKVLNCLNPQEGEPCGKCENCVEIDKGSFPDL   90 (486)
T ss_pred             HHccChHHHHHHHHHHHHcCC-----CCeEEEEECCCCCCHHHHHHHHHHHhcCcCCCCCCCCCccHHHHHHhcCCCCcE
Confidence            458899999999988886533     245667899999999999998876311100                   01111


Q ss_pred             EEEEeCCCCCHHHHHHHHHHHhCCCCCCcccHHHHHHHHHHh-cCCceEEEEecCCCCCCccChhHHHHhhccCCCCcEE
Q 036619          245 IWVCVSDTFDQIRIAKAIIEGLGKSASGLNEFQSLMSRIQSS-IKGKKNFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKI  323 (352)
Q Consensus       245 ~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~-l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~I  323 (352)
                      .++..+...                  +..+...+...+... ..+++-++|+|++........+.|...+....+...+
T Consensus        91 ~eidaas~~------------------gvd~ir~I~~~~~~~P~~~~~KVvIIDEad~Lt~~a~naLLk~LEepp~~~v~  152 (486)
T PRK14953         91 IEIDAASNR------------------GIDDIRALRDAVSYTPIKGKYKVYIIDEAHMLTKEAFNALLKTLEEPPPRTIF  152 (486)
T ss_pred             EEEeCccCC------------------CHHHHHHHHHHHHhCcccCCeeEEEEEChhhcCHHHHHHHHHHHhcCCCCeEE
Confidence            111111111                  111122232222221 2456779999999776555677788888765555555


Q ss_pred             EEec-CChHHHHHh-CCCCeeeCCCCCCCc
Q 036619          324 LVTT-RNESVARMM-GSTDIISIEQLAEEE  351 (352)
Q Consensus       324 ivTT-R~~~va~~~-~~~~~~~l~~L~~~e  351 (352)
                      |++| +...+...+ .....+++.+++.++
T Consensus       153 Il~tt~~~kl~~tI~SRc~~i~f~~ls~~e  182 (486)
T PRK14953        153 ILCTTEYDKIPPTILSRCQRFIFSKPTKEQ  182 (486)
T ss_pred             EEEECCHHHHHHHHHHhceEEEcCCCCHHH
Confidence            5544 444444332 224578888876543

>PRK08451 DNA polymerase III subunits gamma and tau; Validated

Probab=97.91  E-value=0.00013  Score=70.88  Aligned_cols=156  Identities=14%  Similarity=0.172  Sum_probs=86.3

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHH
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAII  263 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~  263 (352)
                      .+++|.+.....|...+....     -...+.++|+.|+||||+|+.+.+.--....-+.       .++..-.....+.
T Consensus        14 deiiGqe~v~~~L~~~I~~gr-----l~hayLf~Gp~G~GKTt~Ar~LAk~L~c~~~~~~-------~pC~~C~~C~~~~   81 (535)
T PRK08451         14 DELIGQESVSKTLSLALDNNR-----LAHAYLFSGLRGSGKTSSARIFARALVCEQGPSS-------TPCDTCIQCQSAL   81 (535)
T ss_pred             HHccCcHHHHHHHHHHHHcCC-----CCeeEEEECCCCCcHHHHHHHHHHHhcCCCCCCC-------CCCcccHHHHHHh
Confidence            468998888888888885432     3456789999999999999987763111110000       0000000011111


Q ss_pred             HHhCC-----CCCCcccHHHHHHHHHHh----cCCceEEEEecCCCCCCccChhHHHHhhccCCCCcEEEEecCCh-HHH
Q 036619          264 EGLGK-----SASGLNEFQSLMSRIQSS----IKGKKNFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKILVTTRNE-SVA  333 (352)
Q Consensus       264 ~~l~~-----~~~~~~~~~~~~~~l~~~----l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTTR~~-~va  333 (352)
                      .....     ........+++...+...    ..+++-++|+|++.....+..+.|+..+......+++|++|.+. .+.
T Consensus        82 ~~~h~dv~eldaas~~gId~IRelie~~~~~P~~~~~KVvIIDEad~Lt~~A~NALLK~LEEpp~~t~FIL~ttd~~kL~  161 (535)
T PRK08451         82 ENRHIDIIEMDAASNRGIDDIRELIEQTKYKPSMARFKIFIIDEVHMLTKEAFNALLKTLEEPPSYVKFILATTDPLKLP  161 (535)
T ss_pred             hcCCCeEEEeccccccCHHHHHHHHHHHhhCcccCCeEEEEEECcccCCHHHHHHHHHHHhhcCCceEEEEEECChhhCc
Confidence            10000     000001122333222221    12456689999998877677888888887766667766666543 333


Q ss_pred             HHh-CCCCeeeCCCCCCCc
Q 036619          334 RMM-GSTDIISIEQLAEEE  351 (352)
Q Consensus       334 ~~~-~~~~~~~l~~L~~~e  351 (352)
                      ..+ +-...+++.+++.++
T Consensus       162 ~tI~SRc~~~~F~~Ls~~e  180 (535)
T PRK08451        162 ATILSRTQHFRFKQIPQNS  180 (535)
T ss_pred             hHHHhhceeEEcCCCCHHH
Confidence            222 225678888887654

>PRK14087 dnaA chromosomal replication initiation protein; Provisional

Probab=97.91  E-value=0.00011  Score=70.44  Aligned_cols=127  Identities=21%  Similarity=0.277  Sum_probs=71.1

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCcccHHHHHHHHHHhcCCc
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSASGLNEFQSLMSRIQSSIKGK  290 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~k  290 (352)
                      ..-+.|+|..|+|||+|++.+.+.-.....-..+++++      ...++..+...+....       .....+.+.+. .
T Consensus       141 ~npl~i~G~~G~GKTHLl~Ai~~~l~~~~~~~~v~yv~------~~~f~~~~~~~l~~~~-------~~~~~~~~~~~-~  206 (450)
T PRK14087        141 YNPLFIYGESGMGKTHLLKAAKNYIESNFSDLKVSYMS------GDEFARKAVDILQKTH-------KEIEQFKNEIC-Q  206 (450)
T ss_pred             cCceEEECCCCCcHHHHHHHHHHHHHHhCCCCeEEEEE------HHHHHHHHHHHHHHhh-------hHHHHHHHHhc-c
Confidence            34578999999999999999988422111112334443      3456666666654310       11223333333 2


Q ss_pred             eEEEEecCCCCCCc-cCh-hHHHHhhcc-CCCCcEEEEecCCh---------HHHHHhCCCCeeeCCCCCCCc
Q 036619          291 KNFLVLDDVWDGDY-NKW-QPFFRCLKN-GLHGSKILVTTRNE---------SVARMMGSTDIISIEQLAEEE  351 (352)
Q Consensus       291 r~LlVlDdvw~~~~-~~~-~~l~~~l~~-~~~gs~IivTTR~~---------~va~~~~~~~~~~l~~L~~~e  351 (352)
                      .-+|||||+..... +.+ +.+...|.. ...|..||+|+...         .+...+...-++.+++++.++
T Consensus       207 ~dvLiIDDiq~l~~k~~~~e~lf~l~N~~~~~~k~iIltsd~~P~~l~~l~~rL~SR~~~Gl~~~L~~pd~e~  279 (450)
T PRK14087        207 NDVLIIDDVQFLSYKEKTNEIFFTIFNNFIENDKQLFFSSDKSPELLNGFDNRLITRFNMGLSIAIQKLDNKT  279 (450)
T ss_pred             CCEEEEeccccccCCHHHHHHHHHHHHHHHHcCCcEEEECCCCHHHHhhccHHHHHHHhCCceeccCCcCHHH
Confidence            34889999965421 122 334444432 13355688887542         333344456677888887653

>PRK06305 DNA polymerase III subunits gamma and tau; Validated

Probab=97.89  E-value=7.9e-05  Score=71.52  Aligned_cols=144  Identities=15%  Similarity=0.251  Sum_probs=83.5

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhc---------------------cCC
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKR---------------------NFE  242 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~---------------------~F~  242 (352)
                      .+++|.+..+..|.+.+....     -...+.++|+.|+||||+|+.+.+.-....                     +++
T Consensus        17 ~diiGq~~~v~~L~~~i~~~~-----i~ha~Lf~Gp~G~GKtt~A~~lAk~l~c~~~~~~~~~c~~c~~C~~i~~~~~~d   91 (451)
T PRK06305         17 SEILGQDAVVAVLKNALRFNR-----AAHAYLFSGIRGTGKTTLARIFAKALNCQNPTEDQEPCNQCASCKEISSGTSLD   91 (451)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-----CceEEEEEcCCCCCHHHHHHHHHHHhcCCCcccCCCCCcccHHHHHHhcCCCCc
Confidence            468999999998888886432     246678999999999999988876421110                     111


Q ss_pred             eEEEEEeCCCCCHHHHHHHHHHHhCCCCCCcccHHHHHHHHHHh-cCCceEEEEecCCCCCCccChhHHHHhhccCCCCc
Q 036619          243 KVIWVCVSDTFDQIRIAKAIIEGLGKSASGLNEFQSLMSRIQSS-IKGKKNFLVLDDVWDGDYNKWQPFFRCLKNGLHGS  321 (352)
Q Consensus       243 ~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~-l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs  321 (352)
                       ..++.......                  ..+..++...+... ..+.+-++|+|++.....+..+.|...+......+
T Consensus        92 -~~~i~g~~~~g------------------id~ir~i~~~l~~~~~~~~~kvvIIdead~lt~~~~n~LLk~lEep~~~~  152 (451)
T PRK06305         92 -VLEIDGASHRG------------------IEDIRQINETVLFTPSKSRYKIYIIDEVHMLTKEAFNSLLKTLEEPPQHV  152 (451)
T ss_pred             -eEEeeccccCC------------------HHHHHHHHHHHHhhhhcCCCEEEEEecHHhhCHHHHHHHHHHhhcCCCCc
Confidence             11111111111                  11122222222111 13566789999997665456677888887655566


Q ss_pred             EEEEec-CChHHHHHh-CCCCeeeCCCCCCCc
Q 036619          322 KILVTT-RNESVARMM-GSTDIISIEQLAEEE  351 (352)
Q Consensus       322 ~IivTT-R~~~va~~~-~~~~~~~l~~L~~~e  351 (352)
                      .+|++| +...+-..+ .....+++.++++++
T Consensus       153 ~~Il~t~~~~kl~~tI~sRc~~v~f~~l~~~e  184 (451)
T PRK06305        153 KFFLATTEIHKIPGTILSRCQKMHLKRIPEET  184 (451)
T ss_pred             eEEEEeCChHhcchHHHHhceEEeCCCCCHHH
Confidence            666655 333333322 225578888887654

>PRK06620 hypothetical protein; Validated

Probab=97.89  E-value=3.3e-05  Score=66.62  Aligned_cols=99  Identities=16%  Similarity=0.207  Sum_probs=56.5

Q ss_pred             EEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCcccHHHHHHHHHHhcCCce
Q 036619          212 QVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSASGLNEFQSLMSRIQSSIKGKK  291 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~kr  291 (352)
                      ..+.|+|++|+|||+|++.+++...  .     .++.  ..+..                     +       +.++ ..
T Consensus        45 ~~l~l~Gp~G~GKThLl~a~~~~~~--~-----~~~~--~~~~~---------------------~-------~~~~-~~   86 (214)
T PRK06620         45 FTLLIKGPSSSGKTYLTKIWQNLSN--A-----YIIK--DIFFN---------------------E-------EILE-KY   86 (214)
T ss_pred             ceEEEECCCCCCHHHHHHHHHhccC--C-----EEcc--hhhhc---------------------h-------hHHh-cC
Confidence            5688999999999999998876431  1     1111  00000                     0       0111 23


Q ss_pred             EEEEecCCCCCCccChhHHHHhhcc-CCCCcEEEEecCCh-------HHHHHhCCCCeeeCCCCCCCc
Q 036619          292 NFLVLDDVWDGDYNKWQPFFRCLKN-GLHGSKILVTTRNE-------SVARMMGSTDIISIEQLAEEE  351 (352)
Q Consensus       292 ~LlVlDdvw~~~~~~~~~l~~~l~~-~~~gs~IivTTR~~-------~va~~~~~~~~~~l~~L~~~e  351 (352)
                      -+|++||+..-..   ..+...+.. ..+|..||+|++.+       ++...+...-+++++++++++
T Consensus        87 d~lliDdi~~~~~---~~lf~l~N~~~e~g~~ilits~~~p~~l~l~~L~SRl~~gl~~~l~~pd~~~  151 (214)
T PRK06620         87 NAFIIEDIENWQE---PALLHIFNIINEKQKYLLLTSSDKSRNFTLPDLSSRIKSVLSILLNSPDDEL  151 (214)
T ss_pred             CEEEEeccccchH---HHHHHHHHHHHhcCCEEEEEcCCCccccchHHHHHHHhCCceEeeCCCCHHH
Confidence            4788999953211   123333221 13467899998753       233344456688999888653

>TIGR00362 DnaA chromosomal replication initiator protein DnaA

Probab=97.89  E-value=0.00022  Score=67.80  Aligned_cols=124  Identities=18%  Similarity=0.256  Sum_probs=65.1

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCcccHHHHHHHHHHhcCCc
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSASGLNEFQSLMSRIQSSIKGK  290 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~k  290 (352)
                      ...+.|+|+.|+|||+|++.+++.......=..+++++.      ..+...+...+...     ..+..    .+.+.+ 
T Consensus       136 ~n~l~l~G~~G~GKThL~~ai~~~l~~~~~~~~v~yi~~------~~~~~~~~~~~~~~-----~~~~~----~~~~~~-  199 (405)
T TIGR00362       136 YNPLFIYGGVGLGKTHLLHAIGNEILENNPNAKVVYVSS------EKFTNDFVNALRNN-----KMEEF----KEKYRS-  199 (405)
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHHHHHhCCCCcEEEEEH------HHHHHHHHHHHHcC-----CHHHH----HHHHHh-
Confidence            456789999999999999999985322211124555543      33444555544321     22222    223322 


Q ss_pred             eEEEEecCCCCCCcc-Ch-hHHHHhhccC-CCCcEEEEecCCh-H--------HHHHhCCCCeeeCCCCCCC
Q 036619          291 KNFLVLDDVWDGDYN-KW-QPFFRCLKNG-LHGSKILVTTRNE-S--------VARMMGSTDIISIEQLAEE  350 (352)
Q Consensus       291 r~LlVlDdvw~~~~~-~~-~~l~~~l~~~-~~gs~IivTTR~~-~--------va~~~~~~~~~~l~~L~~~  350 (352)
                      .-+|||||+...... .+ ..+...+... ..|..+|+|+... .        +...+....++++.+.+.+
T Consensus       200 ~dlLiiDDi~~l~~~~~~~~~l~~~~n~~~~~~~~iiits~~~p~~l~~l~~~l~SRl~~g~~v~i~~pd~~  271 (405)
T TIGR00362       200 VDLLLIDDIQFLAGKERTQEEFFHTFNALHENGKQIVLTSDRPPKELPGLEERLRSRFEWGLVVDIEPPDLE  271 (405)
T ss_pred             CCEEEEehhhhhcCCHHHHHHHHHHHHHHHHCCCCEEEecCCCHHHHhhhhhhhhhhccCCeEEEeCCCCHH
Confidence            238999999753212 12 2344444321 2355677777542 2        1222222346777766543

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).

>PRK10536 hypothetical protein; Provisional

Probab=97.88  E-value=0.00016  Score=63.29  Aligned_cols=133  Identities=14%  Similarity=0.170  Sum_probs=74.2

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeC----C-----CCC
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVS----D-----TFD  254 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs----~-----~~~  254 (352)
                      ..+.++......++.+|.+        ..++.+.|++|+|||+||..+..+.-..+.|+.++-..-.    +     +-+
T Consensus        55 ~~i~p~n~~Q~~~l~al~~--------~~lV~i~G~aGTGKT~La~a~a~~~l~~~~~~kIiI~RP~v~~ge~LGfLPG~  126 (262)
T PRK10536         55 SPILARNEAQAHYLKAIES--------KQLIFATGEAGCGKTWISAAKAAEALIHKDVDRIIVTRPVLQADEDLGFLPGD  126 (262)
T ss_pred             ccccCCCHHHHHHHHHHhc--------CCeEEEECCCCCCHHHHHHHHHHHHHhcCCeeEEEEeCCCCCchhhhCcCCCC
Confidence            4567888888888888853        2388899999999999998887753223445444433211    1     011


Q ss_pred             HH----HHHHHHHHHhCCCCCCcccHHHHHH--------HHHHhcCCceE---EEEecCCCCCCccChhHHHHhhccCCC
Q 036619          255 QI----RIAKAIIEGLGKSASGLNEFQSLMS--------RIQSSIKGKKN---FLVLDDVWDGDYNKWQPFFRCLKNGLH  319 (352)
Q Consensus       255 ~~----~~~~~i~~~l~~~~~~~~~~~~~~~--------~l~~~l~~kr~---LlVlDdvw~~~~~~~~~l~~~l~~~~~  319 (352)
                      ..    -.+.-|...+..-. +....+.+..        .-..++++..+   +||+|...+.+.   ..+...+...+.
T Consensus       127 ~~eK~~p~~~pi~D~L~~~~-~~~~~~~~~~~~~~~Iei~~l~ymRGrtl~~~~vIvDEaqn~~~---~~~k~~ltR~g~  202 (262)
T PRK10536        127 IAEKFAPYFRPVYDVLVRRL-GASFMQYCLRPEIGKVEIAPFAYMRGRTFENAVVILDEAQNVTA---AQMKMFLTRLGE  202 (262)
T ss_pred             HHHHHHHHHHHHHHHHHHHh-ChHHHHHHHHhccCcEEEecHHHhcCCcccCCEEEEechhcCCH---HHHHHHHhhcCC
Confidence            11    11111111111100 0001111100        00134566655   999999987643   555666666678


Q ss_pred             CcEEEEecC
Q 036619          320 GSKILVTTR  328 (352)
Q Consensus       320 gs~IivTTR  328 (352)
                      +|+||+|--
T Consensus       203 ~sk~v~~GD  211 (262)
T PRK10536        203 NVTVIVNGD  211 (262)
T ss_pred             CCEEEEeCC
Confidence            999998754

>PRK08181 transposase; Validated

Probab=97.88  E-value=8e-05  Score=66.28  Aligned_cols=100  Identities=21%  Similarity=0.181  Sum_probs=56.4

Q ss_pred             EEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCcccHHHHHHHHHHhcCCce
Q 036619          212 QVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSASGLNEFQSLMSRIQSSIKGKK  291 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~kr  291 (352)
                      .-+.++|++|+|||.||..+.+..  ......+.|++      ...++..+.....     ..+....   +..+  .+-
T Consensus       107 ~nlll~Gp~GtGKTHLa~Aia~~a--~~~g~~v~f~~------~~~L~~~l~~a~~-----~~~~~~~---l~~l--~~~  168 (269)
T PRK08181        107 ANLLLFGPPGGGKSHLAAAIGLAL--IENGWRVLFTR------TTDLVQKLQVARR-----ELQLESA---IAKL--DKF  168 (269)
T ss_pred             ceEEEEecCCCcHHHHHHHHHHHH--HHcCCceeeee------HHHHHHHHHHHHh-----CCcHHHH---HHHH--hcC
Confidence            348899999999999999998742  22233445554      3445555543321     1112222   2222  133


Q ss_pred             EEEEecCCCCCCccChh--HHHHhhccC-CCCcEEEEecCCh
Q 036619          292 NFLVLDDVWDGDYNKWQ--PFFRCLKNG-LHGSKILVTTRNE  330 (352)
Q Consensus       292 ~LlVlDdvw~~~~~~~~--~l~~~l~~~-~~gs~IivTTR~~  330 (352)
                      =||||||+.......|.  .+...+... ..++ +||||...
T Consensus       169 dLLIIDDlg~~~~~~~~~~~Lf~lin~R~~~~s-~IiTSN~~  209 (269)
T PRK08181        169 DLLILDDLAYVTKDQAETSVLFELISARYERRS-ILITANQP  209 (269)
T ss_pred             CEEEEeccccccCCHHHHHHHHHHHHHHHhCCC-EEEEcCCC
Confidence            49999999765333332  355555432 2344 88888764

>PRK12422 chromosomal replication initiation protein; Provisional

Probab=97.87  E-value=0.00012  Score=69.98  Aligned_cols=122  Identities=20%  Similarity=0.272  Sum_probs=67.5

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCcccHHHHHHHHHHhcCCc
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSASGLNEFQSLMSRIQSSIKGK  290 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~k  290 (352)
                      ..-+.|+|+.|+|||+|++.+.+..  ......+++++      ...+...+...+...     .    ...++..+. .
T Consensus       141 ~npl~L~G~~G~GKTHLl~Ai~~~l--~~~~~~v~yi~------~~~f~~~~~~~l~~~-----~----~~~f~~~~~-~  202 (445)
T PRK12422        141 FNPIYLFGPEGSGKTHLMQAAVHAL--RESGGKILYVR------SELFTEHLVSAIRSG-----E----MQRFRQFYR-N  202 (445)
T ss_pred             CceEEEEcCCCCCHHHHHHHHHHHH--HHcCCCEEEee------HHHHHHHHHHHHhcc-----h----HHHHHHHcc-c
Confidence            3557899999999999999999853  22223344554      234444555544321     1    122333333 3


Q ss_pred             eEEEEecCCCCCCccCh--hHHHHhhcc-CCCCcEEEEecCCh---------HHHHHhCCCCeeeCCCCCCC
Q 036619          291 KNFLVLDDVWDGDYNKW--QPFFRCLKN-GLHGSKILVTTRNE---------SVARMMGSTDIISIEQLAEE  350 (352)
Q Consensus       291 r~LlVlDdvw~~~~~~~--~~l~~~l~~-~~~gs~IivTTR~~---------~va~~~~~~~~~~l~~L~~~  350 (352)
                      .-+|+|||+.......|  +.+...+.. ...|..||+||...         .+...+....++.+.+++.+
T Consensus       203 ~dvLiIDDiq~l~~k~~~qeelf~l~N~l~~~~k~IIlts~~~p~~l~~l~~rL~SR~~~Gl~~~l~~pd~e  274 (445)
T PRK12422        203 VDALFIEDIEVFSGKGATQEEFFHTFNSLHTEGKLIVISSTCAPQDLKAMEERLISRFEWGIAIPLHPLTKE  274 (445)
T ss_pred             CCEEEEcchhhhcCChhhHHHHHHHHHHHHHCCCcEEEecCCCHHHHhhhHHHHHhhhcCCeEEecCCCCHH
Confidence            44888999966422212  234443321 12355688887542         22223333567888888754

>PRK07952 DNA replication protein DnaC; Validated

Probab=97.87  E-value=0.00042  Score=60.79  Aligned_cols=102  Identities=14%  Similarity=0.181  Sum_probs=58.3

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCcccHHHHHHHHHHhcCCc
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSASGLNEFQSLMSRIQSSIKGK  290 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~k  290 (352)
                      ...+.++|.+|+|||+||..+.+.-  ...-..+++++      ...++..+-.....   .......    +.+.+. +
T Consensus        99 ~~~~~l~G~~GtGKThLa~aia~~l--~~~g~~v~~it------~~~l~~~l~~~~~~---~~~~~~~----~l~~l~-~  162 (244)
T PRK07952         99 IASFIFSGKPGTGKNHLAAAICNEL--LLRGKSVLIIT------VADIMSAMKDTFSN---SETSEEQ----LLNDLS-N  162 (244)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHH--HhcCCeEEEEE------HHHHHHHHHHHHhh---ccccHHH----HHHHhc-c
Confidence            3467899999999999999999853  22233455553      34455444443321   1111222    223344 3


Q ss_pred             eEEEEecCCCCCCccChhH--HHHhhcc--CCCCcEEEEecCC
Q 036619          291 KNFLVLDDVWDGDYNKWQP--FFRCLKN--GLHGSKILVTTRN  329 (352)
Q Consensus       291 r~LlVlDdvw~~~~~~~~~--l~~~l~~--~~~gs~IivTTR~  329 (352)
                      .=||||||+.......|..  +...+..  ....+ +|+||-.
T Consensus       163 ~dlLvIDDig~~~~s~~~~~~l~~Ii~~Ry~~~~~-tiitSNl  204 (244)
T PRK07952        163 VDLLVIDEIGVQTESRYEKVIINQIVDRRSSSKRP-TGMLTNS  204 (244)
T ss_pred             CCEEEEeCCCCCCCCHHHHHHHHHHHHHHHhCCCC-EEEeCCC
Confidence            4488999998765566764  4444432  22344 6777754

>PRK08118 topology modulation protein; Reviewed

Probab=97.85  E-value=8.2e-06  Score=67.52  Aligned_cols=34  Identities=32%  Similarity=0.614  Sum_probs=28.1

Q ss_pred             EEEEEecCCCcHHHHHHHHHhhhhhh-ccCCeEEE
Q 036619          213 VISLVGLGGIGKTTLAQLAYNNDEVK-RNFEKVIW  246 (352)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~~~~~-~~F~~~~w  246 (352)
                      .|.|+|++|+||||||+.+++...+. -+||..+|
T Consensus         3 rI~I~G~~GsGKSTlak~L~~~l~~~~~~lD~l~~   37 (167)
T PRK08118          3 KIILIGSGGSGKSTLARQLGEKLNIPVHHLDALFW   37 (167)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCCceecchhhc
Confidence            57899999999999999999875544 46787775

>PRK12377 putative replication protein; Provisional

Probab=97.81  E-value=7e-05  Score=65.85  Aligned_cols=101  Identities=20%  Similarity=0.156  Sum_probs=57.7

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCcccHHHHHHHHHHhcCCc
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSASGLNEFQSLMSRIQSSIKGK  290 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~k  290 (352)
                      ...+.++|.+|+|||+||..+.+.  .......+.++++.      .++..|-.....    .....    .+.+.+ .+
T Consensus       101 ~~~l~l~G~~GtGKThLa~AIa~~--l~~~g~~v~~i~~~------~l~~~l~~~~~~----~~~~~----~~l~~l-~~  163 (248)
T PRK12377        101 CTNFVFSGKPGTGKNHLAAAIGNR--LLAKGRSVIVVTVP------DVMSRLHESYDN----GQSGE----KFLQEL-CK  163 (248)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHH--HHHcCCCeEEEEHH------HHHHHHHHHHhc----cchHH----HHHHHh-cC
Confidence            356889999999999999999985  33333345666543      444444443321    11111    122222 35


Q ss_pred             eEEEEecCCCCCCccChhH--HHHhhccC--CCCcEEEEecCC
Q 036619          291 KNFLVLDDVWDGDYNKWQP--FFRCLKNG--LHGSKILVTTRN  329 (352)
Q Consensus       291 r~LlVlDdvw~~~~~~~~~--l~~~l~~~--~~gs~IivTTR~  329 (352)
                      -=||||||+.......|..  |...+...  ...+ +|+||-.
T Consensus       164 ~dLLiIDDlg~~~~s~~~~~~l~~ii~~R~~~~~p-tiitSNl  205 (248)
T PRK12377        164 VDLLVLDEIGIQRETKNEQVVLNQIIDRRTASMRS-VGMLTNL  205 (248)
T ss_pred             CCEEEEcCCCCCCCCHHHHHHHHHHHHHHHhcCCC-EEEEcCC
Confidence            5699999996654445553  44444422  2234 6777753

>PRK06526 transposase; Provisional

Probab=97.81  E-value=7.7e-05  Score=65.96  Aligned_cols=100  Identities=18%  Similarity=0.241  Sum_probs=54.9

Q ss_pred             EEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCcccHHHHHHHHHHhcCCce
Q 036619          212 QVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSASGLNEFQSLMSRIQSSIKGKK  291 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~kr  291 (352)
                      ..+.|+|++|+|||+||..+.+.. ....+. +.|+      +...++..+......     .   .+...+..+  .+.
T Consensus        99 ~nlll~Gp~GtGKThLa~al~~~a-~~~g~~-v~f~------t~~~l~~~l~~~~~~-----~---~~~~~l~~l--~~~  160 (254)
T PRK06526         99 ENVVFLGPPGTGKTHLAIGLGIRA-CQAGHR-VLFA------TAAQWVARLAAAHHA-----G---RLQAELVKL--GRY  160 (254)
T ss_pred             ceEEEEeCCCCchHHHHHHHHHHH-HHCCCc-hhhh------hHHHHHHHHHHHHhc-----C---cHHHHHHHh--ccC
Confidence            457899999999999999998753 233332 2332      334454444432110     1   112223332  234


Q ss_pred             EEEEecCCCCCCccChh--HHHHhhcc-CCCCcEEEEecCCh
Q 036619          292 NFLVLDDVWDGDYNKWQ--PFFRCLKN-GLHGSKILVTTRNE  330 (352)
Q Consensus       292 ~LlVlDdvw~~~~~~~~--~l~~~l~~-~~~gs~IivTTR~~  330 (352)
                      -||||||+.......|.  .+...+.. ..+++ +|+||..+
T Consensus       161 dlLIIDD~g~~~~~~~~~~~L~~li~~r~~~~s-~IitSn~~  201 (254)
T PRK06526        161 PLLIVDEVGYIPFEPEAANLFFQLVSSRYERAS-LIVTSNKP  201 (254)
T ss_pred             CEEEEcccccCCCCHHHHHHHHHHHHHHHhcCC-EEEEcCCC
Confidence            58999999754322332  34444432 23455 88888764

>PRK14948 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.78  E-value=0.00027  Score=70.34  Aligned_cols=157  Identities=13%  Similarity=0.183  Sum_probs=86.0

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHH
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAII  263 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~  263 (352)
                      ..++|.+.-...|..++....     -...+.++|+.|+||||+|+.+...-.....+..     ....+..-...+.+.
T Consensus        16 ~~liGq~~i~~~L~~~l~~~r-----l~~a~Lf~Gp~G~GKttlA~~lAk~L~c~~~~~~-----~~~~Cg~C~~C~~i~   85 (620)
T PRK14948         16 DELVGQEAIATTLKNALISNR-----IAPAYLFTGPRGTGKTSSARILAKSLNCLNSDKP-----TPEPCGKCELCRAIA   85 (620)
T ss_pred             hhccChHHHHHHHHHHHHcCC-----CCceEEEECCCCCChHHHHHHHHHHhcCCCcCCC-----CCCCCcccHHHHHHh
Confidence            468899888888888886533     2346779999999999999999875221111100     001112222233332


Q ss_pred             HHhCCC-----CCCcccHHHHHHHHHHh----cCCceEEEEecCCCCCCccChhHHHHhhccCCCCcEEEEecC-ChHHH
Q 036619          264 EGLGKS-----ASGLNEFQSLMSRIQSS----IKGKKNFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKILVTTR-NESVA  333 (352)
Q Consensus       264 ~~l~~~-----~~~~~~~~~~~~~l~~~----l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTTR-~~~va  333 (352)
                      ......     .......+++.+.+...    ..+++-++|||++.....+.++.|+..+......+.+|++|. ...+.
T Consensus        86 ~g~h~D~~ei~~~~~~~vd~IReii~~a~~~p~~~~~KViIIDEad~Lt~~a~naLLK~LEePp~~tvfIL~t~~~~~ll  165 (620)
T PRK14948         86 AGNALDVIEIDAASNTGVDNIRELIERAQFAPVQARWKVYVIDECHMLSTAAFNALLKTLEEPPPRVVFVLATTDPQRVL  165 (620)
T ss_pred             cCCCccEEEEeccccCCHHHHHHHHHHHhhChhcCCceEEEEECccccCHHHHHHHHHHHhcCCcCeEEEEEeCChhhhh
Confidence            221110     00111222222222111    135566899999987766678888888876555555555444 33443


Q ss_pred             HHhC-CCCeeeCCCCCCC
Q 036619          334 RMMG-STDIISIEQLAEE  350 (352)
Q Consensus       334 ~~~~-~~~~~~l~~L~~~  350 (352)
                      ..+. -...+++.+++.+
T Consensus       166 pTIrSRc~~~~f~~l~~~  183 (620)
T PRK14948        166 PTIISRCQRFDFRRIPLE  183 (620)
T ss_pred             HHHHhheeEEEecCCCHH
Confidence            3332 2455666666543

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

Probab=97.74  E-value=0.00062  Score=69.64  Aligned_cols=50  Identities=26%  Similarity=0.316  Sum_probs=39.0

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHh
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYN  233 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~  233 (352)
                      ...+|.++.+++|+++|............++.++|++|+||||+++.+..
T Consensus       322 ~~~~g~~~vK~~i~~~l~~~~~~~~~~g~~i~l~GppG~GKTtl~~~ia~  371 (784)
T PRK10787        322 TDHYGLERVKDRILEYLAVQSRVNKIKGPILCLVGPPGVGKTSLGQSIAK  371 (784)
T ss_pred             hhccCHHHHHHHHHHHHHHHHhcccCCCceEEEECCCCCCHHHHHHHHHH
Confidence            56899999999999888632211112346789999999999999999996

>KOG0989 consensus Replication factor C, subunit RFC4 [Replication, recombination and repair]

Probab=97.74  E-value=8.1e-05  Score=65.79  Aligned_cols=150  Identities=17%  Similarity=0.169  Sum_probs=89.6

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEE-EEeCCCCCHHHHHHHH
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIW-VCVSDTFDQIRIAKAI  262 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~w-v~vs~~~~~~~~~~~i  262 (352)
                      .+++|.+..+.-|.+.+..      ....+...+|++|.|||+.|..+...---.+-|.+++- .|+|..-... +.   
T Consensus        36 de~~gQe~vV~~L~~a~~~------~~lp~~LFyGPpGTGKTStalafar~L~~~~~~~~rvl~lnaSderGis-vv---  105 (346)
T KOG0989|consen   36 DELAGQEHVVQVLKNALLR------RILPHYLFYGPPGTGKTSTALAFARALNCEQLFPCRVLELNASDERGIS-VV---  105 (346)
T ss_pred             HhhcchHHHHHHHHHHHhh------cCCceEEeeCCCCCcHhHHHHHHHHHhcCccccccchhhhccccccccc-ch---
Confidence            4688999989999888876      23678889999999999999888864323345554432 3444432211 00   


Q ss_pred             HHHhCCCCCCcccHHHHHHHHHHhc--CCce-EEEEecCCCCCCccChhHHHHhhccCCCCcEE-EEecCChHHHHHhCC
Q 036619          263 IEGLGKSASGLNEFQSLMSRIQSSI--KGKK-NFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKI-LVTTRNESVARMMGS  338 (352)
Q Consensus       263 ~~~l~~~~~~~~~~~~~~~~l~~~l--~~kr-~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~I-ivTTR~~~va~~~~~  338 (352)
                             .....+...+........  ..++ -.||||++..+..+.|..+...+.+-...++. +||+--..+...+.+
T Consensus       106 -------r~Kik~fakl~~~~~~~~~~~~~~fKiiIlDEcdsmtsdaq~aLrr~mE~~s~~trFiLIcnylsrii~pi~S  178 (346)
T KOG0989|consen  106 -------REKIKNFAKLTVLLKRSDGYPCPPFKIIILDECDSMTSDAQAALRRTMEDFSRTTRFILICNYLSRIIRPLVS  178 (346)
T ss_pred             -------hhhhcCHHHHhhccccccCCCCCcceEEEEechhhhhHHHHHHHHHHHhccccceEEEEEcCChhhCChHHHh
Confidence                   001111222111111111  1233 37899999998888999999999875555654 555544444433322


Q ss_pred             -CCeeeCCCCCCC
Q 036619          339 -TDIISIEQLAEE  350 (352)
Q Consensus       339 -~~~~~l~~L~~~  350 (352)
                       ...|+..+|.++
T Consensus       179 RC~KfrFk~L~d~  191 (346)
T KOG0989|consen  179 RCQKFRFKKLKDE  191 (346)
T ss_pred             hHHHhcCCCcchH
Confidence             344666666654

>PRK14086 dnaA chromosomal replication initiation protein; Provisional

Probab=97.74  E-value=0.0006  Score=66.94  Aligned_cols=123  Identities=15%  Similarity=0.168  Sum_probs=67.8

Q ss_pred             EEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCcccHHHHHHHHHHhcCCce
Q 036619          212 QVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSASGLNEFQSLMSRIQSSIKGKK  291 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~kr  291 (352)
                      ..+.|+|..|+|||.|++.+++.......--.+++++.      ..++.++...+...     ..    ..+++.+.+ -
T Consensus       315 NpL~LyG~sGsGKTHLL~AIa~~a~~~~~g~~V~Yita------eef~~el~~al~~~-----~~----~~f~~~y~~-~  378 (617)
T PRK14086        315 NPLFIYGESGLGKTHLLHAIGHYARRLYPGTRVRYVSS------EEFTNEFINSIRDG-----KG----DSFRRRYRE-M  378 (617)
T ss_pred             CcEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEeeH------HHHHHHHHHHHHhc-----cH----HHHHHHhhc-C
Confidence            34889999999999999999985321111123455543      34444444443221     11    122333332 2


Q ss_pred             EEEEecCCCCCCc-cChh-HHHHhhccC-CCCcEEEEecCCh---------HHHHHhCCCCeeeCCCCCCC
Q 036619          292 NFLVLDDVWDGDY-NKWQ-PFFRCLKNG-LHGSKILVTTRNE---------SVARMMGSTDIISIEQLAEE  350 (352)
Q Consensus       292 ~LlVlDdvw~~~~-~~~~-~l~~~l~~~-~~gs~IivTTR~~---------~va~~~~~~~~~~l~~L~~~  350 (352)
                      =+|||||+..... +.|. .|...|... .+|..|||||...         .+...+...-+++|.+.+.+
T Consensus       379 DLLlIDDIq~l~gke~tqeeLF~l~N~l~e~gk~IIITSd~~P~eL~~l~~rL~SRf~~GLvv~I~~PD~E  449 (617)
T PRK14086        379 DILLVDDIQFLEDKESTQEEFFHTFNTLHNANKQIVLSSDRPPKQLVTLEDRLRNRFEWGLITDVQPPELE  449 (617)
T ss_pred             CEEEEehhccccCCHHHHHHHHHHHHHHHhcCCCEEEecCCChHhhhhccHHHHhhhhcCceEEcCCCCHH
Confidence            4789999976422 2333 344444321 2355688888752         23344445667788777654

>PRK08058 DNA polymerase III subunit delta'; Validated

Probab=97.74  E-value=0.00024  Score=65.54  Aligned_cols=154  Identities=11%  Similarity=0.058  Sum_probs=83.9

Q ss_pred             ccc-ccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHH
Q 036619          186 VCG-RVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIE  264 (352)
Q Consensus       186 ~~g-r~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~  264 (352)
                      ++| .+...+.|.+.+...     .-.....++|+.|+||||+|+.+.+.--..+.....       .++.-...+.+..
T Consensus         7 i~~~q~~~~~~L~~~~~~~-----~l~ha~Lf~G~~G~gk~~~a~~la~~l~c~~~~~~~-------~cg~C~~c~~~~~   74 (329)
T PRK08058          7 LTALQPVVVKMLQNSIAKN-----RLSHAYLFEGAKGTGKKATALWLAKSLFCLERNGVE-------PCGTCTNCKRIDS   74 (329)
T ss_pred             HHhhHHHHHHHHHHHHHcC-----CCCceEEEECCCCCCHHHHHHHHHHHHCCCCCCCCC-------CCCcCHHHHHHhc
Confidence            556 555566666666432     235677899999999999998886542111101000       0000011111110


Q ss_pred             HhCCC-----CC-CcccHHHHHHHHHHh----cCCceEEEEecCCCCCCccChhHHHHhhccCCCCcEEEEecCCh-HHH
Q 036619          265 GLGKS-----AS-GLNEFQSLMSRIQSS----IKGKKNFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKILVTTRNE-SVA  333 (352)
Q Consensus       265 ~l~~~-----~~-~~~~~~~~~~~l~~~----l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTTR~~-~va  333 (352)
                      .-...     .. ..-..+++.+.+...    ..+.+-++|+|++...+.+..+.|...+.....++.+|++|.+. .+.
T Consensus        75 ~~hpD~~~i~~~~~~i~id~ir~l~~~~~~~~~~~~~kvviI~~a~~~~~~a~NaLLK~LEEPp~~~~~Il~t~~~~~ll  154 (329)
T PRK08058         75 GNHPDVHLVAPDGQSIKKDQIRYLKEEFSKSGVESNKKVYIIEHADKMTASAANSLLKFLEEPSGGTTAILLTENKHQIL  154 (329)
T ss_pred             CCCCCEEEeccccccCCHHHHHHHHHHHhhCCcccCceEEEeehHhhhCHHHHHHHHHHhcCCCCCceEEEEeCChHhCc
Confidence            00000     00 001123332222211    23556679999998877667888989888777777777777653 444


Q ss_pred             HHhCC-CCeeeCCCCCCCc
Q 036619          334 RMMGS-TDIISIEQLAEEE  351 (352)
Q Consensus       334 ~~~~~-~~~~~l~~L~~~e  351 (352)
                      ..+.+ ...+++.++++++
T Consensus       155 ~TIrSRc~~i~~~~~~~~~  173 (329)
T PRK08058        155 PTILSRCQVVEFRPLPPES  173 (329)
T ss_pred             HHHHhhceeeeCCCCCHHH
Confidence            44433 6678888887654

>PRK00149 dnaA chromosomal replication initiation protein; Reviewed

Probab=97.73  E-value=0.00043  Score=66.78  Aligned_cols=122  Identities=18%  Similarity=0.266  Sum_probs=66.4

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhhhhhhccC--CeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCcccHHHHHHHHHHhcC
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNNDEVKRNF--EKVIWVCVSDTFDQIRIAKAIIEGLGKSASGLNEFQSLMSRIQSSIK  288 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F--~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~  288 (352)
                      ..-+.|+|+.|+|||+|++.+.+.  +...+  ..+++++..      .+...+...+...     ..+    .+.+.+.
T Consensus       148 ~~~l~l~G~~G~GKThL~~ai~~~--~~~~~~~~~v~yi~~~------~~~~~~~~~~~~~-----~~~----~~~~~~~  210 (450)
T PRK00149        148 YNPLFIYGGVGLGKTHLLHAIGNY--ILEKNPNAKVVYVTSE------KFTNDFVNALRNN-----TME----EFKEKYR  210 (450)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHH--HHHhCCCCeEEEEEHH------HHHHHHHHHHHcC-----cHH----HHHHHHh
Confidence            455889999999999999999985  33332  234555443      3334444444321     122    2233333


Q ss_pred             CceEEEEecCCCCCCccC-h-hHHHHhhcc-CCCCcEEEEecCCh--H-------HHHHhCCCCeeeCCCCCCC
Q 036619          289 GKKNFLVLDDVWDGDYNK-W-QPFFRCLKN-GLHGSKILVTTRNE--S-------VARMMGSTDIISIEQLAEE  350 (352)
Q Consensus       289 ~kr~LlVlDdvw~~~~~~-~-~~l~~~l~~-~~~gs~IivTTR~~--~-------va~~~~~~~~~~l~~L~~~  350 (352)
                       +.-+|||||+....... + +.+...|.. ...|..||+||...  .       +...+....++++++.+.+
T Consensus       211 -~~dlLiiDDi~~l~~~~~~~~~l~~~~n~l~~~~~~iiits~~~p~~l~~l~~~l~SRl~~gl~v~i~~pd~~  283 (450)
T PRK00149        211 -SVDVLLIDDIQFLAGKERTQEEFFHTFNALHEAGKQIVLTSDRPPKELPGLEERLRSRFEWGLTVDIEPPDLE  283 (450)
T ss_pred             -cCCEEEEehhhhhcCCHHHHHHHHHHHHHHHHCCCcEEEECCCCHHHHHHHHHHHHhHhcCCeeEEecCCCHH
Confidence             23489999996532111 2 234443321 12345577777643  1       2223333557888877654

>PRK10865 protein disaggregation chaperone; Provisional

Probab=97.72  E-value=0.0002  Score=74.13  Aligned_cols=45  Identities=24%  Similarity=0.279  Sum_probs=37.4

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..++||+.++.++++.|....      ...+.++|++|+|||+||+.+...
T Consensus       178 ~~vigr~~ei~~~i~iL~r~~------~~n~lL~G~pGvGKT~l~~~la~~  222 (857)
T PRK10865        178 DPVIGRDEEIRRTIQVLQRRT------KNNPVLIGEPGVGKTAIVEGLAQR  222 (857)
T ss_pred             CcCCCCHHHHHHHHHHHhcCC------cCceEEECCCCCCHHHHHHHHHHH
Confidence            468999999999999997643      234558999999999999988874

>PRK06921 hypothetical protein; Provisional

Probab=97.72  E-value=0.00027  Score=62.99  Aligned_cols=100  Identities=22%  Similarity=0.365  Sum_probs=55.2

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCcccHHHHHHHHHHhcCCc
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSASGLNEFQSLMSRIQSSIKGK  290 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~k  290 (352)
                      ...+.++|..|+|||+||..+.+.. .+.+-..+++++.      ..++..+...+          +.....+.. + .+
T Consensus       117 ~~~l~l~G~~G~GKThLa~aia~~l-~~~~g~~v~y~~~------~~l~~~l~~~~----------~~~~~~~~~-~-~~  177 (266)
T PRK06921        117 KNSIALLGQPGSGKTHLLTAAANEL-MRKKGVPVLYFPF------VEGFGDLKDDF----------DLLEAKLNR-M-KK  177 (266)
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHHH-hhhcCceEEEEEH------HHHHHHHHHHH----------HHHHHHHHH-h-cC
Confidence            4568899999999999999999852 2221334566654      23333332221          111122222 2 23


Q ss_pred             eEEEEecCCCC-----CCccChhH--HHHhhccC-CCCcEEEEecCC
Q 036619          291 KNFLVLDDVWD-----GDYNKWQP--FFRCLKNG-LHGSKILVTTRN  329 (352)
Q Consensus       291 r~LlVlDdvw~-----~~~~~~~~--l~~~l~~~-~~gs~IivTTR~  329 (352)
                      -=||||||+..     .....|..  |...+... .++..+||||-.
T Consensus       178 ~dlLiIDDl~~~~~g~e~~t~~~~~~lf~iin~R~~~~k~tIitsn~  224 (266)
T PRK06921        178 VEVLFIDDLFKPVNGKPRATEWQIEQMYSVLNYRYLNHKPILISSEL  224 (266)
T ss_pred             CCEEEEeccccccCCCccCCHHHHHHHHHHHHHHHHCCCCEEEECCC
Confidence            45999999932     22234553  55544421 224457888764

>PRK14088 dnaA chromosomal replication initiation protein; Provisional

Probab=97.72  E-value=0.00022  Score=68.34  Aligned_cols=124  Identities=16%  Similarity=0.244  Sum_probs=67.6

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhhhhhhccCC-eEEEEEeCCCCCHHHHHHHHHHHhCCCCCCcccHHHHHHHHHHhcCC
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNNDEVKRNFE-KVIWVCVSDTFDQIRIAKAIIEGLGKSASGLNEFQSLMSRIQSSIKG  289 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~-~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~  289 (352)
                      ..-+.|+|.+|+|||+|++.+.+... +.+.. .++|++.      ..++..+...+...     ..+.    +++.+..
T Consensus       130 ~n~l~lyG~~G~GKTHLl~ai~~~l~-~~~~~~~v~yi~~------~~f~~~~~~~~~~~-----~~~~----f~~~~~~  193 (440)
T PRK14088        130 YNPLFIYGGVGLGKTHLLQSIGNYVV-QNEPDLRVMYITS------EKFLNDLVDSMKEG-----KLNE----FREKYRK  193 (440)
T ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHH-HhCCCCeEEEEEH------HHHHHHHHHHHhcc-----cHHH----HHHHHHh
Confidence            34588999999999999999998532 22233 4556653      34556666555321     1222    2233333


Q ss_pred             ceEEEEecCCCCCC-ccCh-hHHHHhhcc-CCCCcEEEEecC-ChH-H-------HHHhCCCCeeeCCCCCCC
Q 036619          290 KKNFLVLDDVWDGD-YNKW-QPFFRCLKN-GLHGSKILVTTR-NES-V-------ARMMGSTDIISIEQLAEE  350 (352)
Q Consensus       290 kr~LlVlDdvw~~~-~~~~-~~l~~~l~~-~~~gs~IivTTR-~~~-v-------a~~~~~~~~~~l~~L~~~  350 (352)
                      +.-+|+|||+.... ...+ ..+...+.. ...|..||+||. .+. +       ...+....++++++.+.+
T Consensus       194 ~~dvLlIDDi~~l~~~~~~q~elf~~~n~l~~~~k~iIitsd~~p~~l~~l~~rL~SR~~~gl~v~i~~pd~e  266 (440)
T PRK14088        194 KVDVLLIDDVQFLIGKTGVQTELFHTFNELHDSGKQIVICSDREPQKLSEFQDRLVSRFQMGLVAKLEPPDEE  266 (440)
T ss_pred             cCCEEEEechhhhcCcHHHHHHHHHHHHHHHHcCCeEEEECCCCHHHHHHHHHHHhhHHhcCceEeeCCCCHH
Confidence            45589999997531 1112 234333321 122456888874 332 1       112233456677776643

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

Probab=97.71  E-value=5.1e-05  Score=63.46  Aligned_cols=101  Identities=21%  Similarity=0.421  Sum_probs=51.4

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCcccHHHHHHHHHHhcCCc
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSASGLNEFQSLMSRIQSSIKGK  290 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~k  290 (352)
                      ..-+.++|..|+|||.||..+.+.. +...+ .+.|+++      .+++..+-.    ... ....+..   +.. +. +
T Consensus        47 ~~~l~l~G~~G~GKThLa~ai~~~~-~~~g~-~v~f~~~------~~L~~~l~~----~~~-~~~~~~~---~~~-l~-~  108 (178)
T PF01695_consen   47 GENLILYGPPGTGKTHLAVAIANEA-IRKGY-SVLFITA------SDLLDELKQ----SRS-DGSYEEL---LKR-LK-R  108 (178)
T ss_dssp             --EEEEEESTTSSHHHHHHHHHHHH-HHTT---EEEEEH------HHHHHHHHC----CHC-CTTHCHH---HHH-HH-T
T ss_pred             CeEEEEEhhHhHHHHHHHHHHHHHh-ccCCc-ceeEeec------Cceeccccc----ccc-ccchhhh---cCc-cc-c
Confidence            3568899999999999999998752 33333 3555643      344444432    111 1112222   222 22 2


Q ss_pred             eEEEEecCCCCCCccChhH--HHHhhccC-CCCcEEEEecCCh
Q 036619          291 KNFLVLDDVWDGDYNKWQP--FFRCLKNG-LHGSKILVTTRNE  330 (352)
Q Consensus       291 r~LlVlDdvw~~~~~~~~~--l~~~l~~~-~~gs~IivTTR~~  330 (352)
                      -=||||||+.......|..  +...+... .++ .+|+||...
T Consensus       109 ~dlLilDDlG~~~~~~~~~~~l~~ii~~R~~~~-~tIiTSN~~  150 (178)
T PF01695_consen  109 VDLLILDDLGYEPLSEWEAELLFEIIDERYERK-PTIITSNLS  150 (178)
T ss_dssp             SSCEEEETCTSS---HHHHHCTHHHHHHHHHT--EEEEEESS-
T ss_pred             ccEecccccceeeecccccccchhhhhHhhccc-CeEeeCCCc
Confidence            3478899997754344432  33333321 234 477787654

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.

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=97.71  E-value=0.00023  Score=73.89  Aligned_cols=137  Identities=15%  Similarity=0.264  Sum_probs=79.8

Q ss_pred             CccccccchHHHHHHHHcCccc---cCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHH
Q 036619          184 GEVCGRVDEKSELFSKLLCESS---EQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAK  260 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~---~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~  260 (352)
                      ..++|.+..++.+...+.....   .......++.++|+.|+|||+||+.+...  ....-...+.++++.......   
T Consensus       565 ~~v~GQ~~av~~v~~~i~~~~~gl~~~~~p~~~~Lf~Gp~GvGKt~lA~~La~~--l~~~~~~~i~~d~s~~~~~~~---  639 (852)
T TIGR03346       565 ERVVGQDEAVEAVSDAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELAKALAEF--LFDDEDAMVRIDMSEYMEKHS---  639 (852)
T ss_pred             cccCCChHHHHHHHHHHHHHhccCCCCCCCCeEEEEEcCCCCCHHHHHHHHHHH--hcCCCCcEEEEechhhcccch---
Confidence            4689999999999888865321   01123567889999999999999999873  211122334444444222111   


Q ss_pred             HHHHHhCCCCC--CcccHHHHHHHHHHhcCCceEEEEecCCCCCCccChhHHHHhhccCC-----------CCcEEEEec
Q 036619          261 AIIEGLGKSAS--GLNEFQSLMSRIQSSIKGKKNFLVLDDVWDGDYNKWQPFFRCLKNGL-----------HGSKILVTT  327 (352)
Q Consensus       261 ~i~~~l~~~~~--~~~~~~~~~~~l~~~l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~-----------~gs~IivTT  327 (352)
                       +..-++..+.  +-.....+...++.   ....+|+||++...+.+.++.|...|..+.           ..+-||+||
T Consensus       640 -~~~l~g~~~g~~g~~~~g~l~~~v~~---~p~~vlllDeieka~~~v~~~Ll~~l~~g~l~d~~g~~vd~rn~iiI~TS  715 (852)
T TIGR03346       640 -VARLIGAPPGYVGYEEGGQLTEAVRR---KPYSVVLFDEVEKAHPDVFNVLLQVLDDGRLTDGQGRTVDFRNTVIIMTS  715 (852)
T ss_pred             -HHHhcCCCCCccCcccccHHHHHHHc---CCCcEEEEeccccCCHHHHHHHHHHHhcCceecCCCeEEecCCcEEEEeC
Confidence             1111222111  11111223333322   223499999998887788888888886541           234477777


Q ss_pred             CC
Q 036619          328 RN  329 (352)
Q Consensus       328 R~  329 (352)
                      ..
T Consensus       716 n~  717 (852)
T TIGR03346       716 NL  717 (852)
T ss_pred             Cc
Confidence            65

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.

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

Probab=97.71  E-value=0.00023  Score=72.27  Aligned_cols=45  Identities=27%  Similarity=0.245  Sum_probs=36.9

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..++||++++.++++.|....      ..-+.++|++|+|||+||+.+...
T Consensus       186 ~~liGR~~ei~~~i~iL~r~~------~~n~LLvGppGvGKT~lae~la~~  230 (758)
T PRK11034        186 DPLIGREKELERAIQVLCRRR------KNNPLLVGESGVGKTAIAEGLAWR  230 (758)
T ss_pred             CcCcCCCHHHHHHHHHHhccC------CCCeEEECCCCCCHHHHHHHHHHH
Confidence            468999999999999887643      123358999999999999999874

>PRK05563 DNA polymerase III subunits gamma and tau; Validated

Probab=97.71  E-value=0.00045  Score=68.18  Aligned_cols=155  Identities=15%  Similarity=0.223  Sum_probs=85.5

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHH
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAII  263 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~  263 (352)
                      .+++|.+.....|.+++....     -...+.++|+.|+||||+|+.+...-.....-       ...+++.-.....|.
T Consensus        16 ~~viGq~~v~~~L~~~i~~~~-----~~hayLf~Gp~GtGKTt~Ak~lAkal~c~~~~-------~~~pC~~C~~C~~i~   83 (559)
T PRK05563         16 EDVVGQEHITKTLKNAIKQGK-----ISHAYLFSGPRGTGKTSAAKIFAKAVNCLNPP-------DGEPCNECEICKAIT   83 (559)
T ss_pred             HhccCcHHHHHHHHHHHHcCC-----CCeEEEEECCCCCCHHHHHHHHHHHhcCCCCC-------CCCCCCccHHHHHHh
Confidence            468999999999999887543     24567789999999999999887531111100       011111112222222


Q ss_pred             HHhCCC-----C---CCcccHHHHHHHHHHh-cCCceEEEEecCCCCCCccChhHHHHhhccCCCCcEEEE-ecCChHHH
Q 036619          264 EGLGKS-----A---SGLNEFQSLMSRIQSS-IKGKKNFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKILV-TTRNESVA  333 (352)
Q Consensus       264 ~~l~~~-----~---~~~~~~~~~~~~l~~~-l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~Iiv-TTR~~~va  333 (352)
                      ......     .   .+..++.++...+... ..++.-++|+|++.......++.|...+........+|+ ||....+.
T Consensus        84 ~g~~~dv~eidaas~~~vd~ir~i~~~v~~~p~~~~~kViIIDE~~~Lt~~a~naLLKtLEepp~~~ifIlatt~~~ki~  163 (559)
T PRK05563         84 NGSLMDVIEIDAASNNGVDEIRDIRDKVKYAPSEAKYKVYIIDEVHMLSTGAFNALLKTLEEPPAHVIFILATTEPHKIP  163 (559)
T ss_pred             cCCCCCeEEeeccccCCHHHHHHHHHHHhhCcccCCeEEEEEECcccCCHHHHHHHHHHhcCCCCCeEEEEEeCChhhCc
Confidence            111110     0   0111122233322221 245667889999987665678888888776544554444 44444444


Q ss_pred             HHh-CCCCeeeCCCCCCC
Q 036619          334 RMM-GSTDIISIEQLAEE  350 (352)
Q Consensus       334 ~~~-~~~~~~~l~~L~~~  350 (352)
                      ..+ +....+.+.+++.+
T Consensus       164 ~tI~SRc~~~~f~~~~~~  181 (559)
T PRK05563        164 ATILSRCQRFDFKRISVE  181 (559)
T ss_pred             HHHHhHheEEecCCCCHH
Confidence            333 22456777776654

>COG1373 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=97.70  E-value=0.00023  Score=67.27  Aligned_cols=113  Identities=18%  Similarity=0.285  Sum_probs=70.6

Q ss_pred             EEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCcccHHHHHHHHHHhcCCceE
Q 036619          213 VISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSASGLNEFQSLMSRIQSSIKGKKN  292 (352)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~kr~  292 (352)
                      ++.|.|+.++|||||++.+...  ..+.   .++++..+......-+.+.                 ...+...-..++.
T Consensus        39 i~~i~GpR~~GKTtll~~l~~~--~~~~---~iy~~~~d~~~~~~~l~d~-----------------~~~~~~~~~~~~~   96 (398)
T COG1373          39 IILILGPRQVGKTTLLKLLIKG--LLEE---IIYINFDDLRLDRIELLDL-----------------LRAYIELKEREKS   96 (398)
T ss_pred             EEEEECCccccHHHHHHHHHhh--CCcc---eEEEEecchhcchhhHHHH-----------------HHHHHHhhccCCc
Confidence            9999999999999999666543  1111   5555544322111111111                 1111111122788


Q ss_pred             EEEecCCCCCCccChhHHHHhhccCCCCcEEEEecCChHHH-----HHh-CCCCeeeCCCCCCC
Q 036619          293 FLVLDDVWDGDYNKWQPFFRCLKNGLHGSKILVTTRNESVA-----RMM-GSTDIISIEQLAEE  350 (352)
Q Consensus       293 LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTTR~~~va-----~~~-~~~~~~~l~~L~~~  350 (352)
                      +|+||.|...  ..|......+.+..+. +|++|+-+..+-     ... |-...+++-||+..
T Consensus        97 yifLDEIq~v--~~W~~~lk~l~d~~~~-~v~itgsss~ll~~~~~~~L~GR~~~~~l~PlSF~  157 (398)
T COG1373          97 YIFLDEIQNV--PDWERALKYLYDRGNL-DVLITGSSSSLLSKEISESLAGRGKDLELYPLSFR  157 (398)
T ss_pred             eEEEecccCc--hhHHHHHHHHHccccc-eEEEECCchhhhccchhhhcCCCceeEEECCCCHH
Confidence            9999999776  7799988888876655 899988876433     322 33667888888754

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=97.70  E-value=0.00016  Score=74.64  Aligned_cols=136  Identities=20%  Similarity=0.292  Sum_probs=78.4

Q ss_pred             CccccccchHHHHHHHHcCccc---cCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHH
Q 036619          184 GEVCGRVDEKSELFSKLLCESS---EQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAK  260 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~---~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~  260 (352)
                      ..++|.+..++.+.+.+.....   .......++.++|+.|+|||.||+.+...  .-......+-++++.....    .
T Consensus       566 ~~v~GQ~~Av~~v~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKT~lA~~La~~--l~~~~~~~~~~dmse~~~~----~  639 (852)
T TIGR03345       566 ERVIGQDHALEAIAERIRTARAGLEDPRKPLGVFLLVGPSGVGKTETALALAEL--LYGGEQNLITINMSEFQEA----H  639 (852)
T ss_pred             CeEcChHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCCCHHHHHHHHHHH--HhCCCcceEEEeHHHhhhh----h
Confidence            5689999999999888753211   11244678999999999999999888763  2111122222232221110    1


Q ss_pred             HHHHHhCCCCCC---cccHHHHHHHHHHhcCCceEEEEecCCCCCCccChhHHHHhhccCC-----------CCcEEEEe
Q 036619          261 AIIEGLGKSASG---LNEFQSLMSRIQSSIKGKKNFLVLDDVWDGDYNKWQPFFRCLKNGL-----------HGSKILVT  326 (352)
Q Consensus       261 ~i~~~l~~~~~~---~~~~~~~~~~l~~~l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~-----------~gs~IivT  326 (352)
                      .+ ..+.+.+++   ......+...+++   ...-+|+||++...+.+.++.|...+..+.           ..+-||+|
T Consensus       640 ~~-~~l~g~~~gyvg~~~~g~L~~~v~~---~p~svvllDEieka~~~v~~~Llq~ld~g~l~d~~Gr~vd~~n~iiI~T  715 (852)
T TIGR03345       640 TV-SRLKGSPPGYVGYGEGGVLTEAVRR---KPYSVVLLDEVEKAHPDVLELFYQVFDKGVMEDGEGREIDFKNTVILLT  715 (852)
T ss_pred             hh-ccccCCCCCcccccccchHHHHHHh---CCCcEEEEechhhcCHHHHHHHHHHhhcceeecCCCcEEeccccEEEEe
Confidence            11 112222211   1111223333332   345699999998777778888888877652           34657777


Q ss_pred             cCC
Q 036619          327 TRN  329 (352)
Q Consensus       327 TR~  329 (352)
                      |-.
T Consensus       716 SNl  718 (852)
T TIGR03345       716 SNA  718 (852)
T ss_pred             CCC
Confidence            653

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.

>PRK03992 proteasome-activating nucleotidase; Provisional

Probab=97.70  E-value=0.00011  Score=69.37  Aligned_cols=51  Identities=20%  Similarity=0.167  Sum_probs=37.7

Q ss_pred             CccccccchHHHHHHHHcCccc-------cCCCCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          184 GEVCGRVDEKSELFSKLLCESS-------EQQNGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~-------~~~~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .++.|+++.++++.+.+..+-.       -+-..++-+.++|++|+|||+||+.+++.
T Consensus       131 ~di~Gl~~~~~~l~~~i~~pl~~~~~~~~~g~~~p~gvLL~GppGtGKT~lAkaia~~  188 (389)
T PRK03992        131 EDIGGLEEQIREVREAVELPLKKPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHE  188 (389)
T ss_pred             HHhCCcHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCceEEECCCCCChHHHHHHHHHH
Confidence            4688999999998876632110       01133566889999999999999999984

>PRK09183 transposase/IS protein; Provisional

Probab=97.69  E-value=0.00032  Score=62.38  Aligned_cols=101  Identities=20%  Similarity=0.303  Sum_probs=54.5

Q ss_pred             EEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCcccHHHHHHHHHHhcCCce
Q 036619          212 QVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSASGLNEFQSLMSRIQSSIKGKK  291 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~kr  291 (352)
                      ..+.|+|++|+|||+||..+.+.. ....+ .+.+++      ...++..+......     .   .+...++..+ .+.
T Consensus       103 ~~v~l~Gp~GtGKThLa~al~~~a-~~~G~-~v~~~~------~~~l~~~l~~a~~~-----~---~~~~~~~~~~-~~~  165 (259)
T PRK09183        103 ENIVLLGPSGVGKTHLAIALGYEA-VRAGI-KVRFTT------AADLLLQLSTAQRQ-----G---RYKTTLQRGV-MAP  165 (259)
T ss_pred             CeEEEEeCCCCCHHHHHHHHHHHH-HHcCC-eEEEEe------HHHHHHHHHHHHHC-----C---cHHHHHHHHh-cCC
Confidence            457799999999999999997642 22222 233443      23343333222111     0   1122232322 344


Q ss_pred             EEEEecCCCCCCccChh--HHHHhhcc-CCCCcEEEEecCCh
Q 036619          292 NFLVLDDVWDGDYNKWQ--PFFRCLKN-GLHGSKILVTTRNE  330 (352)
Q Consensus       292 ~LlVlDdvw~~~~~~~~--~l~~~l~~-~~~gs~IivTTR~~  330 (352)
                      -++||||++......+.  .+...+.. -.+++ +|+||...
T Consensus       166 dlLiiDdlg~~~~~~~~~~~lf~li~~r~~~~s-~iiTsn~~  206 (259)
T PRK09183        166 RLLIIDEIGYLPFSQEEANLFFQVIAKRYEKGS-MILTSNLP  206 (259)
T ss_pred             CEEEEcccccCCCChHHHHHHHHHHHHHHhcCc-EEEecCCC
Confidence            59999999764333333  35555532 13466 88888653

>PRK10865 protein disaggregation chaperone; Provisional

Probab=97.68  E-value=0.00027  Score=73.18  Aligned_cols=138  Identities=13%  Similarity=0.256  Sum_probs=76.8

Q ss_pred             CccccccchHHHHHHHHcCccc---cCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHH
Q 036619          184 GEVCGRVDEKSELFSKLLCESS---EQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAK  260 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~---~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~  260 (352)
                      ..++|.+..++.+...+.....   .......++.++|+.|+|||+||+.+.+.  ....-...+.++++.-.. .    
T Consensus       568 ~~viGQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~Lf~Gp~G~GKT~lA~aLa~~--l~~~~~~~i~id~se~~~-~----  640 (857)
T PRK10865        568 HRVIGQNEAVEAVSNAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELCKALANF--MFDSDDAMVRIDMSEFME-K----  640 (857)
T ss_pred             CeEeCCHHHHHHHHHHHHHHHhcccCCCCCCceEEEECCCCCCHHHHHHHHHHH--hhcCCCcEEEEEhHHhhh-h----
Confidence            4688999888888887753221   01123467889999999999999999863  211112234444443211 1    


Q ss_pred             HHHHHhCCCCCCcccHHHHHHHHHHhcCCc-eEEEEecCCCCCCccChhHHHHhhccCC-----------CCcEEEEecC
Q 036619          261 AIIEGLGKSASGLNEFQSLMSRIQSSIKGK-KNFLVLDDVWDGDYNKWQPFFRCLKNGL-----------HGSKILVTTR  328 (352)
Q Consensus       261 ~i~~~l~~~~~~~~~~~~~~~~l~~~l~~k-r~LlVlDdvw~~~~~~~~~l~~~l~~~~-----------~gs~IivTTR  328 (352)
                      .....+.+.+++-...+. ...+.+.++.+ .-+|+||++...+...+..|...+..+.           ..+-||+||.
T Consensus       641 ~~~~~LiG~~pgy~g~~~-~g~l~~~v~~~p~~vLllDEieka~~~v~~~Ll~ile~g~l~d~~gr~vd~rn~iiI~TSN  719 (857)
T PRK10865        641 HSVSRLVGAPPGYVGYEE-GGYLTEAVRRRPYSVILLDEVEKAHPDVFNILLQVLDDGRLTDGQGRTVDFRNTVVIMTSN  719 (857)
T ss_pred             hhHHHHhCCCCcccccch-hHHHHHHHHhCCCCeEEEeehhhCCHHHHHHHHHHHhhCceecCCceEEeecccEEEEeCC
Confidence            111222222221111100 11122222222 3599999998777778888888886541           2233777876


Q ss_pred             C
Q 036619          329 N  329 (352)
Q Consensus       329 ~  329 (352)
                      .
T Consensus       720 ~  720 (857)
T PRK10865        720 L  720 (857)
T ss_pred             c
Confidence            5

>PRK06647 DNA polymerase III subunits gamma and tau; Validated

Probab=97.68  E-value=0.00048  Score=67.82  Aligned_cols=155  Identities=11%  Similarity=0.081  Sum_probs=86.2

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHH
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAII  263 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~  263 (352)
                      .+++|.+.-+..|.+++....     -...+.++|+.|+||||+|+.+.+.--.......   ..+....+    .+.|.
T Consensus        16 ~diiGqe~iv~~L~~~i~~~~-----i~hayLf~Gp~G~GKTt~Ar~lAk~L~c~~~~~~---~pC~~C~~----C~~i~   83 (563)
T PRK06647         16 NSLEGQDFVVETLKHSIESNK-----IANAYIFSGPRGVGKTSSARAFARCLNCVNGPTP---MPCGECSS----CKSID   83 (563)
T ss_pred             HHccCcHHHHHHHHHHHHcCC-----CCeEEEEECCCCCCHHHHHHHHHHhhccccCCCC---CCCccchH----HHHHH
Confidence            468999998999999886533     3456889999999999999998874211111000   00000001    11111


Q ss_pred             HHhCC-----CCCCcccHHHHH---HHHHHh-cCCceEEEEecCCCCCCccChhHHHHhhccCCCCcEEEEec-CChHHH
Q 036619          264 EGLGK-----SASGLNEFQSLM---SRIQSS-IKGKKNFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKILVTT-RNESVA  333 (352)
Q Consensus       264 ~~l~~-----~~~~~~~~~~~~---~~l~~~-l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTT-R~~~va  333 (352)
                      ..-..     ........+++.   ..+... ..+++-++|+|++.......++.|...+......+.+|++| ....+-
T Consensus        84 ~~~~~dv~~idgas~~~vddIr~l~e~~~~~p~~~~~KVvIIDEa~~Ls~~a~naLLK~LEepp~~~vfI~~tte~~kL~  163 (563)
T PRK06647         84 NDNSLDVIEIDGASNTSVQDVRQIKEEIMFPPASSRYRVYIIDEVHMLSNSAFNALLKTIEEPPPYIVFIFATTEVHKLP  163 (563)
T ss_pred             cCCCCCeEEecCcccCCHHHHHHHHHHHHhchhcCCCEEEEEEChhhcCHHHHHHHHHhhccCCCCEEEEEecCChHHhH
Confidence            11000     000011122222   222221 24566689999998776667888888887665666666555 434444


Q ss_pred             HHh-CCCCeeeCCCCCCC
Q 036619          334 RMM-GSTDIISIEQLAEE  350 (352)
Q Consensus       334 ~~~-~~~~~~~l~~L~~~  350 (352)
                      ..+ .-...+++.+++.+
T Consensus       164 ~tI~SRc~~~~f~~l~~~  181 (563)
T PRK06647        164 ATIKSRCQHFNFRLLSLE  181 (563)
T ss_pred             HHHHHhceEEEecCCCHH
Confidence            333 22456788877654

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=97.67  E-value=0.0002  Score=74.25  Aligned_cols=45  Identities=24%  Similarity=0.276  Sum_probs=36.8

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..++||+.++.+++..|....      ...+.++|++|+|||+||+.+...
T Consensus       173 ~~~igr~~ei~~~~~~l~r~~------~~n~lL~G~pGvGKT~l~~~la~~  217 (852)
T TIGR03346       173 DPVIGRDEEIRRTIQVLSRRT------KNNPVLIGEPGVGKTAIVEGLAQR  217 (852)
T ss_pred             CcCCCcHHHHHHHHHHHhcCC------CCceEEEcCCCCCHHHHHHHHHHH
Confidence            358999999999999996543      233458999999999999988874

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=97.67  E-value=0.00027  Score=72.22  Aligned_cols=121  Identities=14%  Similarity=0.247  Sum_probs=72.0

Q ss_pred             CccccccchHHHHHHHHcCccc---cCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHH
Q 036619          184 GEVCGRVDEKSELFSKLLCESS---EQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAK  260 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~---~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~  260 (352)
                      ..++|.+..++.+.+.+.....   .......++.++|+.|+|||+||+.+...  .   +...+.++.+.-....    
T Consensus       454 ~~v~GQ~~ai~~l~~~i~~~~~g~~~~~~p~~~~lf~Gp~GvGKT~lA~~la~~--l---~~~~~~~d~se~~~~~----  524 (731)
T TIGR02639       454 AKIFGQDEAIDSLVSSIKRSRAGLGNPNKPVGSFLFTGPTGVGKTELAKQLAEA--L---GVHLERFDMSEYMEKH----  524 (731)
T ss_pred             cceeCcHHHHHHHHHHHHHHhcCCCCCCCCceeEEEECCCCccHHHHHHHHHHH--h---cCCeEEEeCchhhhcc----
Confidence            4678888888888877753211   01133567899999999999999999873  2   2334555554422211    


Q ss_pred             HHHHHhCCCCC--CcccHHHHHHHHHHhcCCc-eEEEEecCCCCCCccChhHHHHhhccC
Q 036619          261 AIIEGLGKSAS--GLNEFQSLMSRIQSSIKGK-KNFLVLDDVWDGDYNKWQPFFRCLKNG  317 (352)
Q Consensus       261 ~i~~~l~~~~~--~~~~~~~~~~~l~~~l~~k-r~LlVlDdvw~~~~~~~~~l~~~l~~~  317 (352)
                      .+...++....  +......+    .+.++.+ .-+|+||++...+.+.++.|...+..+
T Consensus       525 ~~~~lig~~~gyvg~~~~~~l----~~~~~~~p~~VvllDEieka~~~~~~~Ll~~ld~g  580 (731)
T TIGR02639       525 TVSRLIGAPPGYVGFEQGGLL----TEAVRKHPHCVLLLDEIEKAHPDIYNILLQVMDYA  580 (731)
T ss_pred             cHHHHhcCCCCCcccchhhHH----HHHHHhCCCeEEEEechhhcCHHHHHHHHHhhccC
Confidence            11222222111  11122223    3333333 359999999888777888888887654

>PRK08939 primosomal protein DnaI; Reviewed

Probab=97.67  E-value=0.00034  Score=63.59  Aligned_cols=101  Identities=15%  Similarity=0.260  Sum_probs=61.3

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCcccHHHHHHHHHHhcCCc
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSASGLNEFQSLMSRIQSSIKGK  290 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~k  290 (352)
                      ..-+.|+|..|+|||.||..+++.. .+..+ .+.+++++      .++..+...+...     +..   ..+.. + .+
T Consensus       156 ~~gl~L~G~~G~GKThLa~Aia~~l-~~~g~-~v~~~~~~------~l~~~lk~~~~~~-----~~~---~~l~~-l-~~  217 (306)
T PRK08939        156 VKGLYLYGDFGVGKSYLLAAIANEL-AKKGV-SSTLLHFP------EFIRELKNSISDG-----SVK---EKIDA-V-KE  217 (306)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHH-HHcCC-CEEEEEHH------HHHHHHHHHHhcC-----cHH---HHHHH-h-cC
Confidence            4568899999999999999999863 23333 34556543      4555555544321     112   22222 2 24


Q ss_pred             eEEEEecCCCCCCccChhH--HHHhh-ccC-CCCcEEEEecCC
Q 036619          291 KNFLVLDDVWDGDYNKWQP--FFRCL-KNG-LHGSKILVTTRN  329 (352)
Q Consensus       291 r~LlVlDdvw~~~~~~~~~--l~~~l-~~~-~~gs~IivTTR~  329 (352)
                      -=||||||+.......|..  +...+ ... ..+-..|+||-.
T Consensus       218 ~dlLiIDDiG~e~~s~~~~~~ll~~Il~~R~~~~~~ti~TSNl  260 (306)
T PRK08939        218 APVLMLDDIGAEQMSSWVRDEVLGVILQYRMQEELPTFFTSNF  260 (306)
T ss_pred             CCEEEEecCCCccccHHHHHHHHHHHHHHHHHCCCeEEEECCC
Confidence            5589999998776667864  44444 322 234457888864

>COG2607 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=97.67  E-value=0.00039  Score=59.47  Aligned_cols=120  Identities=18%  Similarity=0.208  Sum_probs=72.4

Q ss_pred             CCccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHH
Q 036619          183 EGEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAI  262 (352)
Q Consensus       183 ~~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i  262 (352)
                      -..++|.+..++.|++-...--.+  ..-.-+.+||..|+|||+|++.+.+.  +....-.  -|.|+..          
T Consensus        59 L~~l~Gvd~qk~~L~~NT~~F~~G--~pANnVLLwGaRGtGKSSLVKA~~~e--~~~~glr--LVEV~k~----------  122 (287)
T COG2607          59 LADLVGVDRQKEALVRNTEQFAEG--LPANNVLLWGARGTGKSSLVKALLNE--YADEGLR--LVEVDKE----------  122 (287)
T ss_pred             HHHHhCchHHHHHHHHHHHHHHcC--CcccceEEecCCCCChHHHHHHHHHH--HHhcCCe--EEEEcHH----------
Confidence            356899999888887654332211  23345679999999999999999984  3333322  2222221          


Q ss_pred             HHHhCCCCCCcccHHHHHHHHHHhcCCceEEEEecCCCCC-CccChhHHHHhhccC---CCCcEEEEecCC
Q 036619          263 IEGLGKSASGLNEFQSLMSRIQSSIKGKKNFLVLDDVWDG-DYNKWQPFFRCLKNG---LHGSKILVTTRN  329 (352)
Q Consensus       263 ~~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdvw~~-~~~~~~~l~~~l~~~---~~gs~IivTTR~  329 (352)
                               +..++..+...|+.  ...||+|..||+.-+ +...++.+++.+..+   .+.-.++..|.+
T Consensus       123 ---------dl~~Lp~l~~~Lr~--~~~kFIlFcDDLSFe~gd~~yK~LKs~LeG~ve~rP~NVl~YATSN  182 (287)
T COG2607         123 ---------DLATLPDLVELLRA--RPEKFILFCDDLSFEEGDDAYKALKSALEGGVEGRPANVLFYATSN  182 (287)
T ss_pred             ---------HHhhHHHHHHHHhc--CCceEEEEecCCCCCCCchHHHHHHHHhcCCcccCCCeEEEEEecC
Confidence                     01112222222222  478999999999654 345788899888754   333334444444

>COG3899 Predicted ATPase [General function prediction only]

Probab=97.64  E-value=0.00036  Score=72.12  Aligned_cols=47  Identities=26%  Similarity=0.334  Sum_probs=40.0

Q ss_pred             ccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          185 EVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       185 ~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .++||+.+.+.|...+.....   ..-.++.+.|..|||||+|++.|..-
T Consensus         1 ~l~GRe~ev~~Ll~~f~~v~~---g~~~~~lv~G~sGIGKsalv~ev~~~   47 (849)
T COG3899           1 PLYGRETELAQLLAAFDRVSK---GRGEVVLVAGESGIGKSALVNEVHKP   47 (849)
T ss_pred             CCCchHhHHHHHHHHHHHHhC---CCeEEEEEeecCCCcHHHHHHHHHHH
Confidence            378999999999999876553   34569999999999999999999973

>PRK07261 topology modulation protein; Provisional

Probab=97.64  E-value=0.00015  Score=60.24  Aligned_cols=54  Identities=20%  Similarity=0.223  Sum_probs=34.3

Q ss_pred             EEEEEecCCCcHHHHHHHHHhhhhhh-ccCCeEEEEEeCCCCCHHHHHHHHHHHh
Q 036619          213 VISLVGLGGIGKTTLAQLAYNNDEVK-RNFEKVIWVCVSDTFDQIRIAKAIIEGL  266 (352)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~~~~~-~~F~~~~wv~vs~~~~~~~~~~~i~~~l  266 (352)
                      .|.|+|++|+||||||+.+.....+. -+.|...|-......+...+...+...+
T Consensus         2 ri~i~G~~GsGKSTla~~l~~~~~~~~i~~D~~~~~~~~~~~~~~~~~~~~~~~~   56 (171)
T PRK07261          2 KIAIIGYSGSGKSTLARKLSQHYNCPVLHLDTLHFQPNWQERDDDDMIADISNFL   56 (171)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHhCCCeEecCCEEeccccccCCHHHHHHHHHHHH
Confidence            47899999999999999988653222 2456677754333444444444444333

>PRK07399 DNA polymerase III subunit delta'; Validated

Probab=97.63  E-value=0.00058  Score=62.38  Aligned_cols=162  Identities=17%  Similarity=0.215  Sum_probs=90.2

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhh-------------ccCCeEEEEEeC
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVK-------------RNFEKVIWVCVS  250 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~-------------~~F~~~~wv~vs  250 (352)
                      ..++|.+..++.+...+....     -.....++|+.|+||+++|..+.+.--..             ..+.-..|+.-.
T Consensus         4 ~~iiGq~~~~~~L~~~i~~~r-----l~ha~Lf~G~~G~Gk~~~A~~~a~~llc~~~c~~c~~~~~~~~~hPDl~~i~p~   78 (314)
T PRK07399          4 ANLIGQPLAIELLTAAIKQNR-----IAPAYLFAGPEGVGRKLAALCFIEGLLSQGSPSKNIRRRLEEGNHPDLLWVEPT   78 (314)
T ss_pred             HHhCCHHHHHHHHHHHHHhCC-----CCceEEEECCCCCCHHHHHHHHHHHHcCCCCCCCcHhcccccCCCCCEEEEecc
Confidence            358899998888888886533     24788899999999999997776531111             112222344211


Q ss_pred             CCCCHHHHHHHHHHHhC--CCCCCcccHHHHHHHHHHhc-----CCceEEEEecCCCCCCccChhHHHHhhccCCCCcEE
Q 036619          251 DTFDQIRIAKAIIEGLG--KSASGLNEFQSLMSRIQSSI-----KGKKNFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKI  323 (352)
Q Consensus       251 ~~~~~~~~~~~i~~~l~--~~~~~~~~~~~~~~~l~~~l-----~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~I  323 (352)
                      ...+-..+-..-++..+  ......-..+++ +.+.+.+     .+.+-++|+|++...+....+.|+..+....+..-|
T Consensus        79 ~~~~g~~~~~~~~~~~~~~~~~~~~I~id~i-r~i~~~l~~~p~~~~~kVvII~~ae~m~~~aaNaLLK~LEEPp~~~fI  157 (314)
T PRK07399         79 YQHQGKLITASEAEEAGLKRKAPPQIRLEQI-REIKRFLSRPPLEAPRKVVVIEDAETMNEAAANALLKTLEEPGNGTLI  157 (314)
T ss_pred             ccccccccchhhhhhccccccccccCcHHHH-HHHHHHHccCcccCCceEEEEEchhhcCHHHHHHHHHHHhCCCCCeEE
Confidence            00000000001111111  000111112222 2333333     456779999999888777888899988765544334


Q ss_pred             EEecCChHHHHHhCC-CCeeeCCCCCCCc
Q 036619          324 LVTTRNESVARMMGS-TDIISIEQLAEEE  351 (352)
Q Consensus       324 ivTTR~~~va~~~~~-~~~~~l~~L~~~e  351 (352)
                      ++|+..+.+-..+.+ ...+++.++++++
T Consensus       158 Li~~~~~~Ll~TI~SRcq~i~f~~l~~~~  186 (314)
T PRK07399        158 LIAPSPESLLPTIVSRCQIIPFYRLSDEQ  186 (314)
T ss_pred             EEECChHhCcHHHHhhceEEecCCCCHHH
Confidence            444444455444433 6788888888754

>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=97.62  E-value=0.00041  Score=58.93  Aligned_cols=131  Identities=21%  Similarity=0.246  Sum_probs=63.8

Q ss_pred             cccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCC---------CHH--
Q 036619          188 GRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTF---------DQI--  256 (352)
Q Consensus       188 gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~---------~~~--  256 (352)
                      .+..+....++.|..        ..++.+.|++|.|||.||-...-+.-....|+.++++.-.-+.         +..  
T Consensus         4 p~~~~Q~~~~~al~~--------~~~v~~~G~AGTGKT~LA~a~Al~~v~~g~~~kiii~Rp~v~~~~~lGflpG~~~eK   75 (205)
T PF02562_consen    4 PKNEEQKFALDALLN--------NDLVIVNGPAGTGKTFLALAAALELVKEGEYDKIIITRPPVEAGEDLGFLPGDLEEK   75 (205)
T ss_dssp             --SHHHHHHHHHHHH---------SEEEEE--TTSSTTHHHHHHHHHHHHTTS-SEEEEEE-S--TT----SS-------
T ss_pred             CCCHHHHHHHHHHHh--------CCeEEEECCCCCcHHHHHHHHHHHHHHhCCCcEEEEEecCCCCccccccCCCCHHHH
Confidence            455666777777762        3588899999999999997777654445788888877422110         000  


Q ss_pred             --HHHHHHHHHhCCCCCCcccHHHHHHH------HHHhcCCce---EEEEecCCCCCCccChhHHHHhhccCCCCcEEEE
Q 036619          257 --RIAKAIIEGLGKSASGLNEFQSLMSR------IQSSIKGKK---NFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKILV  325 (352)
Q Consensus       257 --~~~~~i~~~l~~~~~~~~~~~~~~~~------l~~~l~~kr---~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~Iiv  325 (352)
                        -.+.-+...+..-. .....+.+...      -..+++++.   .+||+|++.+..   -..++..+...+.|||||+
T Consensus        76 ~~p~~~p~~d~l~~~~-~~~~~~~~~~~~~Ie~~~~~~iRGrt~~~~~iIvDEaQN~t---~~~~k~ilTR~g~~skii~  151 (205)
T PF02562_consen   76 MEPYLRPIYDALEELF-GKEKLEELIQNGKIEIEPLAFIRGRTFDNAFIIVDEAQNLT---PEELKMILTRIGEGSKIII  151 (205)
T ss_dssp             --TTTHHHHHHHTTTS--TTCHHHHHHTTSEEEEEGGGGTT--B-SEEEEE-SGGG-----HHHHHHHHTTB-TT-EEEE
T ss_pred             HHHHHHHHHHHHHHHh-ChHhHHHHhhcCeEEEEehhhhcCccccceEEEEecccCCC---HHHHHHHHcccCCCcEEEE
Confidence              00111111111110 11112222110      012345543   499999997764   3456666777778999999


Q ss_pred             ecCCh
Q 036619          326 TTRNE  330 (352)
Q Consensus       326 TTR~~  330 (352)
                      +=-..
T Consensus       152 ~GD~~  156 (205)
T PF02562_consen  152 TGDPS  156 (205)
T ss_dssp             EE---
T ss_pred             ecCce
Confidence            75443

; GO: 0005524 ATP binding; PDB: 3B85_A.

>TIGR00763 lon ATP-dependent protease La

Probab=97.61  E-value=0.002  Score=66.28  Aligned_cols=51  Identities=22%  Similarity=0.289  Sum_probs=37.8

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..++|.++.++++.+++......+.....++.++|++|+|||++|+.+.+.
T Consensus       320 ~~~~G~~~~k~~i~~~~~~~~~~~~~~~~~lll~GppG~GKT~lAk~iA~~  370 (775)
T TIGR00763       320 EDHYGLKKVKERILEYLAVQKLRGKMKGPILCLVGPPGVGKTSLGKSIAKA  370 (775)
T ss_pred             hhcCChHHHHHHHHHHHHHHHhhcCCCCceEEEECCCCCCHHHHHHHHHHH
Confidence            458899999999888764321111123457899999999999999999974

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.

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

Probab=97.61  E-value=0.0006  Score=62.63  Aligned_cols=142  Identities=15%  Similarity=0.181  Sum_probs=82.5

Q ss_pred             ccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhc-------------------cCCeEE
Q 036619          185 EVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKR-------------------NFEKVI  245 (352)
Q Consensus       185 ~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~-------------------~F~~~~  245 (352)
                      .++|-+....++..+.....    .....+.+.|++|+||||+|..+.+.-....                   .+.-..
T Consensus         2 ~~~~~~~~~~~l~~~~~~~~----~~~halL~~Gp~G~Gktt~a~~lA~~l~~~~~~~~~~~~~~~~~~~~~~~~~~d~l   77 (325)
T COG0470           2 ELVPWQEAVKRLLVQALESG----RLPHALLFYGPPGVGKTTAALALAKELLCENPTGLLPCGHCRSCKLIPAGNHPDFL   77 (325)
T ss_pred             CcccchhHHHHHHHHHHhcC----CCCceeeeeCCCCCCHHHHHHHHHHHHhCCCcccCCcccchhhhhHHhhcCCCceE
Confidence            35667777788888887433    2233588999999999999988887522111                   112333


Q ss_pred             EEEeCCCCC---HHHHHHHHHHHhCCCCCCcccHHHHHHHHHHhcCCceEEEEecCCCCCCccChhHHHHhhccCCCCcE
Q 036619          246 WVCVSDTFD---QIRIAKAIIEGLGKSASGLNEFQSLMSRIQSSIKGKKNFLVLDDVWDGDYNKWQPFFRCLKNGLHGSK  322 (352)
Q Consensus       246 wv~vs~~~~---~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~  322 (352)
                      .++.+....   ..+..+++.+.......                .++.-++++|++.....+.-+.+...+......+.
T Consensus        78 el~~s~~~~~~i~~~~vr~~~~~~~~~~~----------------~~~~kviiidead~mt~~A~nallk~lEep~~~~~  141 (325)
T COG0470          78 ELNPSDLRKIDIIVEQVRELAEFLSESPL----------------EGGYKVVIIDEADKLTEDAANALLKTLEEPPKNTR  141 (325)
T ss_pred             EecccccCCCcchHHHHHHHHHHhccCCC----------------CCCceEEEeCcHHHHhHHHHHHHHHHhccCCCCeE
Confidence            344333333   12222222222211100                35677999999987766566677777776666778


Q ss_pred             EEEecCC-hHHHHHhCC-CCeeeCCC
Q 036619          323 ILVTTRN-ESVARMMGS-TDIISIEQ  346 (352)
Q Consensus       323 IivTTR~-~~va~~~~~-~~~~~l~~  346 (352)
                      +|++|.. ..+...+.+ ...+++.+
T Consensus       142 ~il~~n~~~~il~tI~SRc~~i~f~~  167 (325)
T COG0470         142 FILITNDPSKILPTIRSRCQRIRFKP  167 (325)
T ss_pred             EEEEcCChhhccchhhhcceeeecCC
Confidence            8887763 344433332 34455544

>COG1875 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]

Probab=97.60  E-value=0.00029  Score=63.83  Aligned_cols=131  Identities=25%  Similarity=0.274  Sum_probs=72.4

Q ss_pred             ccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHH-hhhhhhccCCeEEE----EEeCCCCC-------
Q 036619          187 CGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAY-NNDEVKRNFEKVIW----VCVSDTFD-------  254 (352)
Q Consensus       187 ~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~-~~~~~~~~F~~~~w----v~vs~~~~-------  254 (352)
                      -+|..+..--+++|++++      ...+++.|.+|.|||-||-... .....+..|..++-    +.+.+...       
T Consensus       227 ~prn~eQ~~ALdlLld~d------I~lV~L~G~AGtGKTlLALaAgleqv~e~~~y~KiiVtRp~vpvG~dIGfLPG~eE  300 (436)
T COG1875         227 RPRNAEQRVALDLLLDDD------IDLVSLGGKAGTGKTLLALAAGLEQVLERKRYRKIIVTRPTVPVGEDIGFLPGTEE  300 (436)
T ss_pred             CcccHHHHHHHHHhcCCC------CCeEEeeccCCccHhHHHHHHHHHHHHHHhhhceEEEecCCcCcccccCcCCCchh
Confidence            346666666788888754      8899999999999999994432 22223444543332    12222211       


Q ss_pred             --HHHHHHHHH---HHhCCCCCCcccHHHHHHHH---------HHhcCCce---EEEEecCCCCCCccChhHHHHhhccC
Q 036619          255 --QIRIAKAII---EGLGKSASGLNEFQSLMSRI---------QSSIKGKK---NFLVLDDVWDGDYNKWQPFFRCLKNG  317 (352)
Q Consensus       255 --~~~~~~~i~---~~l~~~~~~~~~~~~~~~~l---------~~~l~~kr---~LlVlDdvw~~~~~~~~~l~~~l~~~  317 (352)
                        +.-=++.|.   +.+.......  ...+...+         ..+++++.   -+||+|.+.+-   .-..++..+...
T Consensus       301 eKm~PWmq~i~DnLE~L~~~~~~~--~~~l~~~l~~~~iev~alt~IRGRSl~~~FiIIDEaQNL---TpheikTiltR~  375 (436)
T COG1875         301 EKMGPWMQAIFDNLEVLFSPNEPG--DRALEEILSRGRIEVEALTYIRGRSLPDSFIIIDEAQNL---TPHELKTILTRA  375 (436)
T ss_pred             hhccchHHHHHhHHHHHhcccccc--hHHHHHHHhccceeeeeeeeecccccccceEEEehhhcc---CHHHHHHHHHhc
Confidence              111112222   2222211111  11111111         12234443   49999999774   345677778788


Q ss_pred             CCCcEEEEecC
Q 036619          318 LHGSKILVTTR  328 (352)
Q Consensus       318 ~~gs~IivTTR  328 (352)
                      +.||||++|--
T Consensus       376 G~GsKIVl~gd  386 (436)
T COG1875         376 GEGSKIVLTGD  386 (436)
T ss_pred             cCCCEEEEcCC
Confidence            89999999864

>PRK04296 thymidine kinase; Provisional

Probab=97.60  E-value=0.00024  Score=60.10  Aligned_cols=111  Identities=14%  Similarity=0.085  Sum_probs=61.7

Q ss_pred             EEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCC--cccHHHHHHHHHHhcCC
Q 036619          212 QVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSASG--LNEFQSLMSRIQSSIKG  289 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~--~~~~~~~~~~l~~~l~~  289 (352)
                      .++.|+|+.|.||||++..+....  ..+-..++.+.  ..++.......++.+++.....  .....++...+.+ ..+
T Consensus         3 ~i~litG~~GsGKTT~~l~~~~~~--~~~g~~v~i~k--~~~d~~~~~~~i~~~lg~~~~~~~~~~~~~~~~~~~~-~~~   77 (190)
T PRK04296          3 KLEFIYGAMNSGKSTELLQRAYNY--EERGMKVLVFK--PAIDDRYGEGKVVSRIGLSREAIPVSSDTDIFELIEE-EGE   77 (190)
T ss_pred             EEEEEECCCCCHHHHHHHHHHHHH--HHcCCeEEEEe--ccccccccCCcEecCCCCcccceEeCChHHHHHHHHh-hCC
Confidence            467889999999999997777643  22333334342  1122222233455555432221  2234455555555 333


Q ss_pred             ceEEEEecCCCCCCccChhHHHHhhccCCCCcEEEEecCC
Q 036619          290 KKNFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKILVTTRN  329 (352)
Q Consensus       290 kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTTR~  329 (352)
                      +.-+||+|.+..-+.+....+...+.  ..|..||+|.++
T Consensus        78 ~~dvviIDEaq~l~~~~v~~l~~~l~--~~g~~vi~tgl~  115 (190)
T PRK04296         78 KIDCVLIDEAQFLDKEQVVQLAEVLD--DLGIPVICYGLD  115 (190)
T ss_pred             CCCEEEEEccccCCHHHHHHHHHHHH--HcCCeEEEEecC
Confidence            44599999995532222233333332  347889999998

>PRK05707 DNA polymerase III subunit delta'; Validated

Probab=97.60  E-value=0.00056  Score=62.85  Aligned_cols=63  Identities=11%  Similarity=0.174  Sum_probs=45.1

Q ss_pred             CceEEEEecCCCCCCccChhHHHHhhccCCCCcEEEEecCCh-HHHHHhCC-CCeeeCCCCCCCc
Q 036619          289 GKKNFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKILVTTRNE-SVARMMGS-TDIISIEQLAEEE  351 (352)
Q Consensus       289 ~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTTR~~-~va~~~~~-~~~~~l~~L~~~e  351 (352)
                      +++-++|||++...+.+..+.|...+..-..++.+|+||.+. .+...+.+ ...+++.++++++
T Consensus       105 ~~~kv~iI~~a~~m~~~aaNaLLK~LEEPp~~~~fiL~t~~~~~ll~TI~SRc~~~~~~~~~~~~  169 (328)
T PRK05707        105 GGRKVVLIEPAEAMNRNAANALLKSLEEPSGDTVLLLISHQPSRLLPTIKSRCQQQACPLPSNEE  169 (328)
T ss_pred             CCCeEEEECChhhCCHHHHHHHHHHHhCCCCCeEEEEEECChhhCcHHHHhhceeeeCCCcCHHH
Confidence            445566789999988888899999888766677777777665 44434333 5678888887654

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

Probab=97.58  E-value=0.00066  Score=66.64  Aligned_cols=106  Identities=17%  Similarity=0.271  Sum_probs=64.0

Q ss_pred             CCccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHH
Q 036619          183 EGEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAI  262 (352)
Q Consensus       183 ~~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i  262 (352)
                      +.+.+|-++.+++|+++|.-..-...-+-.++++||++|+|||+|++.+..  .....|-.   +.+..--|..+|    
T Consensus       322 d~dHYGLekVKeRIlEyLAV~~l~~~~kGpILcLVGPPGVGKTSLgkSIA~--al~RkfvR---~sLGGvrDEAEI----  392 (782)
T COG0466         322 DKDHYGLEKVKERILEYLAVQKLTKKLKGPILCLVGPPGVGKTSLGKSIAK--ALGRKFVR---ISLGGVRDEAEI----  392 (782)
T ss_pred             cccccCchhHHHHHHHHHHHHHHhccCCCcEEEEECCCCCCchhHHHHHHH--HhCCCEEE---EecCccccHHHh----
Confidence            457899999999999998533222224458999999999999999999997  34555522   222222222221    


Q ss_pred             HHHhCCC-CCCccc-HHHHHHHHHHhcCCceEEEEecCCCCC
Q 036619          263 IEGLGKS-ASGLNE-FQSLMSRIQSSIKGKKNFLVLDDVWDG  302 (352)
Q Consensus       263 ~~~l~~~-~~~~~~-~~~~~~~l~~~l~~kr~LlVlDdvw~~  302 (352)
                          .+. .+-... ...+.+.+++. +.+.=|++||.+...
T Consensus       393 ----RGHRRTYIGamPGrIiQ~mkka-~~~NPv~LLDEIDKm  429 (782)
T COG0466         393 ----RGHRRTYIGAMPGKIIQGMKKA-GVKNPVFLLDEIDKM  429 (782)
T ss_pred             ----ccccccccccCChHHHHHHHHh-CCcCCeEEeechhhc
Confidence                111 000000 12333333333 566779999999654

>CHL00095 clpC Clp protease ATP binding subunit

Probab=97.55  E-value=0.0004  Score=71.84  Aligned_cols=136  Identities=14%  Similarity=0.259  Sum_probs=78.1

Q ss_pred             CccccccchHHHHHHHHcCccc---cCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHH
Q 036619          184 GEVCGRVDEKSELFSKLLCESS---EQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAK  260 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~---~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~  260 (352)
                      ..++|.+..+..+...+.....   .......++.++|+.|+|||+||+.+.+.  .-..-...+-+..+...+...   
T Consensus       509 ~~v~GQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKt~lA~~LA~~--l~~~~~~~~~~d~s~~~~~~~---  583 (821)
T CHL00095        509 KRIIGQDEAVVAVSKAIRRARVGLKNPNRPIASFLFSGPTGVGKTELTKALASY--FFGSEDAMIRLDMSEYMEKHT---  583 (821)
T ss_pred             CcCcChHHHHHHHHHHHHHHhhcccCCCCCceEEEEECCCCCcHHHHHHHHHHH--hcCCccceEEEEchhcccccc---
Confidence            5688999888888887753211   11233567789999999999999988863  111112233344443222111   


Q ss_pred             HHHHHhCCCC--CCcccHHHHHHHHHHhcCCce-EEEEecCCCCCCccChhHHHHhhccC-----------CCCcEEEEe
Q 036619          261 AIIEGLGKSA--SGLNEFQSLMSRIQSSIKGKK-NFLVLDDVWDGDYNKWQPFFRCLKNG-----------LHGSKILVT  326 (352)
Q Consensus       261 ~i~~~l~~~~--~~~~~~~~~~~~l~~~l~~kr-~LlVlDdvw~~~~~~~~~l~~~l~~~-----------~~gs~IivT  326 (352)
                       +...++..+  .+-.....    |.+.+..++ -+|+||++...+.+.++.|...|..+           ...+-||+|
T Consensus       584 -~~~l~g~~~gyvg~~~~~~----l~~~~~~~p~~VvllDeieka~~~v~~~Llq~le~g~~~d~~g~~v~~~~~i~I~T  658 (821)
T CHL00095        584 -VSKLIGSPPGYVGYNEGGQ----LTEAVRKKPYTVVLFDEIEKAHPDIFNLLLQILDDGRLTDSKGRTIDFKNTLIIMT  658 (821)
T ss_pred             -HHHhcCCCCcccCcCccch----HHHHHHhCCCeEEEECChhhCCHHHHHHHHHHhccCceecCCCcEEecCceEEEEe
Confidence             111122211  11111222    334444444 58999999888777888888888764           234556667


Q ss_pred             cCC
Q 036619          327 TRN  329 (352)
Q Consensus       327 TR~  329 (352)
                      |..
T Consensus       659 sn~  661 (821)
T CHL00095        659 SNL  661 (821)
T ss_pred             CCc
Confidence            654

>TIGR02237 recomb_radB DNA repair and recombination protein RadB

Probab=97.54  E-value=0.00049  Score=59.12  Aligned_cols=88  Identities=17%  Similarity=0.235  Sum_probs=55.2

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHh-C---CC-----CCCcccHHHH
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGL-G---KS-----ASGLNEFQSL  279 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l-~---~~-----~~~~~~~~~~  279 (352)
                      +.-.++.|+|++|+|||+|+.++...  .......++|+.... ++...+.+. .+.. .   ..     .....+....
T Consensus        10 ~~g~i~~i~G~~GsGKT~l~~~~~~~--~~~~g~~v~yi~~e~-~~~~rl~~~-~~~~~~~~~~~i~~~~~~~~~~~~~~   85 (209)
T TIGR02237        10 ERGTITQIYGPPGSGKTNICMILAVN--AARQGKKVVYIDTEG-LSPERFKQI-AEDRPERALSNFIVFEVFDFDEQGVA   85 (209)
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHH--HHhCCCeEEEEECCC-CCHHHHHHH-HHhChHHHhcCEEEEECCCHHHHHHH
Confidence            45689999999999999999877754  223356889999876 666655443 2221 0   00     1111222334


Q ss_pred             HHHHHHhcCC-ceEEEEecCCC
Q 036619          280 MSRIQSSIKG-KKNFLVLDDVW  300 (352)
Q Consensus       280 ~~~l~~~l~~-kr~LlVlDdvw  300 (352)
                      ...+.+.+.. +.-+||+|.+-
T Consensus        86 ~~~l~~~~~~~~~~lvVIDSis  107 (209)
T TIGR02237        86 IQKTSKFIDRDSASLVVVDSFT  107 (209)
T ss_pred             HHHHHHHHhhcCccEEEEeCcH
Confidence            5555555543 45699999984

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

>PRK05541 adenylylsulfate kinase; Provisional

Probab=97.53  E-value=0.0007  Score=56.45  Aligned_cols=37  Identities=38%  Similarity=0.607  Sum_probs=28.4

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEE
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWV  247 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv  247 (352)
                      ....+|.+.|+.|+||||+|+.++..  ...++...+++
T Consensus         5 ~~~~~I~i~G~~GsGKst~a~~l~~~--l~~~~~~~~~~   41 (176)
T PRK05541          5 PNGYVIWITGLAGSGKTTIAKALYER--LKLKYSNVIYL   41 (176)
T ss_pred             CCCCEEEEEcCCCCCHHHHHHHHHHH--HHHcCCcEEEE
Confidence            34579999999999999999999974  44455555555

>PRK12608 transcription termination factor Rho; Provisional

Probab=97.50  E-value=0.00081  Score=62.12  Aligned_cols=102  Identities=14%  Similarity=0.070  Sum_probs=63.7

Q ss_pred             hHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCe-EEEEEeCCC-CCHHHHHHHHHHHhCCC
Q 036619          192 EKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEK-VIWVCVSDT-FDQIRIAKAIIEGLGKS  269 (352)
Q Consensus       192 ~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~-~~wv~vs~~-~~~~~~~~~i~~~l~~~  269 (352)
                      -..++++.+..-.    . -..+.|+|.+|+|||||++.+.+.. ..++-+. ++|+.+.+. ..+.++++.+...+...
T Consensus       119 ~~~RvID~l~PiG----k-GQR~LIvG~pGtGKTTLl~~la~~i-~~~~~dv~~vv~lIgER~~EV~df~~~i~~~Vvas  192 (380)
T PRK12608        119 LSMRVVDLVAPIG----K-GQRGLIVAPPRAGKTVLLQQIAAAV-AANHPEVHLMVLLIDERPEEVTDMRRSVKGEVYAS  192 (380)
T ss_pred             hhHhhhhheeecC----C-CceEEEECCCCCCHHHHHHHHHHHH-HhcCCCceEEEEEecCCCCCHHHHHHHHhhhEEee
Confidence            4455788776533    1 2455899999999999999988742 2223344 467676664 46778888887766553


Q ss_pred             CCCcccH-----HHHHHHHHHhc--CCceEEEEecCC
Q 036619          270 ASGLNEF-----QSLMSRIQSSI--KGKKNFLVLDDV  299 (352)
Q Consensus       270 ~~~~~~~-----~~~~~~l~~~l--~~kr~LlVlDdv  299 (352)
                      ..+....     -.....+.+++  ++++.+||+|++
T Consensus       193 t~de~~~~~~~v~~~~~~~Ae~f~~~GkdVVLvlDsl  229 (380)
T PRK12608        193 TFDRPPDEHIRVAELVLERAKRLVEQGKDVVILLDSL  229 (380)
T ss_pred             cCCCCHHHHHHHHHHHHHHHHHHHHcCCCEEEEEeCc
Confidence            3211111     11122222222  689999999998

>PRK13695 putative NTPase; Provisional

Probab=97.50  E-value=9.8e-05  Score=61.55  Aligned_cols=34  Identities=24%  Similarity=0.231  Sum_probs=24.3

Q ss_pred             EEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEE
Q 036619          213 VISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWV  247 (352)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv  247 (352)
                      .+.|+|.+|+|||||++.+++.... ..|...-|+
T Consensus         2 ~i~ltG~~G~GKTTll~~i~~~l~~-~G~~~~g~~   35 (174)
T PRK13695          2 KIGITGPPGVGKTTLVLKIAELLKE-EGYKVGGFY   35 (174)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHH-CCCeEEEEE
Confidence            4789999999999999998875322 235444444

>smart00763 AAA_PrkA PrkA AAA domain

Probab=97.50  E-value=9.4e-05  Score=67.89  Aligned_cols=50  Identities=16%  Similarity=0.239  Sum_probs=42.4

Q ss_pred             ccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          185 EVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       185 ~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      +++|.++.++++++++.....+.....+++.++|++|+||||||+.+.+.
T Consensus        52 ~~~G~~~~i~~lv~~l~~~a~g~~~~r~il~L~GPPGsGKStla~~La~~  101 (361)
T smart00763       52 DFFGMEEAIERFVNYFKSAAQGLEERKQILYLLGPVGGGKSSLVECLKRG  101 (361)
T ss_pred             hccCcHHHHHHHHHHHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHH
Confidence            79999999999999997655322345689999999999999999999875

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

>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=97.50  E-value=0.0018  Score=60.27  Aligned_cols=25  Identities=36%  Similarity=0.441  Sum_probs=22.0

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..++|+++|++|+||||++..+...
T Consensus       240 ~~~vI~LVGptGvGKTTTiaKLA~~  264 (436)
T PRK11889        240 EVQTIALIGPTGVGKTTTLAKMAWQ  264 (436)
T ss_pred             CCcEEEEECCCCCcHHHHHHHHHHH
Confidence            4589999999999999999888764

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

Probab=97.49  E-value=0.00044  Score=61.24  Aligned_cols=81  Identities=20%  Similarity=0.293  Sum_probs=49.5

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCcccHHHHHHHHHHhcCCc
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSASGLNEFQSLMSRIQSSIKGK  290 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~k  290 (352)
                      ..-+.++|.+|+|||.||..+.+.-. +..+ .+.++++      .+++.++......    .    .....|...+ .+
T Consensus       105 ~~nl~l~G~~G~GKThLa~Ai~~~l~-~~g~-sv~f~~~------~el~~~Lk~~~~~----~----~~~~~l~~~l-~~  167 (254)
T COG1484         105 GENLVLLGPPGVGKTHLAIAIGNELL-KAGI-SVLFITA------PDLLSKLKAAFDE----G----RLEEKLLREL-KK  167 (254)
T ss_pred             CCcEEEECCCCCcHHHHHHHHHHHHH-HcCC-eEEEEEH------HHHHHHHHHHHhc----C----chHHHHHHHh-hc
Confidence            45688999999999999999998633 3333 4455543      4555555554432    0    1112222211 22


Q ss_pred             eEEEEecCCCCCCccChh
Q 036619          291 KNFLVLDDVWDGDYNKWQ  308 (352)
Q Consensus       291 r~LlVlDdvw~~~~~~~~  308 (352)
                      -=||||||+.......|.
T Consensus       168 ~dlLIiDDlG~~~~~~~~  185 (254)
T COG1484         168 VDLLIIDDIGYEPFSQEE  185 (254)
T ss_pred             CCEEEEecccCccCCHHH
Confidence            348999999886556665

>PRK06835 DNA replication protein DnaC; Validated

Probab=97.49  E-value=0.00072  Score=62.06  Aligned_cols=102  Identities=18%  Similarity=0.279  Sum_probs=55.6

Q ss_pred             EEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCcccHHHHHHHHHHhcCCce
Q 036619          212 QVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSASGLNEFQSLMSRIQSSIKGKK  291 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~kr  291 (352)
                      .-+.++|..|+|||.||..+.+.. +... ..++++++.      .++..+...-..   ...+...   .+ +.+. .-
T Consensus       184 ~~Lll~G~~GtGKThLa~aIa~~l-~~~g-~~V~y~t~~------~l~~~l~~~~~~---~~~~~~~---~~-~~l~-~~  247 (329)
T PRK06835        184 ENLLFYGNTGTGKTFLSNCIAKEL-LDRG-KSVIYRTAD------ELIEILREIRFN---NDKELEE---VY-DLLI-NC  247 (329)
T ss_pred             CcEEEECCCCCcHHHHHHHHHHHH-HHCC-CeEEEEEHH------HHHHHHHHHHhc---cchhHHH---HH-HHhc-cC
Confidence            568899999999999999999853 2333 345666543      333333221110   0111111   12 2222 22


Q ss_pred             EEEEecCCCCCCccChh--HHHHhhccC-CCCcEEEEecCC
Q 036619          292 NFLVLDDVWDGDYNKWQ--PFFRCLKNG-LHGSKILVTTRN  329 (352)
Q Consensus       292 ~LlVlDdvw~~~~~~~~--~l~~~l~~~-~~gs~IivTTR~  329 (352)
                      =||||||+.......|.  .+...+... .++-.+||||-.
T Consensus       248 DLLIIDDlG~e~~t~~~~~~Lf~iin~R~~~~k~tIiTSNl  288 (329)
T PRK06835        248 DLLIIDDLGTEKITEFSKSELFNLINKRLLRQKKMIISTNL  288 (329)
T ss_pred             CEEEEeccCCCCCCHHHHHHHHHHHHHHHHCCCCEEEECCC
Confidence            48999999766444443  345544422 234458888864

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

Probab=97.48  E-value=5.6e-05  Score=60.43  Aligned_cols=90  Identities=22%  Similarity=0.209  Sum_probs=50.3

Q ss_pred             EEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCcccHHHHHHHHHHhcCCceEE
Q 036619          214 ISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSASGLNEFQSLMSRIQSSIKGKKNF  293 (352)
Q Consensus       214 i~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~kr~L  293 (352)
                      |.|+|++|+|||+||+.++...  .   ....-+.++...+..+++...--. ... .... ...+...+     .+..+
T Consensus         2 vlL~G~~G~GKt~l~~~la~~~--~---~~~~~i~~~~~~~~~dl~g~~~~~-~~~-~~~~-~~~l~~a~-----~~~~i   68 (139)
T PF07728_consen    2 VLLVGPPGTGKTTLARELAALL--G---RPVIRINCSSDTTEEDLIGSYDPS-NGQ-FEFK-DGPLVRAM-----RKGGI   68 (139)
T ss_dssp             EEEEESSSSSHHHHHHHHHHHH--T---CEEEEEE-TTTSTHHHHHCEEET--TTT-TCEE-E-CCCTTH-----HEEEE
T ss_pred             EEEECCCCCCHHHHHHHHHHHh--h---cceEEEEeccccccccceeeeeec-ccc-cccc-cccccccc-----cceeE
Confidence            5689999999999999999742  1   123446777777777665322111 000 0000 00000000     17899


Q ss_pred             EEecCCCCCCccChhHHHHhhcc
Q 036619          294 LVLDDVWDGDYNKWQPFFRCLKN  316 (352)
Q Consensus       294 lVlDdvw~~~~~~~~~l~~~l~~  316 (352)
                      +|||++...+.+.+..|...+..
T Consensus        69 l~lDEin~a~~~v~~~L~~ll~~   91 (139)
T PF07728_consen   69 LVLDEINRAPPEVLESLLSLLEE   91 (139)
T ss_dssp             EEESSCGG--HHHHHTTHHHHSS
T ss_pred             EEECCcccCCHHHHHHHHHHHhh
Confidence            99999976555556666666643

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.

>PRK09361 radB DNA repair and recombination protein RadB; Provisional

Probab=97.48  E-value=0.00092  Score=58.13  Aligned_cols=88  Identities=20%  Similarity=0.218  Sum_probs=54.2

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHH----h----CCC-CCCcccHHHH
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEG----L----GKS-ASGLNEFQSL  279 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~----l----~~~-~~~~~~~~~~  279 (352)
                      +.-.++.|+|.+|+|||+|+.++....  ...-..++|+... .++...+. ++...    +    ... .....+..+.
T Consensus        21 ~~g~i~~i~G~~GsGKT~l~~~la~~~--~~~~~~v~yi~~e-~~~~~r~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~   96 (225)
T PRK09361         21 ERGTITQIYGPPGSGKTNICLQLAVEA--AKNGKKVIYIDTE-GLSPERFK-QIAGEDFEELLSNIIIFEPSSFEEQSEA   96 (225)
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHH--HHCCCeEEEEECC-CCCHHHHH-HHHhhChHhHhhCeEEEeCCCHHHHHHH
Confidence            446899999999999999998887642  2334678899887 56655543 23322    1    000 1111122333


Q ss_pred             HHHHHHhcCCceEEEEecCCC
Q 036619          280 MSRIQSSIKGKKNFLVLDDVW  300 (352)
Q Consensus       280 ~~~l~~~l~~kr~LlVlDdvw  300 (352)
                      ...+...+..+--++|+|.+-
T Consensus        97 i~~~~~~~~~~~~lvVIDsi~  117 (225)
T PRK09361         97 IRKAEKLAKENVGLIVLDSAT  117 (225)
T ss_pred             HHHHHHHHHhcccEEEEeCcH
Confidence            444555555667799999983

>cd01123 Rad51_DMC1_radA Rad51_DMC1_radA,B

Probab=97.46  E-value=0.0012  Score=57.71  Aligned_cols=91  Identities=18%  Similarity=0.277  Sum_probs=57.5

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHhhhhhhcc----CCeEEEEEeCCCCCHHHHHHHHHHHhCCCCC------------C
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYNNDEVKRN----FEKVIWVCVSDTFDQIRIAKAIIEGLGKSAS------------G  272 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~----F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~------------~  272 (352)
                      +.-.++.|+|.+|+|||+|+.+++-.......    ...++|++....++..++. ++++..+....            .
T Consensus        17 ~~g~i~~i~G~~GsGKT~l~~~l~~~~~~~~~~~g~~~~viyi~~e~~~~~~rl~-~~~~~~~~~~~~~~~~i~~~~~~~   95 (235)
T cd01123          17 ETGSITEIFGEFGSGKTQLCHQLAVTVQLPIELGGLEGKAVYIDTEGTFRPERLV-QIAERFGLDPEEVLDNIYVARAYN   95 (235)
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHeeCccccCCCCccEEEEeCCCCcCHHHHH-HHHHHhccChHhHhcCEEEEecCC
Confidence            45689999999999999999888643222221    3679999988887765544 33343332211            1


Q ss_pred             cccHHHHHHHHHHhc-CC-ceEEEEecCCC
Q 036619          273 LNEFQSLMSRIQSSI-KG-KKNFLVLDDVW  300 (352)
Q Consensus       273 ~~~~~~~~~~l~~~l-~~-kr~LlVlDdvw  300 (352)
                      ..+...+...+...+ +. +--|||+|.+.
T Consensus        96 ~~~l~~~l~~l~~~l~~~~~~~liVIDSis  125 (235)
T cd01123          96 SDHQLQLLEELEAILIESSRIKLVIVDSVT  125 (235)
T ss_pred             HHHHHHHHHHHHHHHhhcCCeeEEEEeCcH
Confidence            122333445555555 33 66799999985

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 .

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

Probab=97.45  E-value=0.00037  Score=53.03  Aligned_cols=21  Identities=43%  Similarity=0.543  Sum_probs=18.5

Q ss_pred             EEEEecCCCcHHHHHHHHHhh
Q 036619          214 ISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       214 i~I~G~~GiGKTtLa~~v~~~  234 (352)
                      |-|+|.+|+|||+||+.+..+
T Consensus         1 I~i~G~~G~GKS~l~~~l~~~   21 (107)
T PF00910_consen    1 IWIYGPPGIGKSTLAKELAKD   21 (107)
T ss_pred             CEEECCCCCCHHHHHHHHHHH
Confidence            358999999999999998874

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

>COG0593 DnaA ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]

Probab=97.44  E-value=0.0029  Score=59.19  Aligned_cols=148  Identities=19%  Similarity=0.237  Sum_probs=81.9

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHH
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAII  263 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~  263 (352)
                      ..++|-......-...-.....+  .....+-|+|..|.|||.|++.+.+.  ...+......++++.    +.....++
T Consensus        88 nFv~g~~N~~A~aa~~~va~~~g--~~~nplfi~G~~GlGKTHLl~Aign~--~~~~~~~a~v~y~~s----e~f~~~~v  159 (408)
T COG0593          88 NFVVGPSNRLAYAAAKAVAENPG--GAYNPLFIYGGVGLGKTHLLQAIGNE--ALANGPNARVVYLTS----EDFTNDFV  159 (408)
T ss_pred             heeeCCchHHHHHHHHHHHhccC--CcCCcEEEECCCCCCHHHHHHHHHHH--HHhhCCCceEEeccH----HHHHHHHH
Confidence            44566555443333322222211  24677889999999999999999994  444444333333332    33333444


Q ss_pred             HHhCCCCCCcccHHHHHHHHHHhcCCceEEEEecCCCCCC-ccChh-HHHHhhccC-CCCcEEEEecCC---------hH
Q 036619          264 EGLGKSASGLNEFQSLMSRIQSSIKGKKNFLVLDDVWDGD-YNKWQ-PFFRCLKNG-LHGSKILVTTRN---------ES  331 (352)
Q Consensus       264 ~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdvw~~~-~~~~~-~l~~~l~~~-~~gs~IivTTR~---------~~  331 (352)
                      ..+..         .-...+++..  .-=++++||++.-. .+.|+ .+...|..- ..|-.||+|++.         +.
T Consensus       160 ~a~~~---------~~~~~Fk~~y--~~dlllIDDiq~l~gk~~~qeefFh~FN~l~~~~kqIvltsdr~P~~l~~~~~r  228 (408)
T COG0593         160 KALRD---------NEMEKFKEKY--SLDLLLIDDIQFLAGKERTQEEFFHTFNALLENGKQIVLTSDRPPKELNGLEDR  228 (408)
T ss_pred             HHHHh---------hhHHHHHHhh--ccCeeeechHhHhcCChhHHHHHHHHHHHHHhcCCEEEEEcCCCchhhccccHH
Confidence            33322         1133444444  33488999997631 12233 244444321 224479999964         34


Q ss_pred             HHHHhCCCCeeeCCCCCCC
Q 036619          332 VARMMGSTDIISIEQLAEE  350 (352)
Q Consensus       332 va~~~~~~~~~~l~~L~~~  350 (352)
                      +...+...-++++.+++++
T Consensus       229 L~SR~~~Gl~~~I~~Pd~e  247 (408)
T COG0593         229 LRSRLEWGLVVEIEPPDDE  247 (408)
T ss_pred             HHHHHhceeEEeeCCCCHH
Confidence            5555666778888888765

>TIGR00602 rad24 checkpoint protein rad24

Probab=97.44  E-value=0.00034  Score=69.43  Aligned_cols=50  Identities=18%  Similarity=0.226  Sum_probs=39.4

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .+++|.+..+.++..+|...... .....++.|+|++|+||||+++.+...
T Consensus        84 del~~~~~ki~~l~~~l~~~~~~-~~~~~illL~GP~GsGKTTl~~~la~~  133 (637)
T TIGR00602        84 HELAVHKKKIEEVETWLKAQVLE-NAPKRILLITGPSGCGKSTTIKILSKE  133 (637)
T ss_pred             HHhcCcHHHHHHHHHHHHhcccc-cCCCcEEEEECCCCCCHHHHHHHHHHH
Confidence            46899999999999888654321 123467999999999999999999874

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

>PHA00729 NTP-binding motif containing protein

Probab=97.42  E-value=0.0018  Score=55.80  Aligned_cols=24  Identities=29%  Similarity=0.318  Sum_probs=21.3

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ...|.|.|.+|+||||||..+.+.
T Consensus        17 f~nIlItG~pGvGKT~LA~aLa~~   40 (226)
T PHA00729         17 FVSAVIFGKQGSGKTTYALKVARD   40 (226)
T ss_pred             eEEEEEECCCCCCHHHHHHHHHHH
Confidence            457889999999999999998874

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

Probab=97.41  E-value=0.0015  Score=56.79  Aligned_cols=90  Identities=17%  Similarity=0.209  Sum_probs=56.6

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHhhhhhhccC------CeEEEEEeCCCCCHHHHHHHHHHHhCCCCC---------Cc
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNF------EKVIWVCVSDTFDQIRIAKAIIEGLGKSAS---------GL  273 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F------~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~---------~~  273 (352)
                      +.-.++.|+|.+|+|||+|+..+....  ....      ..++|+.....++...+. .+.........         ..
T Consensus        17 ~~g~v~~I~G~~GsGKT~l~~~ia~~~--~~~~~~~g~~~~v~yi~~e~~~~~~rl~-~~~~~~~~~~~~~~~~i~~~~~   93 (226)
T cd01393          17 PTGRITEIFGEFGSGKTQLCLQLAVEA--QLPGELGGLEGKVVYIDTEGAFRPERLV-QLAVRFGLDPEEVLDNIYVARP   93 (226)
T ss_pred             cCCcEEEEeCCCCCChhHHHHHHHHHh--hcccccCCCcceEEEEecCCCCCHHHHH-HHHHHhccchhhhhccEEEEeC
Confidence            456899999999999999998876532  1222      567899988877766554 33333222100         11


Q ss_pred             ccHHHHHHHHHHhcC----CceEEEEecCCCC
Q 036619          274 NEFQSLMSRIQSSIK----GKKNFLVLDDVWD  301 (352)
Q Consensus       274 ~~~~~~~~~l~~~l~----~kr~LlVlDdvw~  301 (352)
                      .+.+++...+.+.+.    .+--|||+|.+..
T Consensus        94 ~~~~~~~~~l~~~~~~~~~~~~~lvVIDsis~  125 (226)
T cd01393          94 YNGEQQLEIVEELERIMSSGRVDLVVVDSVAA  125 (226)
T ss_pred             CCHHHHHHHHHHHHHHhhcCCeeEEEEcCcch
Confidence            344555555555442    3455999999843

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.

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

Probab=97.40  E-value=0.0026  Score=62.56  Aligned_cols=107  Identities=18%  Similarity=0.257  Sum_probs=64.8

Q ss_pred             CCccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHH
Q 036619          183 EGEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAI  262 (352)
Q Consensus       183 ~~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i  262 (352)
                      +.+.+|.++-++++++++--..-.++.+-++++.+|++|+|||.+|+.+..-  ....|   +-+++..-.|+.+|-..-
T Consensus       410 deDHYgm~dVKeRILEfiAV~kLrgs~qGkIlCf~GPPGVGKTSI~kSIA~A--LnRkF---fRfSvGG~tDvAeIkGHR  484 (906)
T KOG2004|consen  410 DEDHYGMEDVKERILEFIAVGKLRGSVQGKILCFVGPPGVGKTSIAKSIARA--LNRKF---FRFSVGGMTDVAEIKGHR  484 (906)
T ss_pred             cccccchHHHHHHHHHHHHHHhhcccCCCcEEEEeCCCCCCcccHHHHHHHH--hCCce---EEEeccccccHHhhcccc
Confidence            4578999999999999985433333456799999999999999999999973  33343   223444444444331100


Q ss_pred             HHHhCCCCCCcccHHHHHHHHHHhcCCceEEEEecCCCC
Q 036619          263 IEGLGKSASGLNEFQSLMSRIQSSIKGKKNFLVLDDVWD  301 (352)
Q Consensus       263 ~~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdvw~  301 (352)
                      --.+     +.. ...+++-|+.. +...=|+.||.|..
T Consensus       485 RTYV-----GAM-PGkiIq~LK~v-~t~NPliLiDEvDK  516 (906)
T KOG2004|consen  485 RTYV-----GAM-PGKIIQCLKKV-KTENPLILIDEVDK  516 (906)
T ss_pred             eeee-----ccC-ChHHHHHHHhh-CCCCceEEeehhhh
Confidence            0000     000 12233333332 45566888998854

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

Probab=97.40  E-value=0.00097  Score=59.17  Aligned_cols=89  Identities=25%  Similarity=0.380  Sum_probs=56.8

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhhhhhhc----cCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCC------------Cc
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNNDEVKR----NFEKVIWVCVSDTFDQIRIAKAIIEGLGKSAS------------GL  273 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~----~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~------------~~  273 (352)
                      .-.+.=|+|.+|+|||+|+-.++-...+..    .=..++||+....|+..++. +|++.......            ..
T Consensus        37 ~g~itEi~G~~gsGKTql~l~l~~~~~l~~~~~g~~~~vvyidTe~~f~~~Rl~-~i~~~~~~~~~~~l~~I~v~~~~~~  115 (256)
T PF08423_consen   37 TGSITEIVGESGSGKTQLCLQLAVNVQLPEEIGGLGGKVVYIDTEGTFSPERLQ-QIAERFGLDPEEILDNIFVIRVFDL  115 (256)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHTTSGGCTTSSSSEEEEEESSSSS-HHHHH-HHHHHTTS-HHHHHHTEEEEE-SSH
T ss_pred             CCcEEEEEEecccccchHHHHHHHHhhcccccccCCCceEEEeCCCCCCHHHHH-HHhhccccccchhhhceeeeecCCH
Confidence            356888999999999999977764433222    22479999999999988875 56665543211            11


Q ss_pred             ccHHHHHHHHHHhc-CCceEEEEecCC
Q 036619          274 NEFQSLMSRIQSSI-KGKKNFLVLDDV  299 (352)
Q Consensus       274 ~~~~~~~~~l~~~l-~~kr~LlVlDdv  299 (352)
                      .+...+...+...+ +++--|||+|.+
T Consensus       116 ~~l~~~L~~l~~~l~~~~ikLIVIDSI  142 (256)
T PF08423_consen  116 EELLELLEQLPKLLSESKIKLIVIDSI  142 (256)
T ss_dssp             HHHHHHHHHHHHHHHHSCEEEEEEETS
T ss_pred             HHHHHHHHHHHhhccccceEEEEecch
Confidence            22333344444444 345569999998

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 ....

>TIGR02238 recomb_DMC1 meiotic recombinase Dmc1

Probab=97.37  E-value=0.0012  Score=60.34  Aligned_cols=91  Identities=20%  Similarity=0.281  Sum_probs=58.1

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHhhhhhh----ccCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCC---------Cccc
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYNNDEVK----RNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSAS---------GLNE  275 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~----~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~---------~~~~  275 (352)
                      +.-+++-|+|++|+|||+|+..++-.....    ..=..++||+....|+.+++. ++++.++....         ...+
T Consensus        94 ~~G~iteI~G~~GsGKTql~lqla~~~~~~~~~gg~~~~vvYIdtE~~f~~eRi~-~~a~~~g~d~~~~l~~i~~~~~~~  172 (313)
T TIGR02238        94 ESMSITEVFGEFRCGKTQLSHTLCVTAQLPREMGGGNGKVAYIDTEGTFRPDRIR-AIAERFGVDPDAVLDNILYARAYT  172 (313)
T ss_pred             cCCeEEEEECCCCCCcCHHHHHHHHHHhcchhhcCCCCeEEEEEcCCCCCHHHHH-HHHHHcCCChHHhcCcEEEecCCC
Confidence            456889999999999999997665332221    112478999999999988875 45666654321         1112


Q ss_pred             HHH---HHHHHHHhcC-CceEEEEecCCC
Q 036619          276 FQS---LMSRIQSSIK-GKKNFLVLDDVW  300 (352)
Q Consensus       276 ~~~---~~~~l~~~l~-~kr~LlVlDdvw  300 (352)
                      .+.   +...+...+. .+--|||+|.+-
T Consensus       173 ~e~~~~~l~~l~~~i~~~~~~LvVIDSis  201 (313)
T TIGR02238       173 SEHQMELLDYLAAKFSEEPFRLLIVDSIM  201 (313)
T ss_pred             HHHHHHHHHHHHHHhhccCCCEEEEEcch
Confidence            333   2334444443 345589999984

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.

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

Probab=97.37  E-value=0.00082  Score=68.36  Aligned_cols=123  Identities=14%  Similarity=0.222  Sum_probs=70.3

Q ss_pred             CccccccchHHHHHHHHcCccc---cCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHH
Q 036619          184 GEVCGRVDEKSELFSKLLCESS---EQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAK  260 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~---~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~  260 (352)
                      ..++|.++.++.|.+.+.....   ........+.++|++|+|||+||+.+....  .   ...+.++++......    
T Consensus       458 ~~ViGQ~~ai~~l~~~i~~~~~gl~~~~kp~~~~Lf~GP~GvGKT~lAk~LA~~l--~---~~~i~id~se~~~~~----  528 (758)
T PRK11034        458 MLVFGQDKAIEALTEAIKMSRAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKAL--G---IELLRFDMSEYMERH----  528 (758)
T ss_pred             ceEeCcHHHHHHHHHHHHHHhccccCCCCCcceEEEECCCCCCHHHHHHHHHHHh--C---CCcEEeechhhcccc----
Confidence            3578888888888887753211   112345678999999999999999997642  2   223344444322111    


Q ss_pred             HHHHHhCCCCCCcccHHHHHHHHHHhcC-CceEEEEecCCCCCCccChhHHHHhhccC
Q 036619          261 AIIEGLGKSASGLNEFQSLMSRIQSSIK-GKKNFLVLDDVWDGDYNKWQPFFRCLKNG  317 (352)
Q Consensus       261 ~i~~~l~~~~~~~~~~~~~~~~l~~~l~-~kr~LlVlDdvw~~~~~~~~~l~~~l~~~  317 (352)
                      .+.+-++. +++-...+ ....+.+.+. ....+|+||++.....+.++.|...|..+
T Consensus       529 ~~~~LiG~-~~gyvg~~-~~g~L~~~v~~~p~sVlllDEieka~~~v~~~LLq~ld~G  584 (758)
T PRK11034        529 TVSRLIGA-PPGYVGFD-QGGLLTDAVIKHPHAVLLLDEIEKAHPDVFNLLLQVMDNG  584 (758)
T ss_pred             cHHHHcCC-CCCccccc-ccchHHHHHHhCCCcEEEeccHhhhhHHHHHHHHHHHhcC
Confidence            11122222 21110000 0112223332 23469999999888777888888877643

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

Probab=97.36  E-value=0.0005  Score=68.96  Aligned_cols=122  Identities=16%  Similarity=0.300  Sum_probs=76.7

Q ss_pred             CccccccchHHHHHHHHcCccc---cCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccC---CeEEEEEeCCCCCHHH
Q 036619          184 GEVCGRVDEKSELFSKLLCESS---EQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNF---EKVIWVCVSDTFDQIR  257 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~---~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F---~~~~wv~vs~~~~~~~  257 (352)
                      ..++|.+..+..+.+.+.....   +......+...+|+.|+|||-||+.+...     -|   +..+-+      |+.+
T Consensus       491 ~rViGQd~AV~avs~aIrraRaGL~dp~rPigsFlF~GPTGVGKTELAkaLA~~-----Lfg~e~aliR~------DMSE  559 (786)
T COG0542         491 KRVIGQDEAVEAVSDAIRRARAGLGDPNRPIGSFLFLGPTGVGKTELAKALAEA-----LFGDEQALIRI------DMSE  559 (786)
T ss_pred             cceeChHHHHHHHHHHHHHHhcCCCCCCCCceEEEeeCCCcccHHHHHHHHHHH-----hcCCCccceee------chHH
Confidence            5689999988888877753322   12355788999999999999999988863     23   233333      3333


Q ss_pred             HHHH-HHHHhCCCCCCcccHHHHHHHHHHhcCCceE-EEEecCCCCCCccChhHHHHhhccC
Q 036619          258 IAKA-IIEGLGKSASGLNEFQSLMSRIQSSIKGKKN-FLVLDDVWDGDYNKWQPFFRCLKNG  317 (352)
Q Consensus       258 ~~~~-i~~~l~~~~~~~~~~~~~~~~l~~~l~~kr~-LlVlDdvw~~~~~~~~~l~~~l~~~  317 (352)
                      .... -...|-+.+++--..++ -..|-+.++.++| +|.||.+...+++..+.|...|.+|
T Consensus       560 y~EkHsVSrLIGaPPGYVGyee-GG~LTEaVRr~PySViLlDEIEKAHpdV~nilLQVlDdG  620 (786)
T COG0542         560 YMEKHSVSRLIGAPPGYVGYEE-GGQLTEAVRRKPYSVILLDEIEKAHPDVFNLLLQVLDDG  620 (786)
T ss_pred             HHHHHHHHHHhCCCCCCceecc-ccchhHhhhcCCCeEEEechhhhcCHHHHHHHHHHhcCC
Confidence            3322 12233333332111111 2334455567777 8999999887778888888888765

>cd01120 RecA-like_NTPases RecA-like NTPases

Probab=97.36  E-value=0.0017  Score=52.79  Aligned_cols=40  Identities=33%  Similarity=0.360  Sum_probs=30.0

Q ss_pred             EEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCC
Q 036619          213 VISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFD  254 (352)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~  254 (352)
                      ++.|+|.+|+||||++..+....  ...-..++|+.......
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            36799999999999999988743  22345778887766544

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.

>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN

Probab=97.35  E-value=0.0013  Score=58.73  Aligned_cols=110  Identities=15%  Similarity=0.177  Sum_probs=58.8

Q ss_pred             EEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHH------------HHhCCCCC-CcccHHHH
Q 036619          213 VISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAII------------EGLGKSAS-GLNEFQSL  279 (352)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~------------~~l~~~~~-~~~~~~~~  279 (352)
                      -+.|.|++|+|||+||+.+...  ..   .....++++...+...++....            ........ ......  
T Consensus        23 ~vLL~G~~GtGKT~lA~~la~~--lg---~~~~~i~~~~~~~~~dllg~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--   95 (262)
T TIGR02640        23 PVHLRGPAGTGKTTLAMHVARK--RD---RPVMLINGDAELTTSDLVGSYAGYTRKKVHDQFIHNVVKLEDIVRQNWV--   95 (262)
T ss_pred             eEEEEcCCCCCHHHHHHHHHHH--hC---CCEEEEeCCccCCHHHHhhhhcccchhhHHHHHHHHhhhhhcccceeec--
Confidence            4558999999999999999862  22   1244566666555554432210            00000000 000000  


Q ss_pred             HHHHHHhcCCceEEEEecCCCCCCccChhHHHHhhccC----------------CCCcEEEEecCCh
Q 036619          280 MSRIQSSIKGKKNFLVLDDVWDGDYNKWQPFFRCLKNG----------------LHGSKILVTTRNE  330 (352)
Q Consensus       280 ~~~l~~~l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~----------------~~gs~IivTTR~~  330 (352)
                      ...+.... .+...|+||++...+.+.+..|...+..+                .++.+||+|+-..
T Consensus        96 ~g~l~~A~-~~g~~lllDEi~r~~~~~q~~Ll~~Le~~~~~i~~~~~~~~~i~~~~~frvIaTsN~~  161 (262)
T TIGR02640        96 DNRLTLAV-REGFTLVYDEFTRSKPETNNVLLSVFEEGVLELPGKRGTSRYVDVHPEFRVIFTSNPV  161 (262)
T ss_pred             CchHHHHH-HcCCEEEEcchhhCCHHHHHHHHHHhcCCeEEccCCCCCCceEecCCCCEEEEeeCCc
Confidence            00111111 13468999999876666677777766432                1255788887643

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).

>cd03247 ABCC_cytochrome_bd The CYD subfamily implicated in cytochrome bd biogenesis

Probab=97.32  E-value=0.0018  Score=54.11  Aligned_cols=118  Identities=16%  Similarity=0.112  Sum_probs=61.4

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhC---CC------------CCCccc
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLG---KS------------ASGLNE  275 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~---~~------------~~~~~~  275 (352)
                      -.+++|+|..|.|||||++.+..-..   .-...+++.-.   +.......+...++   ..            ....+.
T Consensus        28 Ge~~~i~G~nGsGKStLl~~l~G~~~---~~~G~i~~~g~---~~~~~~~~~~~~i~~~~q~~~~~~~tv~~~i~~~LS~  101 (178)
T cd03247          28 GEKIALLGRSGSGKSTLLQLLTGDLK---PQQGEITLDGV---PVSDLEKALSSLISVLNQRPYLFDTTLRNNLGRRFSG  101 (178)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhccCC---CCCCEEEECCE---EHHHHHHHHHhhEEEEccCCeeecccHHHhhcccCCH
Confidence            35899999999999999999986421   11222222111   11111001111110   00            011111


Q ss_pred             HHHHHHHHHHhcCCceEEEEecCCCCC-CccChhHHHHhhccCCCCcEEEEecCChHHHH
Q 036619          276 FQSLMSRIQSSIKGKKNFLVLDDVWDG-DYNKWQPFFRCLKNGLHGSKILVTTRNESVAR  334 (352)
Q Consensus       276 ~~~~~~~l~~~l~~kr~LlVlDdvw~~-~~~~~~~l~~~l~~~~~gs~IivTTR~~~va~  334 (352)
                      -+...-.|...+-.++-+++||+.-.. |....+.+...+.....+..||++|.+.....
T Consensus       102 G~~qrv~laral~~~p~~lllDEP~~~LD~~~~~~l~~~l~~~~~~~tii~~sh~~~~~~  161 (178)
T cd03247         102 GERQRLALARILLQDAPIVLLDEPTVGLDPITERQLLSLIFEVLKDKTLIWITHHLTGIE  161 (178)
T ss_pred             HHHHHHHHHHHHhcCCCEEEEECCcccCCHHHHHHHHHHHHHHcCCCEEEEEecCHHHHH
Confidence            222223344555667778899988553 32334445555543334677999998887665

The CydC and CydD proteins are important for the formation of cytochrome bd terminal oxidase of E. coli and it has been proposed that they were necessary for biosynthesis of the cytochrome bd quinol oxidase and for periplasmic c-type cytochromes. CydCD were proposed to determine a heterooligomeric complex important for heme export into the periplasm or to be involved in the maintenance of the proper redox state of the periplasmic space. In Bacillus subtilius, the absence of CydCD does not affect the presence of halo-cytochrome c in the membrane and this observation suggests that CydCD proteins are not involved in the export of heme in this organism.

>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=97.32  E-value=0.0002  Score=55.60  Aligned_cols=22  Identities=41%  Similarity=0.480  Sum_probs=20.4

Q ss_pred             EEEEEecCCCcHHHHHHHHHhh
Q 036619          213 VISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      +|.|.|++|+||||+|+.+.+.
T Consensus         1 vI~I~G~~gsGKST~a~~La~~   22 (121)
T PF13207_consen    1 VIIISGPPGSGKSTLAKELAER   22 (121)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            6899999999999999999874

...

>PRK12724 flagellar biosynthesis regulator FlhF; Provisional

Probab=97.29  E-value=0.0025  Score=59.84  Aligned_cols=25  Identities=32%  Similarity=0.296  Sum_probs=21.8

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ...++.++|++|+||||++.++...
T Consensus       222 ~~~vi~lvGptGvGKTTtaaKLA~~  246 (432)
T PRK12724        222 QRKVVFFVGPTGSGKTTSIAKLAAK  246 (432)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHH
Confidence            3578999999999999999888764

>COG2884 FtsE Predicted ATPase involved in cell division [Cell division and chromosome partitioning]

Probab=97.29  E-value=0.0043  Score=51.43  Aligned_cols=63  Identities=16%  Similarity=0.175  Sum_probs=41.5

Q ss_pred             HHHHHHHHHHhcCCceEEEEecCCC-CCCcc-ChhHHHHhhccCCCCcEEEEecCChHHHHHhCC
Q 036619          276 FQSLMSRIQSSIKGKKNFLVLDDVW-DGDYN-KWQPFFRCLKNGLHGSKILVTTRNESVARMMGS  338 (352)
Q Consensus       276 ~~~~~~~l~~~l~~kr~LlVlDdvw-~~~~~-~~~~l~~~l~~~~~gs~IivTTR~~~va~~~~~  338 (352)
                      -++-.-.|...+-++.-+|+-|.-- +-|++ .|+.+.-+-.-+..|..||++|.+.++-..+..
T Consensus       141 GEQQRvaIARAiV~~P~vLlADEPTGNLDp~~s~~im~lfeeinr~GtTVl~ATHd~~lv~~~~~  205 (223)
T COG2884         141 GEQQRVAIARAIVNQPAVLLADEPTGNLDPDLSWEIMRLFEEINRLGTTVLMATHDLELVNRMRH  205 (223)
T ss_pred             hHHHHHHHHHHHccCCCeEeecCCCCCCChHHHHHHHHHHHHHhhcCcEEEEEeccHHHHHhccC
Confidence            3444455666777888888888642 22323 455443333456779999999999998877643

>cd01131 PilT Pilus retraction ATPase PilT

Probab=97.28  E-value=0.00084  Score=57.20  Aligned_cols=111  Identities=14%  Similarity=0.237  Sum_probs=59.4

Q ss_pred             EEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHH-HHHHHHHHHhCCCCCCcccHHHHHHHHHHhcCCc
Q 036619          212 QVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQI-RIAKAIIEGLGKSASGLNEFQSLMSRIQSSIKGK  290 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~-~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~k  290 (352)
                      .++.|+|+.|+||||++..+...  ...+....++. +.++.... .-...++.+.   .. ..+.......++..|...
T Consensus         2 GlilI~GptGSGKTTll~~ll~~--~~~~~~~~i~t-~e~~~E~~~~~~~~~i~q~---~v-g~~~~~~~~~i~~aLr~~   74 (198)
T cd01131           2 GLVLVTGPTGSGKSTTLAAMIDY--INKNKTHHILT-IEDPIEFVHESKRSLINQR---EV-GLDTLSFENALKAALRQD   74 (198)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHH--hhhcCCcEEEE-EcCCccccccCccceeeec---cc-CCCccCHHHHHHHHhcCC
Confidence            47889999999999999887763  33333333332 22221100 0000011110   00 111223455677777666


Q ss_pred             eEEEEecCCCCCCccChhHHHHhhccCCCCcEEEEecCChHHHH
Q 036619          291 KNFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKILVTTRNESVAR  334 (352)
Q Consensus       291 r~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTTR~~~va~  334 (352)
                      .=+|++|.+.+.  +....+....   ..|..|+.|+...+++.
T Consensus        75 pd~ii~gEird~--e~~~~~l~~a---~~G~~v~~t~Ha~~~~~  113 (198)
T cd01131          75 PDVILVGEMRDL--ETIRLALTAA---ETGHLVMSTLHTNSAAK  113 (198)
T ss_pred             cCEEEEcCCCCH--HHHHHHHHHH---HcCCEEEEEecCCcHHH
Confidence            779999999543  3333333332   34666888888766554

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.

>cd01394 radB RadB

Probab=97.28  E-value=0.0013  Score=56.90  Aligned_cols=88  Identities=17%  Similarity=0.140  Sum_probs=51.4

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHh----CCC--CCCcccH---HHH
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGL----GKS--ASGLNEF---QSL  279 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l----~~~--~~~~~~~---~~~  279 (352)
                      ..-.++.|.|.+|+|||||+.++....  ...-..++|+.....+.  .-+.+++...    ...  .....+.   ...
T Consensus        17 ~~g~i~~i~G~~GsGKT~l~~~~a~~~--~~~g~~v~yi~~e~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   92 (218)
T cd01394          17 ERGTVTQVYGPPGTGKTNIAIQLAVET--AGQGKKVAYIDTEGLSS--ERFRQIAGDRPERAASSIIVFEPMDFNEQGRA   92 (218)
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHHHH--HhcCCeEEEEECCCCCH--HHHHHHHhHChHhhhcCEEEEeCCCHHHHHHH
Confidence            446899999999999999998887642  22334677887665554  2333333321    100  0011222   223


Q ss_pred             HHHHHHhcCCceEEEEecCCC
Q 036619          280 MSRIQSSIKGKKNFLVLDDVW  300 (352)
Q Consensus       280 ~~~l~~~l~~kr~LlVlDdvw  300 (352)
                      ...+...+..+.-+||+|.+-
T Consensus        93 ~~~~~~~~~~~~~lvvIDsi~  113 (218)
T cd01394          93 IQETETFADEKVDLVVVDSAT  113 (218)
T ss_pred             HHHHHHHHhcCCcEEEEechH
Confidence            344555555456699999984

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

>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=97.24  E-value=0.002  Score=54.70  Aligned_cols=55  Identities=31%  Similarity=0.326  Sum_probs=33.5

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCC-CCHHHHHHHHHHHhC
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDT-FDQIRIAKAIIEGLG  267 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~-~~~~~~~~~i~~~l~  267 (352)
                      ++|+.+||+.|+||||.+-++......+  -..+..++.... ....+-++...+.++
T Consensus         1 p~vi~lvGptGvGKTTt~aKLAa~~~~~--~~~v~lis~D~~R~ga~eQL~~~a~~l~   56 (196)
T PF00448_consen    1 PKVIALVGPTGVGKTTTIAKLAARLKLK--GKKVALISADTYRIGAVEQLKTYAEILG   56 (196)
T ss_dssp             SEEEEEEESTTSSHHHHHHHHHHHHHHT--T--EEEEEESTSSTHHHHHHHHHHHHHT
T ss_pred             CEEEEEECCCCCchHhHHHHHHHHHhhc--cccceeecCCCCCccHHHHHHHHHHHhc
Confidence            4799999999999999997777654333  334566665332 223344444455444

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 ....

>PLN03187 meiotic recombination protein DMC1 homolog; Provisional

Probab=97.23  E-value=0.0026  Score=58.64  Aligned_cols=91  Identities=21%  Similarity=0.245  Sum_probs=58.2

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHhhhhhh---c-cCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCC---------Cccc
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYNNDEVK---R-NFEKVIWVCVSDTFDQIRIAKAIIEGLGKSAS---------GLNE  275 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~---~-~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~---------~~~~  275 (352)
                      +.-++.-|+|.+|+|||+|+..++-.....   . .-..++||.....|+..++.+ +++.++....         ...+
T Consensus       124 ~~G~ItEI~G~~GsGKTql~lqlav~~qlp~~~gg~~~~vvyIdTE~tF~peRl~~-ia~~~g~d~~~~l~~I~~~~~~~  202 (344)
T PLN03187        124 ETRCITEAFGEFRSGKTQLAHTLCVTTQLPTEMGGGNGKVAYIDTEGTFRPDRIVP-IAERFGMDADAVLDNIIYARAYT  202 (344)
T ss_pred             CCCeEEEEecCCCCChhHHHHHHHHHHhcchhhCCCCceEEEEEcCCCCCHHHHHH-HHHHcCCChhhhcCeEEEecCCC
Confidence            446888899999999999997775432221   1 124789999999999888754 5666654321         1123


Q ss_pred             HHHH---HHHHHHhcC-CceEEEEecCCC
Q 036619          276 FQSL---MSRIQSSIK-GKKNFLVLDDVW  300 (352)
Q Consensus       276 ~~~~---~~~l~~~l~-~kr~LlVlDdvw  300 (352)
                      .+.+   ...+...+. .+--|||+|.+-
T Consensus       203 ~e~~~~~l~~l~~~i~~~~~~LvVIDSit  231 (344)
T PLN03187        203 YEHQYNLLLGLAAKMAEEPFRLLIVDSVI  231 (344)
T ss_pred             HHHHHHHHHHHHHHHHhcCCCEEEEeCcH
Confidence            3332   333333343 344589999984

>cd03214 ABC_Iron-Siderophores_B12_Hemin ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea

Probab=97.23  E-value=0.0048  Score=51.62  Aligned_cols=121  Identities=15%  Similarity=0.193  Sum_probs=66.8

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEE---eCCCCCHHHH------HHHHHHHhCCCC------CCccc
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVC---VSDTFDQIRI------AKAIIEGLGKSA------SGLNE  275 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~---vs~~~~~~~~------~~~i~~~l~~~~------~~~~~  275 (352)
                      -.+++|+|..|.|||||.+.++...   ......+++.   +. ..+....      ..++++.++...      ...+.
T Consensus        25 G~~~~l~G~nGsGKStLl~~i~G~~---~~~~G~v~~~g~~~~-~~~~~~~~~~i~~~~q~l~~~gl~~~~~~~~~~LS~  100 (180)
T cd03214          25 GEIVGILGPNGAGKSTLLKTLAGLL---KPSSGEILLDGKDLA-SLSPKELARKIAYVPQALELLGLAHLADRPFNELSG  100 (180)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCC---CCCCcEEEECCEECC-cCCHHHHHHHHhHHHHHHHHcCCHhHhcCCcccCCH
Confidence            4689999999999999999998742   2233333332   22 1122221      112344443321      11222


Q ss_pred             HHHHHHHHHHhcCCceEEEEecCCCCC-CccChhHHHHhhccC-CC-CcEEEEecCChHHHHH
Q 036619          276 FQSLMSRIQSSIKGKKNFLVLDDVWDG-DYNKWQPFFRCLKNG-LH-GSKILVTTRNESVARM  335 (352)
Q Consensus       276 ~~~~~~~l~~~l~~kr~LlVlDdvw~~-~~~~~~~l~~~l~~~-~~-gs~IivTTR~~~va~~  335 (352)
                      -+.-.-.+...+-..+-++++|+.-.. |......+...+... .. |..||++|.+.+....
T Consensus       101 G~~qrl~laral~~~p~llllDEP~~~LD~~~~~~~~~~l~~~~~~~~~tiii~sh~~~~~~~  163 (180)
T cd03214         101 GERQRVLLARALAQEPPILLLDEPTSHLDIAHQIELLELLRRLARERGKTVVMVLHDLNLAAR  163 (180)
T ss_pred             HHHHHHHHHHHHhcCCCEEEEeCCccCCCHHHHHHHHHHHHHHHHhcCCEEEEEeCCHHHHHH
Confidence            222233345556667788889987442 333455555555432 22 6678889888765543

Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC transporter mediating vitamin B12 uptake. The two ATP-binding cassettes (BtuD) are in close contact with each other, as are the two membrane-spanning subunits (BtuC); this arrangement is distinct from that observed for the E. coli lipid flippase MsbA. The BtuC subunits provide 20 transmembrane helices grouped around a translocation pathway that is closed to the cytoplasm by a gate region, whereas the dimer arrangement of the BtuD subunits resembles the ATP-bound form of the Rad50 DNA repair enzyme. A prominent cytoplasmic loop of BtuC forms the contact region with the ATP-binding cassette and represent a conserved motif among the ABC transporters.

>TIGR03499 FlhF flagellar biosynthetic protein FlhF

Probab=97.23  E-value=0.0024  Score=57.58  Aligned_cols=88  Identities=20%  Similarity=0.224  Sum_probs=46.6

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCC-CHHHHHHHHHHHhCCCCCCcccHHHHHHHHHHhcC
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTF-DQIRIAKAIIEGLGKSASGLNEFQSLMSRIQSSIK  288 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~-~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~  288 (352)
                      ...++.|+|++|+||||++..+......+..-..+..|+..... .....+....+.++.......+...+...+... .
T Consensus       193 ~~~vi~~vGptGvGKTTt~~kLa~~~~~~~g~~~V~li~~D~~r~~a~eql~~~~~~~~~p~~~~~~~~~l~~~l~~~-~  271 (282)
T TIGR03499       193 QGGVIALVGPTGVGKTTTLAKLAARFVLEHGNKKVALITTDTYRIGAVEQLKTYAKILGVPVKVARDPKELRKALDRL-R  271 (282)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHHcCCCeEEEEECCccchhHHHHHHHHHHHhCCceeccCCHHHHHHHHHHc-c
Confidence            46799999999999999998887653333111245555544311 122233333333333322223344444444433 3


Q ss_pred             CceEEEEecCC
Q 036619          289 GKKNFLVLDDV  299 (352)
Q Consensus       289 ~kr~LlVlDdv  299 (352)
                      + .=+|++|..
T Consensus       272 ~-~d~vliDt~  281 (282)
T TIGR03499       272 D-KDLILIDTA  281 (282)
T ss_pred             C-CCEEEEeCC
Confidence            3 346777753

>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=97.21  E-value=0.0023  Score=53.37  Aligned_cols=122  Identities=17%  Similarity=0.271  Sum_probs=64.9

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhhh-hh--hc---cCC--eEEEEEeCCCCCHHHHHHHHHHHhCCCCC-------Cccc
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNND-EV--KR---NFE--KVIWVCVSDTFDQIRIAKAIIEGLGKSAS-------GLNE  275 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~-~~--~~---~F~--~~~wv~vs~~~~~~~~~~~i~~~l~~~~~-------~~~~  275 (352)
                      -.+++|+|+.|+|||||.+.+..+. .+  ..   .|.  .+.|  +.+        .+.++.++....       ..+.
T Consensus        21 G~~~~l~G~nG~GKSTLl~~il~~~G~v~~~~~~~~~~~~~~~~--~~q--------~~~l~~~~L~~~~~~~~~~~LSg   90 (176)
T cd03238          21 NVLVVVTGVSGSGKSTLVNEGLYASGKARLISFLPKFSRNKLIF--IDQ--------LQFLIDVGLGYLTLGQKLSTLSG   90 (176)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhhcCCcEEECCcccccccccEEE--EhH--------HHHHHHcCCCccccCCCcCcCCH
Confidence            4689999999999999999886321 11  10   111  1222  222        345555553211       1111


Q ss_pred             HHHHHHHHHHhcCCc--eEEEEecCCCCC-CccChhHHHHhhccC-CCCcEEEEecCChHHHHHhCCCCeeeC
Q 036619          276 FQSLMSRIQSSIKGK--KNFLVLDDVWDG-DYNKWQPFFRCLKNG-LHGSKILVTTRNESVARMMGSTDIISI  344 (352)
Q Consensus       276 ~~~~~~~l~~~l~~k--r~LlVlDdvw~~-~~~~~~~l~~~l~~~-~~gs~IivTTR~~~va~~~~~~~~~~l  344 (352)
                      -+...-.+...+-.+  .-+++||..-.. +......+...+... ..|..||++|.+.+....  +..++.+
T Consensus        91 Gq~qrl~laral~~~~~p~llLlDEPt~~LD~~~~~~l~~~l~~~~~~g~tvIivSH~~~~~~~--~d~i~~l  161 (176)
T cd03238          91 GELQRVKLASELFSEPPGTLFILDEPSTGLHQQDINQLLEVIKGLIDLGNTVILIEHNLDVLSS--ADWIIDF  161 (176)
T ss_pred             HHHHHHHHHHHHhhCCCCCEEEEeCCcccCCHHHHHHHHHHHHHHHhCCCEEEEEeCCHHHHHh--CCEEEEE
Confidence            222223344444445  667788987442 333344455555432 246679999998877643  3444444

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.

>COG1136 SalX ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]

Probab=97.20  E-value=0.0056  Score=52.71  Aligned_cols=60  Identities=15%  Similarity=0.212  Sum_probs=39.2

Q ss_pred             HHHHHHHHHhcCCceEEEEecCC-CCCCccChhHHHHhhccC--CCCcEEEEecCChHHHHHh
Q 036619          277 QSLMSRIQSSIKGKKNFLVLDDV-WDGDYNKWQPFFRCLKNG--LHGSKILVTTRNESVARMM  336 (352)
Q Consensus       277 ~~~~~~l~~~l~~kr~LlVlDdv-w~~~~~~~~~l~~~l~~~--~~gs~IivTTR~~~va~~~  336 (352)
                      ++-.-.+.+.|-..+-+|+.|.- .+-|.+.-+.+...|...  ..|..||+.|.++.+|..+
T Consensus       147 qqQRVAIARAL~~~P~iilADEPTgnLD~~t~~~V~~ll~~~~~~~g~tii~VTHd~~lA~~~  209 (226)
T COG1136         147 QQQRVAIARALINNPKIILADEPTGNLDSKTAKEVLELLRELNKERGKTIIMVTHDPELAKYA  209 (226)
T ss_pred             HHHHHHHHHHHhcCCCeEEeeCccccCChHHHHHHHHHHHHHHHhcCCEEEEEcCCHHHHHhC
Confidence            44344566677777778888864 222333444555555532  3477899999999999864

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

Probab=97.20  E-value=0.0016  Score=59.33  Aligned_cols=85  Identities=22%  Similarity=0.277  Sum_probs=55.6

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCCC-----CCcccHHHHHHHH
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSA-----SGLNEFQSLMSRI  283 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~-----~~~~~~~~~~~~l  283 (352)
                      +.-+++-|+|++|+||||||.+++..  ....-..++||.....++..     .++.++...     ....+.++....+
T Consensus        53 p~G~iteI~Gp~GsGKTtLal~~~~~--~~~~g~~~vyId~E~~~~~~-----~a~~lGvd~~~l~v~~p~~~eq~l~i~  125 (325)
T cd00983          53 PKGRIIEIYGPESSGKTTLALHAIAE--AQKLGGTVAFIDAEHALDPV-----YAKKLGVDLDNLLISQPDTGEQALEIA  125 (325)
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHHH--HHHcCCCEEEECccccHHHH-----HHHHcCCCHHHheecCCCCHHHHHHHH
Confidence            45678899999999999999877653  22334578899887776653     234443321     1122355556666


Q ss_pred             HHhcC-CceEEEEecCCC
Q 036619          284 QSSIK-GKKNFLVLDDVW  300 (352)
Q Consensus       284 ~~~l~-~kr~LlVlDdvw  300 (352)
                      ...++ +.--|||+|.|-
T Consensus       126 ~~li~s~~~~lIVIDSva  143 (325)
T cd00983         126 DSLVRSGAVDLIVVDSVA  143 (325)
T ss_pred             HHHHhccCCCEEEEcchH
Confidence            55554 455699999974

RecA couples ATP hydrolysis to DNA strand exchange.

>cd03223 ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cassette transporter (Pat) is involved in the import of very long-chain fatty acids (VLCFA) into the peroxisome

Probab=97.20  E-value=0.0044  Score=51.15  Aligned_cols=125  Identities=13%  Similarity=0.142  Sum_probs=65.8

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhhhhhh-cc--CC---eEEEEEeCCCCCH--HHHHHHHHHHhCCCCCCcccHHHHHHH
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNNDEVK-RN--FE---KVIWVCVSDTFDQ--IRIAKAIIEGLGKSASGLNEFQSLMSR  282 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~-~~--F~---~~~wv~vs~~~~~--~~~~~~i~~~l~~~~~~~~~~~~~~~~  282 (352)
                      -.+++|+|..|.|||||++.+..-.... ..  |+   .+.+  +.+....  ..+...+.-.   .....+.-+...-.
T Consensus        27 Ge~~~i~G~nGsGKSTLl~~l~G~~~~~~G~i~~~~~~~i~~--~~q~~~~~~~tv~~nl~~~---~~~~LS~G~~~rv~  101 (166)
T cd03223          27 GDRLLITGPSGTGKSSLFRALAGLWPWGSGRIGMPEGEDLLF--LPQRPYLPLGTLREQLIYP---WDDVLSGGEQQRLA  101 (166)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCCCCCCceEEECCCceEEE--ECCCCccccccHHHHhhcc---CCCCCCHHHHHHHH
Confidence            4589999999999999999998742211 10  11   1222  2333211  1333333211   11222222333334


Q ss_pred             HHHhcCCceEEEEecCCCCC-CccChhHHHHhhccCCCCcEEEEecCChHHHHHhCCCCeeeC
Q 036619          283 IQSSIKGKKNFLVLDDVWDG-DYNKWQPFFRCLKNGLHGSKILVTTRNESVARMMGSTDIISI  344 (352)
Q Consensus       283 l~~~l~~kr~LlVlDdvw~~-~~~~~~~l~~~l~~~~~gs~IivTTR~~~va~~~~~~~~~~l  344 (352)
                      +...+-.++=+++||+--.. |......+...+...  +..||++|.+......  +.+++.+
T Consensus       102 laral~~~p~~lllDEPt~~LD~~~~~~l~~~l~~~--~~tiiivsh~~~~~~~--~d~i~~l  160 (166)
T cd03223         102 FARLLLHKPKFVFLDEATSALDEESEDRLYQLLKEL--GITVISVGHRPSLWKF--HDRVLDL  160 (166)
T ss_pred             HHHHHHcCCCEEEEECCccccCHHHHHHHHHHHHHh--CCEEEEEeCChhHHhh--CCEEEEE
Confidence            44555566677888886442 333444555555543  4568888888776542  3344443

The peroxisomal membrane forms a permeability barrier for a wide variety of metabolites required for and formed during fatty acid beta-oxidation. To communicate with the cytoplasm and mitochondria, peroxisomes need dedicated proteins to transport such hydrophilic molecules across their membranes. X-linked adrenoleukodystrophy (X-ALD) is caused by mutations in the ALD gene, which encodes ALDP (adrenoleukodystrophy protein ), a peroxisomal integral membrane protein that is a member of the ATP-binding cassette (ABC) transporter protein family. The disease is characterized by a striking and unpredictable variation in phenotypic expression. Phenotypes include the rapidly progressive childhood cerebral form (CCALD), the milder adult form, adrenomyeloneuropathy (AMN), and variants without neurologic involvement (i.e. asympt

>cd03228 ABCC_MRP_Like The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export

Probab=97.19  E-value=0.0028  Score=52.60  Aligned_cols=128  Identities=20%  Similarity=0.205  Sum_probs=65.2

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCC--CCCHHHHHHHHHHHhCCCCC--C-------cccHHHH
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSD--TFDQIRIAKAIIEGLGKSAS--G-------LNEFQSL  279 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~--~~~~~~~~~~i~~~l~~~~~--~-------~~~~~~~  279 (352)
                      -.+++|+|+.|.|||||.+.++.-.   ......+++.-..  ....... ...+..+.....  .       .+.-+.-
T Consensus        28 G~~~~l~G~nGsGKstLl~~i~G~~---~~~~G~i~~~g~~~~~~~~~~~-~~~i~~~~~~~~~~~~t~~e~lLS~G~~~  103 (171)
T cd03228          28 GEKVAIVGPSGSGKSTLLKLLLRLY---DPTSGEILIDGVDLRDLDLESL-RKNIAYVPQDPFLFSGTIRENILSGGQRQ  103 (171)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHcCC---CCCCCEEEECCEEhhhcCHHHH-HhhEEEEcCCchhccchHHHHhhCHHHHH
Confidence            4689999999999999999998742   2222333332110  0011111 000000000000  0       1111222


Q ss_pred             HHHHHHhcCCceEEEEecCCCCC-CccChhHHHHhhccCCCCcEEEEecCChHHHHHhCCCCeeeC
Q 036619          280 MSRIQSSIKGKKNFLVLDDVWDG-DYNKWQPFFRCLKNGLHGSKILVTTRNESVARMMGSTDIISI  344 (352)
Q Consensus       280 ~~~l~~~l~~kr~LlVlDdvw~~-~~~~~~~l~~~l~~~~~gs~IivTTR~~~va~~~~~~~~~~l  344 (352)
                      .-.|...+-.+.-+++||+--.. |......+...+.....+..||++|.+.+....  +.+++.+
T Consensus       104 rl~la~al~~~p~llllDEP~~gLD~~~~~~l~~~l~~~~~~~tii~~sh~~~~~~~--~d~~~~l  167 (171)
T cd03228         104 RIAIARALLRDPPILILDEATSALDPETEALILEALRALAKGKTVIVIAHRLSTIRD--ADRIIVL  167 (171)
T ss_pred             HHHHHHHHhcCCCEEEEECCCcCCCHHHHHHHHHHHHHhcCCCEEEEEecCHHHHHh--CCEEEEE
Confidence            22344555667779999997543 323344555555433335678899988877654  3444443

They belong to the subfamily C of the ATP-binding cassette (ABC) superfamily of transport proteins. The ABCC subfamily contains transporters with a diverse functional spectrum that includes ion transport, cell surface receptor, and toxin secretion activities. The MRP-like family, simlar to all ABC proteins, have a common four-domain core structure constituted by two membrane-spanning domains, each composed of six transmembrane (TM) helices, and two nucleotide-binding domains (NBD). ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03281 ABC_MSH5_euk MutS5 homolog in eukaryotes

Probab=97.19  E-value=0.0013  Score=56.76  Aligned_cols=121  Identities=11%  Similarity=0.162  Sum_probs=60.8

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCC---CcccHHHHHHHHHHh-
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSAS---GLNEFQSLMSRIQSS-  286 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~---~~~~~~~~~~~l~~~-  286 (352)
                      .+++.|+|+.|.|||||.+.+...... .+-.+..|.  .. .. ...+.++...+.....   ..+....-...+... 
T Consensus        29 ~~~~~itGpNg~GKStlLk~i~~~~~l-a~~G~~v~a--~~-~~-~~~~d~i~~~l~~~~si~~~~S~f~~el~~l~~~l  103 (213)
T cd03281          29 PSIMVITGPNSSGKSVYLKQVALIVFL-AHIGSFVPA--DS-AT-IGLVDKIFTRMSSRESVSSGQSAFMIDLYQVSKAL  103 (213)
T ss_pred             ceEEEEECCCCCChHHHHHHHHHHHHH-HhCCCeeEc--CC-cE-EeeeeeeeeeeCCccChhhccchHHHHHHHHHHHH
Confidence            478889999999999999988743211 111122221  11 00 0112222222222211   111111111222222 


Q ss_pred             -cCCceEEEEecCCCCCCc-cChhH----HHHhhccC-CCCcEEEEecCChHHHHHh
Q 036619          287 -IKGKKNFLVLDDVWDGDY-NKWQP----FFRCLKNG-LHGSKILVTTRNESVARMM  336 (352)
Q Consensus       287 -l~~kr~LlVlDdvw~~~~-~~~~~----l~~~l~~~-~~gs~IivTTR~~~va~~~  336 (352)
                       +..++-|++||..-.... .+...    +...+... ..+..+|+||.+.+++...
T Consensus       104 ~~~~~~slvllDE~~~gtd~~~~~~~~~ail~~l~~~~~~~~~vli~TH~~~l~~~~  160 (213)
T cd03281         104 RLATRRSLVLIDEFGKGTDTEDGAGLLIATIEHLLKRGPECPRVIVSTHFHELFNRS  160 (213)
T ss_pred             HhCCCCcEEEeccccCCCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEcChHHHHHhh
Confidence             246789999999866421 12112    22223222 2345799999999888765

The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal domain with a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding c

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

Probab=97.17  E-value=0.0014  Score=64.50  Aligned_cols=89  Identities=19%  Similarity=0.230  Sum_probs=60.5

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCcccHHHHHHHHHHhcC
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSASGLNEFQSLMSRIQSSIK  288 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~  288 (352)
                      +.-+++.++|++|+||||||..+..+..    | .++=|++|+.-+...+-..|...+.....-..             .
T Consensus       324 P~kKilLL~GppGlGKTTLAHViAkqaG----Y-sVvEINASDeRt~~~v~~kI~~avq~~s~l~a-------------d  385 (877)
T KOG1969|consen  324 PPKKILLLCGPPGLGKTTLAHVIAKQAG----Y-SVVEINASDERTAPMVKEKIENAVQNHSVLDA-------------D  385 (877)
T ss_pred             CccceEEeecCCCCChhHHHHHHHHhcC----c-eEEEecccccccHHHHHHHHHHHHhhcccccc-------------C
Confidence            4568999999999999999999997532    2 36678888887777776666665543221100             2


Q ss_pred             CceEEEEecCCCCCCccChhHHHHhhc
Q 036619          289 GKKNFLVLDDVWDGDYNKWQPFFRCLK  315 (352)
Q Consensus       289 ~kr~LlVlDdvw~~~~~~~~~l~~~l~  315 (352)
                      ++...||+|.+.-......+.|.+.+.
T Consensus       386 srP~CLViDEIDGa~~~~Vdvilslv~  412 (877)
T KOG1969|consen  386 SRPVCLVIDEIDGAPRAAVDVILSLVK  412 (877)
T ss_pred             CCcceEEEecccCCcHHHHHHHHHHHH
Confidence            577789999996653223455555554

>PRK06871 DNA polymerase III subunit delta'; Validated

Probab=97.17  E-value=0.0043  Score=56.76  Aligned_cols=147  Identities=8%  Similarity=0.046  Sum_probs=82.2

Q ss_pred             HHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCC---
Q 036619          193 KSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKS---  269 (352)
Q Consensus       193 ~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~---  269 (352)
                      .+.|.+.+....     -...+.+.|+.|+||+++|+.+...--..+...       ...++.-...+.+...-.+.   
T Consensus        11 ~~~l~~~~~~~r-----l~HA~Lf~G~~G~GK~~lA~~~A~~llC~~~~~-------~~~Cg~C~sC~~~~~g~HPD~~~   78 (325)
T PRK06871         11 YQQITQAFQQGL-----GHHALLFKADSGLGTEQLIRALAQWLMCQTPQG-------DQPCGQCHSCHLFQAGNHPDFHI   78 (325)
T ss_pred             HHHHHHHHHcCC-----cceeEEeECCCCCCHHHHHHHHHHHHcCCCCCC-------CCCCCCCHHHHHHhcCCCCCEEE
Confidence            345555554322     246777999999999999988876422211110       00111111111111111000   


Q ss_pred             --C--CCcccHHHHH---HHHHHh-cCCceEEEEecCCCCCCccChhHHHHhhccCCCCcEEEEecCCh-HHHHHhCC-C
Q 036619          270 --A--SGLNEFQSLM---SRIQSS-IKGKKNFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKILVTTRNE-SVARMMGS-T  339 (352)
Q Consensus       270 --~--~~~~~~~~~~---~~l~~~-l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTTR~~-~va~~~~~-~  339 (352)
                        +  ...-..+++.   +.+... ..+++-++|+|++...+....+.|+..+..-..++.+|++|.+. .+...+-+ .
T Consensus        79 i~p~~~~~I~id~iR~l~~~~~~~~~~g~~KV~iI~~a~~m~~~AaNaLLKtLEEPp~~~~fiL~t~~~~~llpTI~SRC  158 (325)
T PRK06871         79 LEPIDNKDIGVDQVREINEKVSQHAQQGGNKVVYIQGAERLTEAAANALLKTLEEPRPNTYFLLQADLSAALLPTIYSRC  158 (325)
T ss_pred             EccccCCCCCHHHHHHHHHHHhhccccCCceEEEEechhhhCHHHHHHHHHHhcCCCCCeEEEEEECChHhCchHHHhhc
Confidence              0  0011233322   222221 24666788999999988788999999998877778777777654 55544433 5


Q ss_pred             CeeeCCCCCCCc
Q 036619          340 DIISIEQLAEEE  351 (352)
Q Consensus       340 ~~~~l~~L~~~e  351 (352)
                      ..+++.++++++
T Consensus       159 ~~~~~~~~~~~~  170 (325)
T PRK06871        159 QTWLIHPPEEQQ  170 (325)
T ss_pred             eEEeCCCCCHHH
Confidence            678888887654

>cd00561 CobA_CobO_BtuR ATP:corrinoid adenosyltransferase BtuR/CobO/CobP

Probab=97.17  E-value=0.0046  Score=50.37  Aligned_cols=117  Identities=15%  Similarity=0.188  Sum_probs=64.9

Q ss_pred             EEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCC---CCCHHHHHHHHHHHh-----CCC----CCC-ccc---
Q 036619          212 QVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSD---TFDQIRIAKAIIEGL-----GKS----ASG-LNE---  275 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~---~~~~~~~~~~i~~~l-----~~~----~~~-~~~---  275 (352)
                      ..|-|++..|.||||+|--..-. .....+ .+.++-.-+   ......+++.+- .+     +..    ... ..+   
T Consensus         3 G~i~vy~g~G~Gkt~~a~g~~~r-a~~~g~-~v~~vQFlKg~~~~gE~~~l~~l~-~v~~~~~g~~~~~~~~~~~~~~~~   79 (159)
T cd00561           3 GLIQVYTGNGKGKTTAALGLALR-ALGHGY-RVGVVQFLKGGWKYGELKALERLP-NIEIHRMGRGFFWTTENDEEDIAA   79 (159)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHH-HHHCCC-eEEEEEEeCCCCccCHHHHHHhCC-CcEEEECCCCCccCCCChHHHHHH
Confidence            46778888899999999666543 122233 344433322   233333333330 00     000    000 011   


Q ss_pred             HHHHHHHHHHhcCCceE-EEEecCCCCC---CccChhHHHHhhccCCCCcEEEEecCChH
Q 036619          276 FQSLMSRIQSSIKGKKN-FLVLDDVWDG---DYNKWQPFFRCLKNGLHGSKILVTTRNES  331 (352)
Q Consensus       276 ~~~~~~~l~~~l~~kr~-LlVlDdvw~~---~~~~~~~l~~~l~~~~~gs~IivTTR~~~  331 (352)
                      ........++.+....| |||||++-..   ..-..+.+...+.....+.-||+|.|+..
T Consensus        80 a~~~~~~a~~~~~~~~~dLlVLDEi~~a~~~gli~~~~v~~ll~~rp~~~evIlTGr~~p  139 (159)
T cd00561          80 AAEGWAFAKEAIASGEYDLVILDEINYALGYGLLDVEEVVDLLKAKPEDLELVLTGRNAP  139 (159)
T ss_pred             HHHHHHHHHHHHhcCCCCEEEEechHhHhhCCCCCHHHHHHHHHcCCCCCEEEEECCCCC
Confidence            12233444555555444 9999998432   22456778888877777778999999853

This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer, which catalyzes the adenosylation reaction: ATP + cob(I)alamin + H2O <= phosphate + diphosphate + adenosylcobalamin.

>TIGR02239 recomb_RAD51 DNA repair protein RAD51

Probab=97.16  E-value=0.0042  Score=56.86  Aligned_cols=91  Identities=18%  Similarity=0.210  Sum_probs=56.7

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHhhhhhhc----cCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCC---------Cccc
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYNNDEVKR----NFEKVIWVCVSDTFDQIRIAKAIIEGLGKSAS---------GLNE  275 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~----~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~---------~~~~  275 (352)
                      +.-.++-|+|.+|+|||||+..++.......    .-..++|+.....++..++ .++.+.++....         ...+
T Consensus        94 ~~g~i~~i~G~~g~GKT~l~~~~~~~~~~~~~~Gg~~~~vvyIdtE~~f~~~Rl-~~ia~~~~~~~~~~l~~i~~~~~~~  172 (316)
T TIGR02239        94 ETGSITEIFGEFRTGKTQLCHTLAVTCQLPIDQGGGEGKALYIDTEGTFRPERL-LAIAERYGLNPEDVLDNVAYARAYN  172 (316)
T ss_pred             CCCeEEEEECCCCCCcCHHHHHHHHHHhhhhhcCCCCceEEEEECCCCCCHHHH-HHHHHHcCCChHHhhccEEEEecCC
Confidence            4578999999999999999988775322211    1236799998888887764 445555543321         1122


Q ss_pred             HHH---HHHHHHHhcC-CceEEEEecCCC
Q 036619          276 FQS---LMSRIQSSIK-GKKNFLVLDDVW  300 (352)
Q Consensus       276 ~~~---~~~~l~~~l~-~kr~LlVlDdvw  300 (352)
                      .++   +...+...+. .+--|||+|.+-
T Consensus       173 ~~~~~~~l~~~~~~~~~~~~~LvVIDSI~  201 (316)
T TIGR02239       173 TDHQLQLLQQAAAMMSESRFALLIVDSAT  201 (316)
T ss_pred             hHHHHHHHHHHHHhhccCCccEEEEECcH
Confidence            333   3333334343 455699999984

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).

>PLN03186 DNA repair protein RAD51 homolog; Provisional

Probab=97.15  E-value=0.0034  Score=57.92  Aligned_cols=91  Identities=15%  Similarity=0.171  Sum_probs=58.3

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHhhhhhhc----cCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCC---------Cccc
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYNNDEVKR----NFEKVIWVCVSDTFDQIRIAKAIIEGLGKSAS---------GLNE  275 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~----~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~---------~~~~  275 (352)
                      ..-.++-|+|.+|+|||+|+..++-......    .-..++||+....|+.+++. +|++.++....         ...+
T Consensus       121 ~~g~i~~i~G~~g~GKT~l~~~l~~~~~~~~~~gg~~g~vlyIdtE~~f~~eRl~-qia~~~~~~~~~~l~~i~~~~~~~  199 (342)
T PLN03186        121 ETGSITEIYGEFRTGKTQLCHTLCVTCQLPLDQGGGEGKAMYIDTEGTFRPQRLI-QIAERFGLNGADVLENVAYARAYN  199 (342)
T ss_pred             cCceEEEEECCCCCCccHHHHHHHHHhhcchhhCCCCceEEEEECCCCccHHHHH-HHHHHcCCChhhhccceEEEecCC
Confidence            4468888999999999999977764322211    12379999999999988764 55666654321         1123


Q ss_pred             HHHHH---HHHHHhc-CCceEEEEecCCC
Q 036619          276 FQSLM---SRIQSSI-KGKKNFLVLDDVW  300 (352)
Q Consensus       276 ~~~~~---~~l~~~l-~~kr~LlVlDdvw  300 (352)
                      .+.+.   ..+...+ ..+--|||+|.+-
T Consensus       200 ~e~~~~ll~~~~~~~~~~~~~LIVIDSI~  228 (342)
T PLN03186        200 TDHQSELLLEAASMMAETRFALMIVDSAT  228 (342)
T ss_pred             HHHHHHHHHHHHHHhhccCCCEEEEeCcH
Confidence            33333   3333333 3455699999984

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

Probab=97.15  E-value=0.00081  Score=63.44  Aligned_cols=51  Identities=22%  Similarity=0.180  Sum_probs=36.2

Q ss_pred             CccccccchHHHHHHHHcC----ccc---cCCCCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          184 GEVCGRVDEKSELFSKLLC----ESS---EQQNGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~----~~~---~~~~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .++.|.+..+++|.+.+..    ++-   -+-..++-+.++|++|+|||+||+.+.+.
T Consensus       145 ~digGl~~~k~~l~~~v~~pl~~~~~~~~~Gl~~pkgvLL~GppGTGKT~LAkalA~~  202 (398)
T PTZ00454        145 SDIGGLDIQKQEIREAVELPLTCPELYEQIGIDPPRGVLLYGPPGTGKTMLAKAVAHH  202 (398)
T ss_pred             HHcCCHHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHh
Confidence            4678888888877765531    110   01123567889999999999999999984

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

Probab=97.15  E-value=0.0004  Score=60.91  Aligned_cols=50  Identities=30%  Similarity=0.396  Sum_probs=39.9

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .+|+|.++-+++|.-++..... ....+-.+.++|++|.||||||..+.+.
T Consensus        26 ~efiGQ~~vk~~L~ifI~AAk~-r~e~lDHvLl~GPPGlGKTTLA~IIA~E   75 (332)
T COG2255          26 DEFIGQEKVKEQLQIFIKAAKK-RGEALDHVLLFGPPGLGKTTLAHIIANE   75 (332)
T ss_pred             HHhcChHHHHHHHHHHHHHHHh-cCCCcCeEEeeCCCCCcHHHHHHHHHHH
Confidence            4699998888887666643322 3466889999999999999999999985

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

Probab=97.14  E-value=0.0035  Score=55.65  Aligned_cols=87  Identities=18%  Similarity=0.166  Sum_probs=53.0

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhhhhhhccC-CeEEEEEeCCCCC-HHHHHHHHHHHhCCC-------CCCcccH-----
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNNDEVKRNF-EKVIWVCVSDTFD-QIRIAKAIIEGLGKS-------ASGLNEF-----  276 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F-~~~~wv~vs~~~~-~~~~~~~i~~~l~~~-------~~~~~~~-----  276 (352)
                      -.-++|+|..|+|||||++.+++.  +..+| +.++++-+.+... +..+.+++...-...       ..+..-.     
T Consensus        69 GQr~~If~~~G~GKTtLa~~i~~~--i~~~~~~~~V~~~iGer~~Ev~e~~~~~~~~~~~~~tvvv~~t~d~~~~~r~~~  146 (274)
T cd01133          69 GGKIGLFGGAGVGKTVLIMELINN--IAKAHGGYSVFAGVGERTREGNDLYHEMKESGVLSKTALVYGQMNEPPGARARV  146 (274)
T ss_pred             CCEEEEecCCCCChhHHHHHHHHH--HHhcCCCEEEEEEeccCcHHHHHHHHHHHhcCCcceeEEEEECCCCCHHHHHHH
Confidence            356889999999999999999985  44345 4566666666543 445555554421111       0011111     


Q ss_pred             HHHHHHHHHhc--C-CceEEEEecCC
Q 036619          277 QSLMSRIQSSI--K-GKKNFLVLDDV  299 (352)
Q Consensus       277 ~~~~~~l~~~l--~-~kr~LlVlDdv  299 (352)
                      -...-.+.+++  + ++..||++||+
T Consensus       147 ~~~a~~~AEyfr~~~g~~Vl~~~Dsl  172 (274)
T cd01133         147 ALTGLTMAEYFRDEEGQDVLLFIDNI  172 (274)
T ss_pred             HHHHHHHHHHHHHhcCCeEEEEEeCh
Confidence            11223345555  3 89999999998

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.

>TIGR03689 pup_AAA proteasome ATPase

Probab=97.14  E-value=0.0011  Score=64.22  Aligned_cols=51  Identities=18%  Similarity=0.149  Sum_probs=36.4

Q ss_pred             CccccccchHHHHHHHHcCccc-------cCCCCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          184 GEVCGRVDEKSELFSKLLCESS-------EQQNGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~-------~~~~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..+.|.+..++++.+.+..+-.       .+-..++-+.++|++|+|||++|+.+++.
T Consensus       182 ~dIgGl~~~i~~i~~~v~lp~~~~~l~~~~gl~~p~GILLyGPPGTGKT~LAKAlA~e  239 (512)
T TIGR03689       182 ADIGGLDSQIEQIRDAVELPFLHPELYREYDLKPPKGVLLYGPPGCGKTLIAKAVANS  239 (512)
T ss_pred             HHcCChHHHHHHHHHHHHHHhhCHHHHHhccCCCCcceEEECCCCCcHHHHHHHHHHh
Confidence            4577888888888776532100       01123456889999999999999999985

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.

>PRK06696 uridine kinase; Validated

Probab=97.14  E-value=0.00056  Score=59.47  Aligned_cols=43  Identities=23%  Similarity=0.218  Sum_probs=34.0

Q ss_pred             ccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          189 RVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       189 r~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      |.+-+++|.+.+.....   ....+|+|.|.+|+||||||+.+...
T Consensus         3 ~~~~~~~la~~~~~~~~---~~~~iI~I~G~sgsGKSTlA~~L~~~   45 (223)
T PRK06696          3 RKQLIKELAEHILTLNL---TRPLRVAIDGITASGKTTFADELAEE   45 (223)
T ss_pred             HHHHHHHHHHHHHHhCC---CCceEEEEECCCCCCHHHHHHHHHHH
Confidence            45666777777765332   46889999999999999999999874

>PRK06090 DNA polymerase III subunit delta'; Validated

Probab=97.13  E-value=0.0066  Score=55.41  Aligned_cols=146  Identities=9%  Similarity=0.025  Sum_probs=81.0

Q ss_pred             hHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCC--
Q 036619          192 EKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKS--  269 (352)
Q Consensus       192 ~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~--  269 (352)
                      ..+++.+.+...     .-...+.+.|+.|+||+++|..+...--..+.-+        ...+.-...+.+...-.+.  
T Consensus        11 ~~~~l~~~~~~~-----rl~hA~L~~G~~G~Gk~~lA~~~a~~llC~~~~~--------~~Cg~C~sC~~~~~g~HPD~~   77 (319)
T PRK06090         11 VWQNWKAGLDAG-----RIPGALLLQSDEGLGVESLVELFSRALLCQNYQS--------EACGFCHSCELMQSGNHPDLH   77 (319)
T ss_pred             HHHHHHHHHHcC-----CcceeEeeECCCCCCHHHHHHHHHHHHcCCCCCC--------CCCCCCHHHHHHHcCCCCCEE
Confidence            344555555332     2356788999999999999988865321111000        0000001111111111100  


Q ss_pred             ---CC---CcccHHHHHHHHHHhc-----CCceEEEEecCCCCCCccChhHHHHhhccCCCCcEEEEecCCh-HHHHHhC
Q 036619          270 ---AS---GLNEFQSLMSRIQSSI-----KGKKNFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKILVTTRNE-SVARMMG  337 (352)
Q Consensus       270 ---~~---~~~~~~~~~~~l~~~l-----~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTTR~~-~va~~~~  337 (352)
                         +.   ..-..+++. .+.+.+     .+.+-++|+|++...+....+.|...+..-..++.+|++|.+. .+-..+.
T Consensus        78 ~i~p~~~~~~I~vdqiR-~l~~~~~~~~~~~~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~lLpTI~  156 (319)
T PRK06090         78 VIKPEKEGKSITVEQIR-QCNRLAQESSQLNGYRLFVIEPADAMNESASNALLKTLEEPAPNCLFLLVTHNQKRLLPTIV  156 (319)
T ss_pred             EEecCcCCCcCCHHHHH-HHHHHHhhCcccCCceEEEecchhhhCHHHHHHHHHHhcCCCCCeEEEEEECChhhChHHHH
Confidence               00   011223332 222222     3455689999999888788999999998877777777766654 4554444


Q ss_pred             C-CCeeeCCCCCCCc
Q 036619          338 S-TDIISIEQLAEEE  351 (352)
Q Consensus       338 ~-~~~~~l~~L~~~e  351 (352)
                      + ...+.+.++++++
T Consensus       157 SRCq~~~~~~~~~~~  171 (319)
T PRK06090        157 SRCQQWVVTPPSTAQ  171 (319)
T ss_pred             hcceeEeCCCCCHHH
Confidence            3 5678888887654

>COG2812 DnaX DNA polymerase III, gamma/tau subunits [DNA replication, recombination, and repair]

Probab=97.11  E-value=0.00053  Score=66.00  Aligned_cols=155  Identities=17%  Similarity=0.256  Sum_probs=91.1

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHH
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAII  263 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~  263 (352)
                      ++++|.+.-...|.+.|....     -..-....|+.|+||||+|+.+...--..+      | ....+++.-...+.|.
T Consensus        16 ~evvGQe~v~~~L~nal~~~r-----i~hAYlfsG~RGvGKTt~Ari~AkalNC~~------~-~~~ePC~~C~~Ck~I~   83 (515)
T COG2812          16 DDVVGQEHVVKTLSNALENGR-----IAHAYLFSGPRGVGKTTIARILAKALNCEN------G-PTAEPCGKCISCKEIN   83 (515)
T ss_pred             HHhcccHHHHHHHHHHHHhCc-----chhhhhhcCCCCcCchhHHHHHHHHhcCCC------C-CCCCcchhhhhhHhhh
Confidence            457999999999999887644     234456789999999999998875321111      1 1122222222333333


Q ss_pred             HHhCC--------CCCCcccHHHHHHHHHHhc-CCceEEEEecCCCCCCccChhHHHHhhccCCCCcEEEE-ecCChHHH
Q 036619          264 EGLGK--------SASGLNEFQSLMSRIQSSI-KGKKNFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKILV-TTRNESVA  333 (352)
Q Consensus       264 ~~l~~--------~~~~~~~~~~~~~~l~~~l-~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~Iiv-TTR~~~va  333 (352)
                      ..-..        +..+.++..++.+.+.-.- +++-=..|+|.|+-.....|+.|+..+..-...-+.|+ ||-...|.
T Consensus        84 ~g~~~DviEiDaASn~gVddiR~i~e~v~y~P~~~ryKVyiIDEvHMLS~~afNALLKTLEEPP~hV~FIlATTe~~Kip  163 (515)
T COG2812          84 EGSLIDVIEIDAASNTGVDDIREIIEKVNYAPSEGRYKVYIIDEVHMLSKQAFNALLKTLEEPPSHVKFILATTEPQKIP  163 (515)
T ss_pred             cCCcccchhhhhhhccChHHHHHHHHHhccCCccccceEEEEecHHhhhHHHHHHHhcccccCccCeEEEEecCCcCcCc
Confidence            22000        1112223333333332222 34555889999987766789998888876655655544 55555665


Q ss_pred             HHh-CCCCeeeCCCCCCC
Q 036619          334 RMM-GSTDIISIEQLAEE  350 (352)
Q Consensus       334 ~~~-~~~~~~~l~~L~~~  350 (352)
                      ..+ +-...|.+..|+.+
T Consensus       164 ~TIlSRcq~f~fkri~~~  181 (515)
T COG2812         164 NTILSRCQRFDFKRLDLE  181 (515)
T ss_pred             hhhhhccccccccCCCHH
Confidence            544 33667888877754

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=97.10  E-value=0.0029  Score=58.87  Aligned_cols=90  Identities=17%  Similarity=0.183  Sum_probs=49.7

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCC-CCHHHHHHHHHHHhCCCCCCcccHHHHHHHHHHhcCC
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDT-FDQIRIAKAIIEGLGKSASGLNEFQSLMSRIQSSIKG  289 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~-~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~  289 (352)
                      ..++.++|+.|+||||++.++......+.....+..++.... ....+.+....+.++.......+..++...+.+ +.+
T Consensus       137 g~ii~lvGptGvGKTTtiakLA~~~~~~~G~~~V~lit~D~~R~ga~EqL~~~a~~~gv~~~~~~~~~~l~~~l~~-l~~  215 (374)
T PRK14722        137 GGVFALMGPTGVGKTTTTAKLAARCVMRFGASKVALLTTDSYRIGGHEQLRIFGKILGVPVHAVKDGGDLQLALAE-LRN  215 (374)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEecccccccHHHHHHHHHHHcCCceEecCCcccHHHHHHH-hcC
Confidence            468999999999999999888875322222234555553321 233445555555555432222222233333332 344


Q ss_pred             ceEEEEecCCCCC
Q 036619          290 KKNFLVLDDVWDG  302 (352)
Q Consensus       290 kr~LlVlDdvw~~  302 (352)
                      + -+|++|.....
T Consensus       216 ~-DlVLIDTaG~~  227 (374)
T PRK14722        216 K-HMVLIDTIGMS  227 (374)
T ss_pred             C-CEEEEcCCCCC
Confidence            4 45558887543

>PRK04301 radA DNA repair and recombination protein RadA; Validated

Probab=97.10  E-value=0.0055  Score=56.27  Aligned_cols=91  Identities=20%  Similarity=0.283  Sum_probs=57.9

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHhhhhhhcc----CCeEEEEEeCCCCCHHHHHHHHHHHhCCCCC------------C
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYNNDEVKRN----FEKVIWVCVSDTFDQIRIAKAIIEGLGKSAS------------G  272 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~----F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~------------~  272 (352)
                      +...++-|+|++|+|||+|+.+++-.......    =..++||+....|+..++.+ +++.++....            .
T Consensus       100 ~~g~vtei~G~~GsGKT~l~~~~~~~~~~~~~~gg~~~~~~yi~te~~f~~~rl~~-~~~~~g~~~~~~l~~i~~~~~~~  178 (317)
T PRK04301        100 ETQSITEFYGEFGSGKTQICHQLAVNVQLPEEKGGLEGKAVYIDTEGTFRPERIEQ-MAEALGLDPDEVLDNIHVARAYN  178 (317)
T ss_pred             cCCcEEEEECCCCCCHhHHHHHHHHHhccccccCCCCceEEEEeCCCCcCHHHHHH-HHHHcCCChHhhhccEEEEeCCC
Confidence            45688999999999999999777654222111    14799999999888877654 4444443211            1


Q ss_pred             cccHHHHHHHHHHhcCC--ceEEEEecCCC
Q 036619          273 LNEFQSLMSRIQSSIKG--KKNFLVLDDVW  300 (352)
Q Consensus       273 ~~~~~~~~~~l~~~l~~--kr~LlVlDdvw  300 (352)
                      ......+...+...+..  +--|||+|.+-
T Consensus       179 ~~~~~~~~~~l~~~i~~~~~~~lvVIDSis  208 (317)
T PRK04301        179 SDHQMLLAEKAEELIKEGENIKLVIVDSLT  208 (317)
T ss_pred             HHHHHHHHHHHHHHHhccCceeEEEEECch
Confidence            11122344555666643  34499999984

>cd03221 ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth

Probab=97.09  E-value=0.0052  Score=49.41  Aligned_cols=106  Identities=20%  Similarity=0.211  Sum_probs=58.8

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCcccHHHHHHHHHHhcCCc
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSASGLNEFQSLMSRIQSSIKGK  290 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~k  290 (352)
                      -.+++|+|..|.|||||++.+..-..   .....+|+.-..             .++-.. ..+..+.-.-.|...+..+
T Consensus        26 Ge~~~i~G~nGsGKStLl~~l~G~~~---~~~G~i~~~~~~-------------~i~~~~-~lS~G~~~rv~laral~~~   88 (144)
T cd03221          26 GDRIGLVGRNGAGKSTLLKLIAGELE---PDEGIVTWGSTV-------------KIGYFE-QLSGGEKMRLALAKLLLEN   88 (144)
T ss_pred             CCEEEEECCCCCCHHHHHHHHcCCCC---CCceEEEECCeE-------------EEEEEc-cCCHHHHHHHHHHHHHhcC
Confidence            46889999999999999999987422   223333332100             000000 0111122222344445556


Q ss_pred             eEEEEecCCCCC-CccChhHHHHhhccCCCCcEEEEecCChHHHHH
Q 036619          291 KNFLVLDDVWDG-DYNKWQPFFRCLKNGLHGSKILVTTRNESVARM  335 (352)
Q Consensus       291 r~LlVlDdvw~~-~~~~~~~l~~~l~~~~~gs~IivTTR~~~va~~  335 (352)
                      .-+++||+.-.. |......+...+...  +..||++|.+.+.+..
T Consensus        89 p~illlDEP~~~LD~~~~~~l~~~l~~~--~~til~~th~~~~~~~  132 (144)
T cd03221          89 PNLLLLDEPTNHLDLESIEALEEALKEY--PGTVILVSHDRYFLDQ  132 (144)
T ss_pred             CCEEEEeCCccCCCHHHHHHHHHHHHHc--CCEEEEEECCHHHHHH
Confidence            678889987442 334455566666543  3468888888766543

EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated release of the deacylated tRNA from the E site. The reaction requires ATP hydrolysis. EF-3 contains two ATP nucleotide binding sequence (NBS) motifs. NBSI is sufficient for the intrinsic ATPase activity. NBSII is essential for the ribosome-stimulated functions.

>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A

Probab=97.08  E-value=0.00058  Score=58.06  Aligned_cols=105  Identities=24%  Similarity=0.264  Sum_probs=49.4

Q ss_pred             EEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCcccHHHHHHHHHHhc----
Q 036619          212 QVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSASGLNEFQSLMSRIQSSI----  287 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l----  287 (352)
                      ++..|.|++|.||||+.+.+......  . ...+.+.....--...    +.+..+..   ...+..+.......-    
T Consensus        19 ~~~~l~G~aGtGKT~~l~~~~~~~~~--~-g~~v~~~apT~~Aa~~----L~~~~~~~---a~Ti~~~l~~~~~~~~~~~   88 (196)
T PF13604_consen   19 RVSVLQGPAGTGKTTLLKALAEALEA--A-GKRVIGLAPTNKAAKE----LREKTGIE---AQTIHSFLYRIPNGDDEGR   88 (196)
T ss_dssp             SEEEEEESTTSTHHHHHHHHHHHHHH--T-T--EEEEESSHHHHHH----HHHHHTS----EEEHHHHTTEECCEECCSS
T ss_pred             eEEEEEECCCCCHHHHHHHHHHHHHh--C-CCeEEEECCcHHHHHH----HHHhhCcc---hhhHHHHHhcCCccccccc
Confidence            57778999999999999988764332  2 2344444333322222    33332211   011111000000000    


Q ss_pred             --CCceEEEEecCCCCCCccChhHHHHhhccCCCCcEEEEecC
Q 036619          288 --KGKKNFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKILVTTR  328 (352)
Q Consensus       288 --~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTTR  328 (352)
                        ..+.-+||+|+....+...+..+....+.  .|++||+.==
T Consensus        89 ~~~~~~~vliVDEasmv~~~~~~~ll~~~~~--~~~klilvGD  129 (196)
T PF13604_consen   89 PELPKKDVLIVDEASMVDSRQLARLLRLAKK--SGAKLILVGD  129 (196)
T ss_dssp             CC-TSTSEEEESSGGG-BHHHHHHHHHHS-T---T-EEEEEE-
T ss_pred             ccCCcccEEEEecccccCHHHHHHHHHHHHh--cCCEEEEECC
Confidence              12334888888876554455555555544  3677776543

>TIGR02012 tigrfam_recA protein RecA

Probab=97.08  E-value=0.0024  Score=58.22  Aligned_cols=85  Identities=20%  Similarity=0.268  Sum_probs=55.4

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCCC-----CCcccHHHHHHHH
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSA-----SGLNEFQSLMSRI  283 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~-----~~~~~~~~~~~~l  283 (352)
                      +.-+++-|+|++|+||||||.++....  ...-..++||...+.++..     .+++++...     ......++....+
T Consensus        53 p~G~iteI~G~~GsGKTtLaL~~~~~~--~~~g~~v~yId~E~~~~~~-----~a~~lGvd~~~l~v~~p~~~eq~l~~~  125 (321)
T TIGR02012        53 PRGRIIEIYGPESSGKTTLALHAIAEA--QKAGGTAAFIDAEHALDPV-----YARKLGVDIDNLLVSQPDTGEQALEIA  125 (321)
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHHHH--HHcCCcEEEEcccchhHHH-----HHHHcCCCHHHeEEecCCCHHHHHHHH
Confidence            456899999999999999998776642  2334567899877766553     344444321     1123345555666


Q ss_pred             HHhcC-CceEEEEecCCC
Q 036619          284 QSSIK-GKKNFLVLDDVW  300 (352)
Q Consensus       284 ~~~l~-~kr~LlVlDdvw  300 (352)
                      ...++ +.--+||+|.+-
T Consensus       126 ~~li~~~~~~lIVIDSv~  143 (321)
T TIGR02012       126 ETLVRSGAVDIIVVDSVA  143 (321)
T ss_pred             HHHhhccCCcEEEEcchh
Confidence            55553 456699999984

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.

>PRK12723 flagellar biosynthesis regulator FlhF; Provisional

Probab=97.07  E-value=0.0094  Score=55.93  Aligned_cols=104  Identities=16%  Similarity=0.210  Sum_probs=56.6

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhhhhhhc--cCCeEEEEEeCCCCCHH--HHHHHHHHHhCCCCCCcccHHHHHHHHHH
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNNDEVKR--NFEKVIWVCVSDTFDQI--RIAKAIIEGLGKSASGLNEFQSLMSRIQS  285 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~--~F~~~~wv~vs~~~~~~--~~~~~i~~~l~~~~~~~~~~~~~~~~l~~  285 (352)
                      ...++.++|+.|+||||.+..+........  +-..+.-+++. ++...  ..+....+.++.+.....+...+...+..
T Consensus       173 ~~~vi~lvGptGvGKTTT~aKLA~~~~~~~~~~g~~V~lit~D-t~R~aa~eQL~~~a~~lgvpv~~~~~~~~l~~~L~~  251 (388)
T PRK12723        173 KKRVFILVGPTGVGKTTTIAKLAAIYGINSDDKSLNIKIITID-NYRIGAKKQIQTYGDIMGIPVKAIESFKDLKEEITQ  251 (388)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHhhhccCCCeEEEEecc-CccHHHHHHHHHHhhcCCcceEeeCcHHHHHHHHHH
Confidence            357999999999999999988876433221  12244445544 33332  23445555554432223334444444444


Q ss_pred             hcCCceEEEEecCCCCCCcc--ChhHHHHhhcc
Q 036619          286 SIKGKKNFLVLDDVWDGDYN--KWQPFFRCLKN  316 (352)
Q Consensus       286 ~l~~kr~LlVlDdvw~~~~~--~~~~l~~~l~~  316 (352)
                      .  .+.-+|++|-......+  ....+...+..
T Consensus       252 ~--~~~DlVLIDTaGr~~~~~~~l~el~~~l~~  282 (388)
T PRK12723        252 S--KDFDLVLVDTIGKSPKDFMKLAEMKELLNA  282 (388)
T ss_pred             h--CCCCEEEEcCCCCCccCHHHHHHHHHHHHh
Confidence            3  33457778877543211  23455555543

>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=97.07  E-value=0.011  Score=54.30  Aligned_cols=41  Identities=22%  Similarity=0.182  Sum_probs=31.6

Q ss_pred             hHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhh
Q 036619          192 EKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNND  235 (352)
Q Consensus       192 ~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~  235 (352)
                      -.+.|.+.+.+...   ....+|+|.|.=|+|||++.+.+.+.-
T Consensus         4 ~a~~la~~I~~~~~---~~~~~IgL~G~WGsGKSs~l~~l~~~L   44 (325)
T PF07693_consen    4 YAKALAEIIKNPDS---DDPFVIGLYGEWGSGKSSFLNMLKEEL   44 (325)
T ss_pred             HHHHHHHHHhccCC---CCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            34566666665432   457999999999999999999998753

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 [].

>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=97.06  E-value=0.0082  Score=57.23  Aligned_cols=88  Identities=17%  Similarity=0.216  Sum_probs=45.9

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCH--HHHHHHHHHHhCCCCCCcccHHHHHHHHHHhcC
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQ--IRIAKAIIEGLGKSASGLNEFQSLMSRIQSSIK  288 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~--~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~  288 (352)
                      .+++.++|++|+||||++..+.........-..+..|+... +..  ...+....+.++.......+..++...+.+. .
T Consensus       221 ~~~i~~vGptGvGKTTt~~kLA~~~~~~~~g~~V~li~~D~-~r~~a~eqL~~~a~~~~vp~~~~~~~~~l~~~l~~~-~  298 (424)
T PRK05703        221 GGVVALVGPTGVGKTTTLAKLAARYALLYGKKKVALITLDT-YRIGAVEQLKTYAKIMGIPVEVVYDPKELAKALEQL-R  298 (424)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEECCc-cHHHHHHHHHHHHHHhCCceEccCCHHhHHHHHHHh-C
Confidence            46999999999999999987765422122233566666543 221  1222222333333222222334444444432 2


Q ss_pred             CceEEEEecCCCC
Q 036619          289 GKKNFLVLDDVWD  301 (352)
Q Consensus       289 ~kr~LlVlDdvw~  301 (352)
                       ..=+|++|....
T Consensus       299 -~~DlVlIDt~G~  310 (424)
T PRK05703        299 -DCDVILIDTAGR  310 (424)
T ss_pred             -CCCEEEEeCCCC
Confidence             235677786543

>PRK06964 DNA polymerase III subunit delta'; Validated

Probab=97.06  E-value=0.0061  Score=56.21  Aligned_cols=64  Identities=14%  Similarity=0.154  Sum_probs=47.1

Q ss_pred             CCceEEEEecCCCCCCccChhHHHHhhccCCCCcEEEEecCC-hHHHHHhCC-CCeeeCCCCCCCc
Q 036619          288 KGKKNFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKILVTTRN-ESVARMMGS-TDIISIEQLAEEE  351 (352)
Q Consensus       288 ~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTTR~-~~va~~~~~-~~~~~l~~L~~~e  351 (352)
                      .+++-++|+|++...+.+.++.|+..+..-.+++.+|++|.+ ..+...+-+ ...+++.++++++
T Consensus       130 ~~~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~LLpTI~SRcq~i~~~~~~~~~  195 (342)
T PRK06964        130 RGGARVVVLYPAEALNVAAANALLKTLEEPPPGTVFLLVSARIDRLLPTILSRCRQFPMTVPAPEA  195 (342)
T ss_pred             cCCceEEEEechhhcCHHHHHHHHHHhcCCCcCcEEEEEECChhhCcHHHHhcCEEEEecCCCHHH
Confidence            355668899999998888999999999877777766666655 555544433 5678888887654

>PRK15455 PrkA family serine protein kinase; Provisional

Probab=97.06  E-value=0.00043  Score=67.07  Aligned_cols=49  Identities=22%  Similarity=0.276  Sum_probs=40.2

Q ss_pred             ccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHh
Q 036619          185 EVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYN  233 (352)
Q Consensus       185 ~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~  233 (352)
                      +++|.++.+++|++.|.....+-...-+++.++|++|+||||||+.+.+
T Consensus        77 d~yGlee~ieriv~~l~~Aa~gl~~~~~IL~LvGPpG~GKSsLa~~la~  125 (644)
T PRK15455         77 EFYGMEEAIEQIVSYFRHAAQGLEEKKQILYLLGPVGGGKSSLAERLKS  125 (644)
T ss_pred             cccCcHHHHHHHHHHHHHHHHhcCCCCceEEEecCCCCCchHHHHHHHH
Confidence            5899999999999999433222224568999999999999999999987

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

Probab=97.05  E-value=0.0022  Score=51.30  Aligned_cols=22  Identities=41%  Similarity=0.496  Sum_probs=19.6

Q ss_pred             EEEEEecCCCcHHHHHHHHHhh
Q 036619          213 VISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      +|.++|++|+||||+|+.+...
T Consensus         1 lii~~G~pgsGKSt~a~~l~~~   22 (143)
T PF13671_consen    1 LIILCGPPGSGKSTLAKRLAKR   22 (143)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            5789999999999999998853

...

>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=97.05  E-value=0.0042  Score=51.81  Aligned_cols=104  Identities=18%  Similarity=0.104  Sum_probs=57.6

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEE------eCCCCCHHHHHHHHHHHhCCCCCCcccHHHHHHHHH
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVC------VSDTFDQIRIAKAIIEGLGKSASGLNEFQSLMSRIQ  284 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~------vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~  284 (352)
                      -.+++|+|+.|.|||||.+.+..-.   ......+++.      +.+...                  .+..+.-.-.+.
T Consensus        25 Ge~~~l~G~nGsGKSTLl~~l~Gl~---~p~~G~i~~~g~~i~~~~q~~~------------------LSgGq~qrv~la   83 (177)
T cd03222          25 GEVIGIVGPNGTGKTTAVKILAGQL---IPNGDNDEWDGITPVYKPQYID------------------LSGGELQRVAIA   83 (177)
T ss_pred             CCEEEEECCCCChHHHHHHHHHcCC---CCCCcEEEECCEEEEEEcccCC------------------CCHHHHHHHHHH
Confidence            4689999999999999999998632   1222222221      122111                  222222233344


Q ss_pred             HhcCCceEEEEecCCCCC-CccChhHHHHhhccC--CCCcEEEEecCChHHHHH
Q 036619          285 SSIKGKKNFLVLDDVWDG-DYNKWQPFFRCLKNG--LHGSKILVTTRNESVARM  335 (352)
Q Consensus       285 ~~l~~kr~LlVlDdvw~~-~~~~~~~l~~~l~~~--~~gs~IivTTR~~~va~~  335 (352)
                      ..+..+.-+++||.--.. |......+...+...  ..+..||++|.+......
T Consensus        84 ral~~~p~lllLDEPts~LD~~~~~~l~~~l~~~~~~~~~tiiivsH~~~~~~~  137 (177)
T cd03222          84 AALLRNATFYLFDEPSAYLDIEQRLNAARAIRRLSEEGKKTALVVEHDLAVLDY  137 (177)
T ss_pred             HHHhcCCCEEEEECCcccCCHHHHHHHHHHHHHHHHcCCCEEEEEECCHHHHHH
Confidence            555566778889987443 223333444444321  123568888888765543

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.

>PF14532 Sigma54_activ_2: Sigma-54 interaction domain; PDB: 3CO5_B 3N70_H

Probab=97.02  E-value=0.00063  Score=54.35  Aligned_cols=108  Identities=14%  Similarity=0.160  Sum_probs=61.4

Q ss_pred             ccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhh-hccCCeEEEEEeCCCCCHHHHHHHHHHH
Q 036619          187 CGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEV-KRNFEKVIWVCVSDTFDQIRIAKAIIEG  265 (352)
Q Consensus       187 ~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~-~~~F~~~~wv~vs~~~~~~~~~~~i~~~  265 (352)
                      ||.-..++++.+.+..-.    ....-|.|.|..|+||+++|+.++....- ...|..+   .+.. .+           
T Consensus         1 vG~S~~~~~l~~~l~~~a----~~~~pvli~GE~GtGK~~~A~~lh~~~~~~~~~~~~~---~~~~-~~-----------   61 (138)
T PF14532_consen    1 VGKSPAMRRLRRQLERLA----KSSSPVLITGEPGTGKSLLARALHRYSGRANGPFIVI---DCAS-LP-----------   61 (138)
T ss_dssp             --SCHHHHHHHHHHHHHH----CSSS-EEEECCTTSSHHHHHHCCHHTTTTCCS-CCCC---CHHC-TC-----------
T ss_pred             CCCCHHHHHHHHHHHHHh----CCCCcEEEEcCCCCCHHHHHHHHHhhcCccCCCeEEe---chhh-Cc-----------
Confidence            355556666666664433    22345679999999999999999875322 1122111   0000 00           


Q ss_pred             hCCCCCCcccHHHHHHHHHHhcCCceEEEEecCCCCCCccChhHHHHhhccC-CCCcEEEEecCCh
Q 036619          266 LGKSASGLNEFQSLMSRIQSSIKGKKNFLVLDDVWDGDYNKWQPFFRCLKNG-LHGSKILVTTRNE  330 (352)
Q Consensus       266 l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~-~~gs~IivTTR~~  330 (352)
                                    .+.+.+   .+.-.|+|+|+..-+.+....|...+... ....|+|.||..+
T Consensus        62 --------------~~~l~~---a~~gtL~l~~i~~L~~~~Q~~L~~~l~~~~~~~~RlI~ss~~~  110 (138)
T PF14532_consen   62 --------------AELLEQ---AKGGTLYLKNIDRLSPEAQRRLLDLLKRQERSNVRLIASSSQD  110 (138)
T ss_dssp             --------------HHHHHH---CTTSEEEEECGCCS-HHHHHHHHHHHHHCTTTTSEEEEEECC-
T ss_pred             --------------HHHHHH---cCCCEEEECChHHCCHHHHHHHHHHHHhcCCCCeEEEEEeCCC
Confidence                          111111   24556789999776655666777777643 5678999998864

>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=97.01  E-value=0.0019  Score=53.35  Aligned_cols=133  Identities=18%  Similarity=0.217  Sum_probs=65.3

Q ss_pred             cccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHH
Q 036619          186 VCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEG  265 (352)
Q Consensus       186 ~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~  265 (352)
                      ++|....+.++++.+..-..   ...+ |.|+|..|+||+.+|+.+++.-. + .-..-+-|+++. .+.+.+-..+.-.
T Consensus         1 liG~s~~m~~~~~~~~~~a~---~~~p-VlI~GE~GtGK~~lA~~IH~~s~-r-~~~pfi~vnc~~-~~~~~~e~~LFG~   73 (168)
T PF00158_consen    1 LIGESPAMKRLREQAKRAAS---SDLP-VLITGETGTGKELLARAIHNNSP-R-KNGPFISVNCAA-LPEELLESELFGH   73 (168)
T ss_dssp             SS--SHHHHHHHHHHHHHTT---STS--EEEECSTTSSHHHHHHHHHHCST-T-TTS-EEEEETTT-S-HHHHHHHHHEB
T ss_pred             CEeCCHHHHHHHHHHHHHhC---CCCC-EEEEcCCCCcHHHHHHHHHHhhh-c-ccCCeEEEehhh-hhcchhhhhhhcc
Confidence            46777777777777755432   2234 45999999999999999998421 1 111223344442 2333332233222


Q ss_pred             hCCCCCCcccHHHHHHHHHHhcCCceEEEEecCCCCCCccChhHHHHhhccC------C-----CCcEEEEecCCh
Q 036619          266 LGKSASGLNEFQSLMSRIQSSIKGKKNFLVLDDVWDGDYNKWQPFFRCLKNG------L-----HGSKILVTTRNE  330 (352)
Q Consensus       266 l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~------~-----~gs~IivTTR~~  330 (352)
                      ......+.....  ...+.   +-..=-|+||++.......-..|...+..+      .     ...|||.||..+
T Consensus        74 ~~~~~~~~~~~~--~G~l~---~A~~GtL~Ld~I~~L~~~~Q~~Ll~~l~~~~~~~~g~~~~~~~~~RiI~st~~~  144 (168)
T PF00158_consen   74 EKGAFTGARSDK--KGLLE---QANGGTLFLDEIEDLPPELQAKLLRVLEEGKFTRLGSDKPVPVDVRIIASTSKD  144 (168)
T ss_dssp             CSSSSTTTSSEB--EHHHH---HTTTSEEEEETGGGS-HHHHHHHHHHHHHSEEECCTSSSEEE--EEEEEEESS-
T ss_pred             cccccccccccc--CCcee---eccceEEeecchhhhHHHHHHHHHHHHhhchhccccccccccccceEEeecCcC
Confidence            111111111000  01111   123346788999776544555666666532      1     146788888753

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=97.01  E-value=0.0035  Score=54.84  Aligned_cols=87  Identities=21%  Similarity=0.211  Sum_probs=55.2

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCCC------------------
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSA------------------  270 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~------------------  270 (352)
                      +.-+++.|+|.+|+|||+|+.++... ..+ .=..++|++....  ...+.+++ ++++-..                  
T Consensus        23 ~~g~~~~i~G~~GsGKt~l~~~~~~~-~~~-~g~~~~y~~~e~~--~~~~~~~~-~~~g~~~~~~~~~g~l~i~~~~~~~   97 (234)
T PRK06067         23 PFPSLILIEGDHGTGKSVLSQQFVYG-ALK-QGKKVYVITTENT--SKSYLKQM-ESVKIDISDFFLWGYLRIFPLNTEG   97 (234)
T ss_pred             cCCcEEEEECCCCCChHHHHHHHHHH-HHh-CCCEEEEEEcCCC--HHHHHHHH-HHCCCChhHHHhCCCceEEeccccc
Confidence            45689999999999999999887543 122 3357888888764  34454443 2222110                  


Q ss_pred             --CCcccHHHHHHHHHHhcCC-ceEEEEecCCC
Q 036619          271 --SGLNEFQSLMSRIQSSIKG-KKNFLVLDDVW  300 (352)
Q Consensus       271 --~~~~~~~~~~~~l~~~l~~-kr~LlVlDdvw  300 (352)
                        ....+.+.+...+.+.+.. +.-++|+|.+-
T Consensus        98 ~~~~~~~~~~ll~~l~~~i~~~~~~~iviDs~t  130 (234)
T PRK06067         98 FEWNSTLANKLLELIIEFIKSKREDVIIIDSLT  130 (234)
T ss_pred             cccCcchHHHHHHHHHHHHHhcCCCEEEEecHH
Confidence              0112345666777777653 55589999974

>PTZ00035 Rad51 protein; Provisional

Probab=97.01  E-value=0.0066  Score=56.06  Aligned_cols=92  Identities=20%  Similarity=0.224  Sum_probs=56.7

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHhhhhhh----ccCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCC---------Cccc
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYNNDEVK----RNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSAS---------GLNE  275 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~----~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~---------~~~~  275 (352)
                      +.-.++.|+|.+|+|||||+..++-.....    ..=..++||.....|+..++ .++.+.++....         ...+
T Consensus       116 ~~G~iteI~G~~GsGKT~l~~~l~~~~qlp~~~gg~~g~vvyIdtE~~f~~eri-~~ia~~~g~~~~~~l~nI~~~~~~~  194 (337)
T PTZ00035        116 ETGSITELFGEFRTGKTQLCHTLCVTCQLPIEQGGGEGKVLYIDTEGTFRPERI-VQIAERFGLDPEDVLDNIAYARAYN  194 (337)
T ss_pred             CCCeEEEEECCCCCchhHHHHHHHHHhccccccCCCCceEEEEEccCCCCHHHH-HHHHHHhCCChHhHhhceEEEccCC
Confidence            456899999999999999998876533211    01235779998888887774 444555544321         1122


Q ss_pred             HHHHHHH---HHHhc-CCceEEEEecCCCC
Q 036619          276 FQSLMSR---IQSSI-KGKKNFLVLDDVWD  301 (352)
Q Consensus       276 ~~~~~~~---l~~~l-~~kr~LlVlDdvw~  301 (352)
                      .+++...   +...+ ..+--|||+|.+..
T Consensus       195 ~e~~~~~l~~~~~~l~~~~~~lvVIDSita  224 (337)
T PTZ00035        195 HEHQMQLLSQAAAKMAEERFALLIVDSATA  224 (337)
T ss_pred             HHHHHHHHHHHHHHhhccCccEEEEECcHH
Confidence            3333333   33333 34456999999853

>PRK00771 signal recognition particle protein Srp54; Provisional

Probab=97.01  E-value=0.014  Score=55.63  Aligned_cols=56  Identities=36%  Similarity=0.370  Sum_probs=35.0

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCH--HHHHHHHHHHhCC
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQ--IRIAKAIIEGLGK  268 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~--~~~~~~i~~~l~~  268 (352)
                      .+.++.++|.+|+||||++..+..... +..+ .++-|++. .+..  ...+..+...++.
T Consensus        94 ~p~vI~lvG~~GsGKTTtaakLA~~L~-~~g~-kV~lV~~D-~~R~aa~eQL~~la~~~gv  151 (437)
T PRK00771         94 KPQTIMLVGLQGSGKTTTAAKLARYFK-KKGL-KVGLVAAD-TYRPAAYDQLKQLAEKIGV  151 (437)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHH-HcCC-eEEEecCC-CCCHHHHHHHHHHHHHcCC
Confidence            478999999999999999988886432 2223 33334432 2222  3445555665543

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

Probab=97.00  E-value=0.0017  Score=65.27  Aligned_cols=126  Identities=23%  Similarity=0.244  Sum_probs=70.0

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccC-----CeEEEEEeCCCCCHHHH
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNF-----EKVIWVCVSDTFDQIRI  258 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F-----~~~~wv~vs~~~~~~~~  258 (352)
                      ..++||++|+.++++.|....    ++-.|  ++|.+|+|||++|.-+...- +.+.-     +..++.     .     
T Consensus       170 DPvIGRd~EI~r~iqIL~RR~----KNNPv--LiGEpGVGKTAIvEGLA~rI-v~g~VP~~L~~~~i~s-----L-----  232 (786)
T COG0542         170 DPVIGRDEEIRRTIQILSRRT----KNNPV--LVGEPGVGKTAIVEGLAQRI-VNGDVPESLKDKRIYS-----L-----  232 (786)
T ss_pred             CCCcChHHHHHHHHHHHhccC----CCCCe--EecCCCCCHHHHHHHHHHHH-hcCCCCHHHcCCEEEE-----e-----
Confidence            458999999999999998755    33334  58999999999997776631 11111     001100     0     


Q ss_pred             HHHHHHHhCCCCCCcccHHH-HHHHHHHhcCCceEEEEecCCCCC---------CccChhHHHHhhccCCCCcEEEEecC
Q 036619          259 AKAIIEGLGKSASGLNEFQS-LMSRIQSSIKGKKNFLVLDDVWDG---------DYNKWQPFFRCLKNGLHGSKILVTTR  328 (352)
Q Consensus       259 ~~~i~~~l~~~~~~~~~~~~-~~~~l~~~l~~kr~LlVlDdvw~~---------~~~~~~~l~~~l~~~~~gs~IivTTR  328 (352)
                        ++..-+.+..-. .+.++ +...+.+.-+.++..|++|.++.-         ..+.-+.|+++|..+.-. +|=.||-
T Consensus       233 --D~g~LvAGakyR-GeFEeRlk~vl~ev~~~~~vILFIDEiHtiVGAG~~~G~a~DAaNiLKPaLARGeL~-~IGATT~  308 (786)
T COG0542         233 --DLGSLVAGAKYR-GEFEERLKAVLKEVEKSKNVILFIDEIHTIVGAGATEGGAMDAANLLKPALARGELR-CIGATTL  308 (786)
T ss_pred             --cHHHHhcccccc-CcHHHHHHHHHHHHhcCCCeEEEEechhhhcCCCcccccccchhhhhHHHHhcCCeE-EEEeccH
Confidence              111111111111 23333 333333333455899999998651         123455567777665322 3566665


Q ss_pred             Ch
Q 036619          329 NE  330 (352)
Q Consensus       329 ~~  330 (352)
                      ++
T Consensus       309 ~E  310 (786)
T COG0542         309 DE  310 (786)
T ss_pred             HH
Confidence            54

>cd03246 ABCC_Protease_Secretion This family represents the ABC component of the protease secretion system PrtD, a 60-kDa integral membrane protein sharing 37% identity with HlyB, the ABC component of the alpha-hemolysin secretion pathway, in the C-terminal domain

Probab=96.99  E-value=0.0042  Score=51.64  Aligned_cols=120  Identities=18%  Similarity=0.199  Sum_probs=60.3

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCC--CCCHHHHHHHHHHHhCCCCC--C-------cccHHHH
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSD--TFDQIRIAKAIIEGLGKSAS--G-------LNEFQSL  279 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~--~~~~~~~~~~i~~~l~~~~~--~-------~~~~~~~  279 (352)
                      -.+++|+|..|.|||||.+.+..-.   ......+++.-..  ..+.......+. .+.....  .       .+.-+..
T Consensus        28 Ge~~~i~G~nGsGKStLl~~l~G~~---~~~~G~i~~~g~~~~~~~~~~~~~~i~-~~~q~~~~~~~tv~~~lLS~G~~q  103 (173)
T cd03246          28 GESLAIIGPSGSGKSTLARLILGLL---RPTSGRVRLDGADISQWDPNELGDHVG-YLPQDDELFSGSIAENILSGGQRQ  103 (173)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhcc---CCCCCeEEECCEEcccCCHHHHHhheE-EECCCCccccCcHHHHCcCHHHHH
Confidence            3589999999999999999998632   2222223222110  011111111100 0000000  0       1111222


Q ss_pred             HHHHHHhcCCceEEEEecCCCCC-CccChhHHHHhhccC-CCCcEEEEecCChHHHH
Q 036619          280 MSRIQSSIKGKKNFLVLDDVWDG-DYNKWQPFFRCLKNG-LHGSKILVTTRNESVAR  334 (352)
Q Consensus       280 ~~~l~~~l~~kr~LlVlDdvw~~-~~~~~~~l~~~l~~~-~~gs~IivTTR~~~va~  334 (352)
                      .-.|...|-.+.-+++||+.-.. |......+...+... ..|..||++|.+.+...
T Consensus       104 rv~la~al~~~p~~lllDEPt~~LD~~~~~~l~~~l~~~~~~~~tii~~sh~~~~~~  160 (173)
T cd03246         104 RLGLARALYGNPRILVLDEPNSHLDVEGERALNQAIAALKAAGATRIVIAHRPETLA  160 (173)
T ss_pred             HHHHHHHHhcCCCEEEEECCccccCHHHHHHHHHHHHHHHhCCCEEEEEeCCHHHHH
Confidence            23344445556668889987543 323344455555432 23667888888887664

They export degradative enzymes by using a type I protein secretion system and lack an N-terminal signal peptide, but contain a C-terminal secretion signal. The Type I secretion apparatus is made up of three components, an ABC transporter, a membrane fusion protein (MFP), and an outer membrane protein (OMP). For the HlyA transporter complex, HlyB (ABC transporter) and HlyD (MFP) reside in the inner membrane of E. coli. The OMP component is TolC, which is thought to interact with the MFP to form a continuous channel across the periplasm from the cytoplasm to the exterior. HlyB belongs to the family of ABC transporters, which are ubiquitous, ATP-dependent transmembrane pumps or channels. The spectrum of transport substra

>CHL00176 ftsH cell division protein; Validated

Probab=96.99  E-value=0.003  Score=63.17  Aligned_cols=98  Identities=18%  Similarity=0.189  Sum_probs=53.7

Q ss_pred             CccccccchHHHH---HHHHcCccc---cCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHH
Q 036619          184 GEVCGRVDEKSEL---FSKLLCESS---EQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIR  257 (352)
Q Consensus       184 ~~~~gr~~~~~~l---~~~L~~~~~---~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~  257 (352)
                      .++.|.++.++++   +.+|.....   -+....+-+.++|++|+|||+||+.++...  .     .-|+.++..    .
T Consensus       183 ~dv~G~~~~k~~l~eiv~~lk~~~~~~~~g~~~p~gVLL~GPpGTGKT~LAralA~e~--~-----~p~i~is~s----~  251 (638)
T CHL00176        183 RDIAGIEEAKEEFEEVVSFLKKPERFTAVGAKIPKGVLLVGPPGTGKTLLAKAIAGEA--E-----VPFFSISGS----E  251 (638)
T ss_pred             HhccChHHHHHHHHHHHHHHhCHHHHhhccCCCCceEEEECCCCCCHHHHHHHHHHHh--C-----CCeeeccHH----H
Confidence            4577876665554   444433221   011234568899999999999999998742  1     123333211    1


Q ss_pred             HHHHHHHHhCCCCCCcccHHHHHHHHHHhcCCceEEEEecCCCC
Q 036619          258 IAKAIIEGLGKSASGLNEFQSLMSRIQSSIKGKKNFLVLDDVWD  301 (352)
Q Consensus       258 ~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdvw~  301 (352)
                      +.    ....+     .....+...+.......+++|+||++..
T Consensus       252 f~----~~~~g-----~~~~~vr~lF~~A~~~~P~ILfIDEID~  286 (638)
T CHL00176        252 FV----EMFVG-----VGAARVRDLFKKAKENSPCIVFIDEIDA  286 (638)
T ss_pred             HH----HHhhh-----hhHHHHHHHHHHHhcCCCcEEEEecchh
Confidence            11    11100     0112233344445567789999999953

>PRK08699 DNA polymerase III subunit delta'; Validated

Probab=96.99  E-value=0.0045  Score=56.84  Aligned_cols=63  Identities=11%  Similarity=0.150  Sum_probs=41.5

Q ss_pred             CceEEEEecCCCCCCccChhHHHHhhccCCCCcEEEEecCCh-HHHHHhCC-CCeeeCCCCCCCc
Q 036619          289 GKKNFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKILVTTRNE-SVARMMGS-TDIISIEQLAEEE  351 (352)
Q Consensus       289 ~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTTR~~-~va~~~~~-~~~~~l~~L~~~e  351 (352)
                      +++-++|+|++...+...-+.+...+.....++.+|++|.+. .+...+.+ ...+++.+++.++
T Consensus       112 ~~~kV~iiEp~~~Ld~~a~naLLk~LEep~~~~~~Ilvth~~~~ll~ti~SRc~~~~~~~~~~~~  176 (325)
T PRK08699        112 GGLRVILIHPAESMNLQAANSLLKVLEEPPPQVVFLLVSHAADKVLPTIKSRCRKMVLPAPSHEE  176 (325)
T ss_pred             CCceEEEEechhhCCHHHHHHHHHHHHhCcCCCEEEEEeCChHhChHHHHHHhhhhcCCCCCHHH
Confidence            444556679888777667777888777655566677777765 45444333 5667788877654

>PRK08769 DNA polymerase III subunit delta'; Validated

Probab=96.97  E-value=0.0076  Score=55.08  Aligned_cols=64  Identities=9%  Similarity=0.148  Sum_probs=45.4

Q ss_pred             CCceEEEEecCCCCCCccChhHHHHhhccCCCCcEEEEecCC-hHHHHHhCC-CCeeeCCCCCCCc
Q 036619          288 KGKKNFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKILVTTRN-ESVARMMGS-TDIISIEQLAEEE  351 (352)
Q Consensus       288 ~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTTR~-~~va~~~~~-~~~~~l~~L~~~e  351 (352)
                      .+++-++|||++...+...-+.|...+..-..++.+|++|.+ ..+...+.+ ...+.+.+++.++
T Consensus       111 ~g~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~~~fiL~~~~~~~lLpTIrSRCq~i~~~~~~~~~  176 (319)
T PRK08769        111 YGIAQVVIVDPADAINRAACNALLKTLEEPSPGRYLWLISAQPARLPATIRSRCQRLEFKLPPAHE  176 (319)
T ss_pred             cCCcEEEEeccHhhhCHHHHHHHHHHhhCCCCCCeEEEEECChhhCchHHHhhheEeeCCCcCHHH
Confidence            356679999999888777778888888876667777776664 445444433 5667787776654

>cd03216 ABC_Carb_Monos_I This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=96.97  E-value=0.0048  Score=50.79  Aligned_cols=117  Identities=16%  Similarity=0.169  Sum_probs=63.3

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCC--CCCHHHHHHHHHHHhCCCCCCcccHHHHHHHHHHhcC
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSD--TFDQIRIAKAIIEGLGKSASGLNEFQSLMSRIQSSIK  288 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~--~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~  288 (352)
                      -.+++|+|..|.|||||.+.+..-   .......+++.-..  ..+.....   ...++-.. ..+..+...-.+...+-
T Consensus        26 Ge~~~l~G~nGsGKSTLl~~i~G~---~~~~~G~v~~~g~~~~~~~~~~~~---~~~i~~~~-qLS~G~~qrl~laral~   98 (163)
T cd03216          26 GEVHALLGENGAGKSTLMKILSGL---YKPDSGEILVDGKEVSFASPRDAR---RAGIAMVY-QLSVGERQMVEIARALA   98 (163)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC---CCCCCeEEEECCEECCcCCHHHHH---hcCeEEEE-ecCHHHHHHHHHHHHHh
Confidence            468999999999999999999863   22334444443211  11111111   11111100 12222232333445555


Q ss_pred             CceEEEEecCCCCC-CccChhHHHHhhccC-CCCcEEEEecCChHHHH
Q 036619          289 GKKNFLVLDDVWDG-DYNKWQPFFRCLKNG-LHGSKILVTTRNESVAR  334 (352)
Q Consensus       289 ~kr~LlVlDdvw~~-~~~~~~~l~~~l~~~-~~gs~IivTTR~~~va~  334 (352)
                      .+.-++++|+.-.. |......+...+... ..|..||++|.+.....
T Consensus        99 ~~p~illlDEP~~~LD~~~~~~l~~~l~~~~~~~~tiii~sh~~~~~~  146 (163)
T cd03216          99 RNARLLILDEPTAALTPAEVERLFKVIRRLRAQGVAVIFISHRLDEVF  146 (163)
T ss_pred             cCCCEEEEECCCcCCCHHHHHHHHHHHHHHHHCCCEEEEEeCCHHHHH
Confidence            66778889987443 333445555555432 23667888888876444

The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses (such as xylose, arabinose, and ribose), that cannot be broken down to simple sugars by hydrolysis. Pentoses include xylose, arabinose, and ribose. Important hexoses include glucose, galactose, and fructose. In members of the Carb_monos family, the single hydrophobic gene product forms a homodimer while the ABC protein represents a fusion of two nucleotide-binding domains. However, it is assumed that two copies of the ABC domains are present in the assembled transporter.

>TIGR00959 ffh signal recognition particle protein

Probab=96.97  E-value=0.0089  Score=56.83  Aligned_cols=25  Identities=40%  Similarity=0.357  Sum_probs=21.4

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .+.++.++|.+|+||||++..+...
T Consensus        98 ~p~vi~~vG~~GsGKTTtaakLA~~  122 (428)
T TIGR00959        98 PPTVILMVGLQGSGKTTTCGKLAYY  122 (428)
T ss_pred             CCEEEEEECCCCCcHHHHHHHHHHH
Confidence            4789999999999999998777653

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.

>cd03282 ABC_MSH4_euk MutS4 homolog in eukaryotes

Probab=96.96  E-value=0.0046  Score=52.88  Aligned_cols=121  Identities=17%  Similarity=0.237  Sum_probs=63.3

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCC---cccHHHHHHHHHHhc
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSASG---LNEFQSLMSRIQSSI  287 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~---~~~~~~~~~~l~~~l  287 (352)
                      ..++.|.|+.|.||||+.+.+..-. +..+.  .++|.+.. .. -.+...|...++.....   ......-...+...+
T Consensus        29 ~~~~~l~G~n~~GKstll~~i~~~~-~la~~--G~~vpa~~-~~-l~~~d~I~~~~~~~d~~~~~~S~fs~e~~~~~~il  103 (204)
T cd03282          29 SRFHIITGPNMSGKSTYLKQIALLA-IMAQI--GCFVPAEY-AT-LPIFNRLLSRLSNDDSMERNLSTFASEMSETAYIL  103 (204)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHH-HHHHc--CCCcchhh-cC-ccChhheeEecCCccccchhhhHHHHHHHHHHHHH
Confidence            4789999999999999999887542 22121  11222111 11 12333444443332111   111110011122222


Q ss_pred             --CCceEEEEecCCCCC-CccC----hhHHHHhhccCCCCcEEEEecCChHHHHHhCC
Q 036619          288 --KGKKNFLVLDDVWDG-DYNK----WQPFFRCLKNGLHGSKILVTTRNESVARMMGS  338 (352)
Q Consensus       288 --~~kr~LlVlDdvw~~-~~~~----~~~l~~~l~~~~~gs~IivTTR~~~va~~~~~  338 (352)
                        ..++-|+++|..-.. +..+    ...+...+..  .|+.+|++|...+++..+..
T Consensus       104 ~~~~~~~lvllDE~~~gt~~~~~~~l~~~il~~l~~--~~~~~i~~TH~~~l~~~~~~  159 (204)
T cd03282         104 DYADGDSLVLIDELGRGTSSADGFAISLAILECLIK--KESTVFFATHFRDIAAILGN  159 (204)
T ss_pred             HhcCCCcEEEeccccCCCCHHHHHHHHHHHHHHHHh--cCCEEEEECChHHHHHHhhc
Confidence              356789999998542 1112    1123333333  37889999999999887653

The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal domain with a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding c

>PRK09354 recA recombinase A; Provisional

Probab=96.95  E-value=0.0043  Score=57.07  Aligned_cols=85  Identities=19%  Similarity=0.269  Sum_probs=56.9

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCCC-----CCcccHHHHHHHH
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSA-----SGLNEFQSLMSRI  283 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~-----~~~~~~~~~~~~l  283 (352)
                      +.-+++-|+|++|+|||||+.+++...  ...-..++||.....++..     .+++++...     ......++....+
T Consensus        58 p~G~IteI~G~~GsGKTtLal~~~~~~--~~~G~~~~yId~E~s~~~~-----~a~~lGvdld~lli~qp~~~Eq~l~i~  130 (349)
T PRK09354         58 PRGRIVEIYGPESSGKTTLALHAIAEA--QKAGGTAAFIDAEHALDPV-----YAKKLGVDIDNLLVSQPDTGEQALEIA  130 (349)
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHHHH--HHcCCcEEEECCccchHHH-----HHHHcCCCHHHeEEecCCCHHHHHHHH
Confidence            456899999999999999997776542  3334678899888877753     344444321     1122355555666


Q ss_pred             HHhcC-CceEEEEecCCC
Q 036619          284 QSSIK-GKKNFLVLDDVW  300 (352)
Q Consensus       284 ~~~l~-~kr~LlVlDdvw  300 (352)
                      ...++ ++--|||+|.|-
T Consensus       131 ~~li~s~~~~lIVIDSva  148 (349)
T PRK09354        131 DTLVRSGAVDLIVVDSVA  148 (349)
T ss_pred             HHHhhcCCCCEEEEeChh
Confidence            66554 456699999984

>PRK12727 flagellar biosynthesis regulator FlhF; Provisional

Probab=96.95  E-value=0.0056  Score=59.15  Aligned_cols=25  Identities=40%  Similarity=0.355  Sum_probs=21.7

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ...+++|+|++|+||||++.++...
T Consensus       349 ~G~vIaLVGPtGvGKTTtaakLAa~  373 (559)
T PRK12727        349 RGGVIALVGPTGAGKTTTIAKLAQR  373 (559)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHH
Confidence            3589999999999999999887764

>PRK10867 signal recognition particle protein; Provisional

Probab=96.94  E-value=0.01  Score=56.42  Aligned_cols=25  Identities=44%  Similarity=0.464  Sum_probs=21.0

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHh
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYN  233 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~  233 (352)
                      ..+.+|.++|.+|+||||++..+..
T Consensus        98 ~~p~vI~~vG~~GsGKTTtaakLA~  122 (433)
T PRK10867         98 KPPTVIMMVGLQGAGKTTTAGKLAK  122 (433)
T ss_pred             CCCEEEEEECCCCCcHHHHHHHHHH
Confidence            3478999999999999998866655

>TIGR01817 nifA Nif-specific regulatory protein

Probab=96.91  E-value=0.0044  Score=61.21  Aligned_cols=135  Identities=14%  Similarity=0.143  Sum_probs=73.7

Q ss_pred             CCccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHH
Q 036619          183 EGEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAI  262 (352)
Q Consensus       183 ~~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i  262 (352)
                      ...++|....+.++++.+..-.    ....-|.|+|..|+|||++|+.+++.-. + .-..-+.|+++.-..  ..+.. 
T Consensus       195 ~~~liG~s~~~~~~~~~~~~~a----~~~~pvli~Ge~GtGK~~lA~~ih~~s~-r-~~~pfv~i~c~~~~~--~~~~~-  265 (534)
T TIGR01817       195 EDGIIGKSPAMRQVVDQARVVA----RSNSTVLLRGESGTGKELIAKAIHYLSP-R-AKRPFVKVNCAALSE--TLLES-  265 (534)
T ss_pred             cCceEECCHHHHHHHHHHHHHh----CcCCCEEEECCCCccHHHHHHHHHHhCC-C-CCCCeEEeecCCCCH--HHHHH-
Confidence            3578999999999888776543    2233456999999999999999997421 1 111233344443211  22221 


Q ss_pred             HHHhCCCCCCc-ccHHHHHHHHHHhcCCceEEEEecCCCCCCccChhHHHHhhccCC---C--------CcEEEEecCCh
Q 036619          263 IEGLGKSASGL-NEFQSLMSRIQSSIKGKKNFLVLDDVWDGDYNKWQPFFRCLKNGL---H--------GSKILVTTRNE  330 (352)
Q Consensus       263 ~~~l~~~~~~~-~~~~~~~~~l~~~l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~---~--------gs~IivTTR~~  330 (352)
                        .+.+...+. .....  ...........=.|+||+|..........|...+..+.   .        ..+||.||...
T Consensus       266 --~lfg~~~~~~~~~~~--~~~g~~~~a~~GtL~ldei~~L~~~~Q~~Ll~~l~~~~~~~~~~~~~~~~~~riI~~s~~~  341 (534)
T TIGR01817       266 --ELFGHEKGAFTGAIA--QRKGRFELADGGTLFLDEIGEISPAFQAKLLRVLQEGEFERVGGNRTLKVDVRLVAATNRD  341 (534)
T ss_pred             --HHcCCCCCccCCCCc--CCCCcccccCCCeEEEechhhCCHHHHHHHHHHHhcCcEEECCCCceEeecEEEEEeCCCC
Confidence              121111100 00000  00000112234568999998766566777777775432   1        24788877543

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.

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

Probab=96.90  E-value=0.009  Score=52.47  Aligned_cols=125  Identities=18%  Similarity=0.169  Sum_probs=73.8

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCC-----CCCHHHHHHHHHHHhCCCCC------CcccHHHH
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSD-----TFDQIRIAKAIIEGLGKSAS------GLNEFQSL  279 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~-----~~~~~~~~~~i~~~l~~~~~------~~~~~~~~  279 (352)
                      -.+++|||..|.|||||++.+..   ....-...++..-.+     .....+-..++++.++....      ..-+..+.
T Consensus        39 ge~~glVGESG~GKSTlgr~i~~---L~~pt~G~i~f~g~~i~~~~~~~~~~~v~elL~~Vgl~~~~~~ryPhelSGGQr  115 (268)
T COG4608          39 GETLGLVGESGCGKSTLGRLILG---LEEPTSGEILFEGKDITKLSKEERRERVLELLEKVGLPEEFLYRYPHELSGGQR  115 (268)
T ss_pred             CCEEEEEecCCCCHHHHHHHHHc---CcCCCCceEEEcCcchhhcchhHHHHHHHHHHHHhCCCHHHhhcCCcccCchhh
Confidence            46899999999999999999996   333223333333211     11233345556666654321      11112222


Q ss_pred             H-HHHHHhcCCceEEEEecCCCCCCc-cChhHHHHhhcc--CCCCcEEEEecCChHHHHHhCC
Q 036619          280 M-SRIQSSIKGKKNFLVLDDVWDGDY-NKWQPFFRCLKN--GLHGSKILVTTRNESVARMMGS  338 (352)
Q Consensus       280 ~-~~l~~~l~~kr~LlVlDdvw~~~~-~~~~~l~~~l~~--~~~gs~IivTTR~~~va~~~~~  338 (352)
                      + -.|...|.-+.-|||.|..-+..+ ..-..+...+.+  ...|-..+..|.+-.|++.++.
T Consensus       116 QRi~IARALal~P~liV~DEpvSaLDvSiqaqIlnLL~dlq~~~~lt~lFIsHDL~vv~~isd  178 (268)
T COG4608         116 QRIGIARALALNPKLIVADEPVSALDVSVQAQILNLLKDLQEELGLTYLFISHDLSVVRYISD  178 (268)
T ss_pred             hhHHHHHHHhhCCcEEEecCchhhcchhHHHHHHHHHHHHHHHhCCeEEEEEEEHHhhhhhcc
Confidence            2 335667788899999998755422 222334444442  2336668888898888887654

>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional

Probab=96.90  E-value=0.0041  Score=63.31  Aligned_cols=134  Identities=16%  Similarity=0.233  Sum_probs=73.8

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHH-H
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKA-I  262 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~-i  262 (352)
                      ..++|+...+..+.+.+..-.    ....-|.|+|..|+|||++|+.+++... +. -...+.+++..-.  ...+.. +
T Consensus       376 ~~liG~S~~~~~~~~~~~~~a----~~~~pVLI~GE~GTGK~~lA~~ih~~s~-r~-~~~~v~i~c~~~~--~~~~~~~l  447 (686)
T PRK15429        376 GEIIGRSEAMYSVLKQVEMVA----QSDSTVLILGETGTGKELIARAIHNLSG-RN-NRRMVKMNCAAMP--AGLLESDL  447 (686)
T ss_pred             cceeecCHHHHHHHHHHHHHh----CCCCCEEEECCCCcCHHHHHHHHHHhcC-CC-CCCeEEEecccCC--hhHhhhhh
Confidence            468999988888877765433    2234577999999999999999987421 11 1233444444321  122221 1


Q ss_pred             HHHhCCCCCCcccHHHHHHHHHHhcCCceEEEEecCCCCCCccChhHHHHhhccCC-----------CCcEEEEecCCh
Q 036619          263 IEGLGKSASGLNEFQSLMSRIQSSIKGKKNFLVLDDVWDGDYNKWQPFFRCLKNGL-----------HGSKILVTTRNE  330 (352)
Q Consensus       263 ~~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~-----------~gs~IivTTR~~  330 (352)
                      .....+...+..  ......+   -....=.|+||+|.....+....|...+..+.           .+.|||.||...
T Consensus       448 fg~~~~~~~g~~--~~~~g~l---e~a~~GtL~Ldei~~L~~~~Q~~L~~~l~~~~~~~~g~~~~~~~~~RiI~~t~~~  521 (686)
T PRK15429        448 FGHERGAFTGAS--AQRIGRF---ELADKSSLFLDEVGDMPLELQPKLLRVLQEQEFERLGSNKIIQTDVRLIAATNRD  521 (686)
T ss_pred             cCcccccccccc--cchhhHH---HhcCCCeEEEechhhCCHHHHHHHHHHHHhCCEEeCCCCCcccceEEEEEeCCCC
Confidence            111111001100  0011111   12234579999998766556667777775431           245888888654

>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH

Probab=96.87  E-value=0.0066  Score=59.33  Aligned_cols=51  Identities=29%  Similarity=0.277  Sum_probs=33.3

Q ss_pred             CccccccchHHHHHHHH---cCccc---cCCCCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          184 GEVCGRVDEKSELFSKL---LCESS---EQQNGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L---~~~~~---~~~~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .++.|.++.++++.+.+   .....   .+...++-+.++|++|+|||+||+.+.+.
T Consensus        55 ~di~g~~~~k~~l~~~~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~la~alA~~  111 (495)
T TIGR01241        55 KDVAGIDEAKEELMEIVDFLKNPSKFTKLGAKIPKGVLLVGPPGTGKTLLAKAVAGE  111 (495)
T ss_pred             HHhCCHHHHHHHHHHHHHHHHCHHHHHhcCCCCCCcEEEECCCCCCHHHHHHHHHHH
Confidence            45778777666554433   22110   01123455789999999999999999874

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.

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

Probab=96.87  E-value=0.0077  Score=53.71  Aligned_cols=90  Identities=20%  Similarity=0.198  Sum_probs=61.2

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHH-hCC----CCCCcccHHHHHHHH
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEG-LGK----SASGLNEFQSLMSRI  283 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~-l~~----~~~~~~~~~~~~~~l  283 (352)
                      +.-+++=|+|+.|.||||||-+++-.  ....-..++||+.-+.++++.+.. +... +..    ..........+...+
T Consensus        58 ~~g~ItEiyG~~gsGKT~lal~~~~~--aq~~g~~a~fIDtE~~l~p~r~~~-l~~~~~d~l~v~~~~~~e~q~~i~~~~  134 (279)
T COG0468          58 PRGRITEIYGPESSGKTTLALQLVAN--AQKPGGKAAFIDTEHALDPERAKQ-LGVDLLDNLLVSQPDTGEQQLEIAEKL  134 (279)
T ss_pred             ccceEEEEecCCCcchhhHHHHHHHH--hhcCCCeEEEEeCCCCCCHHHHHH-HHHhhhcceeEecCCCHHHHHHHHHHH
Confidence            56789999999999999999776653  444455899999999999887643 3333 221    122223334455555


Q ss_pred             HHhcCCceEEEEecCCCC
Q 036619          284 QSSIKGKKNFLVLDDVWD  301 (352)
Q Consensus       284 ~~~l~~kr~LlVlDdvw~  301 (352)
                      ......+--|||+|.+-.
T Consensus       135 ~~~~~~~i~LvVVDSvaa  152 (279)
T COG0468         135 ARSGAEKIDLLVVDSVAA  152 (279)
T ss_pred             HHhccCCCCEEEEecCcc
Confidence            555555567999999844

>TIGR02236 recomb_radA DNA repair and recombination protein RadA

Probab=96.87  E-value=0.007  Score=55.40  Aligned_cols=92  Identities=20%  Similarity=0.237  Sum_probs=56.5

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHhhhhhhc----cCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCC---------Cccc
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYNNDEVKR----NFEKVIWVCVSDTFDQIRIAKAIIEGLGKSAS---------GLNE  275 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~----~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~---------~~~~  275 (352)
                      +.-.++-|+|.+|+|||||+.+++-......    .=..++||.....|+..++. ++++.++....         ...+
T Consensus        93 ~~g~i~ei~G~~g~GKT~l~~~~~~~~~~~~~~g~~~~~~~yi~te~~f~~~rl~-~~~~~~gl~~~~~~~~i~i~~~~~  171 (310)
T TIGR02236        93 ETQAITEVFGEFGSGKTQICHQLAVNVQLPEEKGGLGGKAVYIDTENTFRPERIM-QMAEARGLDPDEVLKNIYVARAYN  171 (310)
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHhcCCcccCCCcceEEEEECCCCCCHHHHH-HHHHHcCCCHHHHhhceEEEecCC
Confidence            4468899999999999999977765432210    11379999999988887754 44444443210         0011


Q ss_pred             ---HHHHHHHHHHhcCCc---eEEEEecCCCC
Q 036619          276 ---FQSLMSRIQSSIKGK---KNFLVLDDVWD  301 (352)
Q Consensus       276 ---~~~~~~~l~~~l~~k---r~LlVlDdvw~  301 (352)
                         ...+...+.+.+...   --+||+|.+-.
T Consensus       172 ~~~~~~lld~l~~~i~~~~~~~~lVVIDSisa  203 (310)
T TIGR02236       172 SNHQMLLVEKAEDLIKELNNPVKLLIVDSLTS  203 (310)
T ss_pred             HHHHHHHHHHHHHHHHhcCCCceEEEEecchH
Confidence               112334455555332   44999999853

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.

>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=96.87  E-value=0.0062  Score=52.75  Aligned_cols=22  Identities=27%  Similarity=0.413  Sum_probs=19.8

Q ss_pred             EEEEEecCCCcHHHHHHHHHhh
Q 036619          213 VISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      +|+|.|..|+||||||+.+...
T Consensus         1 IigI~G~sGSGKTTla~~L~~~   22 (220)
T cd02025           1 IIGIAGSVAVGKSTTARVLQAL   22 (220)
T ss_pred             CEEeeCCCCCCHHHHHHHHHHH
Confidence            5899999999999999998874

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

>cd03230 ABC_DR_subfamily_A This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity

Probab=96.86  E-value=0.01  Score=49.24  Aligned_cols=119  Identities=20%  Similarity=0.237  Sum_probs=62.6

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhC---CCC---CC--------cccH
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLG---KSA---SG--------LNEF  276 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~---~~~---~~--------~~~~  276 (352)
                      -.+++|+|..|.|||||.+.+....   ......+++.-..-.+..   ..+...++   ...   ..        .+.-
T Consensus        26 Ge~~~i~G~nGsGKStLl~~l~G~~---~~~~G~i~~~g~~~~~~~---~~~~~~i~~~~q~~~~~~~~tv~~~~~LS~G   99 (173)
T cd03230          26 GEIYGLLGPNGAGKTTLIKIILGLL---KPDSGEIKVLGKDIKKEP---EEVKRRIGYLPEEPSLYENLTVRENLKLSGG   99 (173)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCCC---CCCCeEEEECCEEcccch---HhhhccEEEEecCCccccCCcHHHHhhcCHH
Confidence            4689999999999999999998642   122333333211000000   01111111   000   00        1112


Q ss_pred             HHHHHHHHHhcCCceEEEEecCCCCC-CccChhHHHHhhccC-CCCcEEEEecCChHHHHH
Q 036619          277 QSLMSRIQSSIKGKKNFLVLDDVWDG-DYNKWQPFFRCLKNG-LHGSKILVTTRNESVARM  335 (352)
Q Consensus       277 ~~~~~~l~~~l~~kr~LlVlDdvw~~-~~~~~~~l~~~l~~~-~~gs~IivTTR~~~va~~  335 (352)
                      +...-.+...|..++=++++|+.-.. |......+...+... ..|..||++|.+......
T Consensus       100 ~~qrv~laral~~~p~illlDEPt~~LD~~~~~~l~~~l~~~~~~g~tiii~th~~~~~~~  160 (173)
T cd03230         100 MKQRLALAQALLHDPELLILDEPTSGLDPESRREFWELLRELKKEGKTILLSSHILEEAER  160 (173)
T ss_pred             HHHHHHHHHHHHcCCCEEEEeCCccCCCHHHHHHHHHHHHHHHHCCCEEEEECCCHHHHHH
Confidence            22223455566677788999987543 323344455555432 236779999988876653

In bacteria and archaea, these transporters usually include an ATP-binding protein and one or two integral membrane proteins. Eukaryote systems of the ABCA subfamily display ABC domains that are quite similar to this family. The ATP-binding domain shows the highest similarity between all members of the ABC transporter family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

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

Probab=96.84  E-value=0.0066  Score=51.46  Aligned_cols=22  Identities=41%  Similarity=0.530  Sum_probs=20.3

Q ss_pred             EEEEEecCCCcHHHHHHHHHhh
Q 036619          213 VISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ||+|.|.+|+||||||+.+...
T Consensus         1 IIgI~G~sgSGKTTla~~L~~~   22 (194)
T PF00485_consen    1 IIGIAGPSGSGKTTLAKRLAQI   22 (194)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            6999999999999999999874

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 ....

>PRK14974 cell division protein FtsY; Provisional

Probab=96.83  E-value=0.017  Score=53.23  Aligned_cols=56  Identities=34%  Similarity=0.385  Sum_probs=33.7

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCC--HHHHHHHHHHHhCC
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFD--QIRIAKAIIEGLGK  268 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~--~~~~~~~i~~~l~~  268 (352)
                      ++.++.++|++|+||||++..+..... ...+ .++.+. .+.+.  ....+......++.
T Consensus       139 ~~~vi~~~G~~GvGKTTtiakLA~~l~-~~g~-~V~li~-~Dt~R~~a~eqL~~~a~~lgv  196 (336)
T PRK14974        139 KPVVIVFVGVNGTGKTTTIAKLAYYLK-KNGF-SVVIAA-GDTFRAGAIEQLEEHAERLGV  196 (336)
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHHH-HcCC-eEEEec-CCcCcHHHHHHHHHHHHHcCC
Confidence            478999999999999998888776422 2233 333343 33332  22334455555543

>KOG1514 consensus Origin recognition complex, subunit 1, and related proteins [Replication, recombination and repair]

Probab=96.83  E-value=0.012  Score=57.85  Aligned_cols=142  Identities=18%  Similarity=0.109  Sum_probs=87.2

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhh------hhccCCeEEEEEeCCCCCHHH
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDE------VKRNFEKVIWVCVSDTFDQIR  257 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~------~~~~F~~~~wv~vs~~~~~~~  257 (352)
                      ..+-+|+.+..+|..++...-+. +..-+.+-|.|.+|.|||.++..|.+.-.      --..|+ .+.|+.-.-....+
T Consensus       396 ~sLpcRe~E~~~I~~f~~~~i~~-~~~g~~mYIsGvPGtGKT~tV~~Vm~~Lq~~s~~~e~p~f~-yveINgm~l~~~~~  473 (767)
T KOG1514|consen  396 ESLPCRENEFSEIEDFLRSFISD-QGLGSCMYISGVPGTGKTATVLEVMKELQTSSAQKELPKFD-YVEINGLRLASPRE  473 (767)
T ss_pred             ccccchhHHHHHHHHHHHhhcCC-CCCceeEEEecCCCCCceehHHHHHHHHHHHHhhcCCCCcc-EEEEcceeecCHHH
Confidence            35678999999998887544322 13345899999999999999999998522      112343 34455555567889


Q ss_pred             HHHHHHHHhCCCCCC-cccHHHHHHHHHH-hcCCceEEEEecCCCCCCccChhHHHHhhcc-CCCCcEEEEec
Q 036619          258 IAKAIIEGLGKSASG-LNEFQSLMSRIQS-SIKGKKNFLVLDDVWDGDYNKWQPFFRCLKN-GLHGSKILVTT  327 (352)
Q Consensus       258 ~~~~i~~~l~~~~~~-~~~~~~~~~~l~~-~l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~-~~~gs~IivTT  327 (352)
                      +...|...+.+.... ...++.+...+.. .-+.+..+|++|++...=...-+-+...|.+ ..++||++|.+
T Consensus       474 ~Y~~I~~~lsg~~~~~~~al~~L~~~f~~~k~~~~~~VvLiDElD~Lvtr~QdVlYn~fdWpt~~~sKLvvi~  546 (767)
T KOG1514|consen  474 IYEKIWEALSGERVTWDAALEALNFRFTVPKPKRSTTVVLIDELDILVTRSQDVLYNIFDWPTLKNSKLVVIA  546 (767)
T ss_pred             HHHHHHHhcccCcccHHHHHHHHHHhhccCCCCCCCEEEEeccHHHHhcccHHHHHHHhcCCcCCCCceEEEE
Confidence            999999999876432 2223332222220 0134568889998743210112334455553 35688876654

>PRK11608 pspF phage shock protein operon transcriptional activator; Provisional

Probab=96.82  E-value=0.0041  Score=57.31  Aligned_cols=134  Identities=13%  Similarity=0.147  Sum_probs=71.5

Q ss_pred             ccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHH
Q 036619          185 EVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIE  264 (352)
Q Consensus       185 ~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~  264 (352)
                      .++|....+.++.+.+..-.    ....-|.|+|..|+||+++|+.++..-  ...-..-+.|++... +...+-..+..
T Consensus         7 ~liG~S~~~~~~~~~i~~~a----~~~~pVlI~GE~GtGK~~lA~~iH~~s--~r~~~pfv~v~c~~~-~~~~~~~~lfg   79 (326)
T PRK11608          7 NLLGEANSFLEVLEQVSRLA----PLDKPVLIIGERGTGKELIASRLHYLS--SRWQGPFISLNCAAL-NENLLDSELFG   79 (326)
T ss_pred             ccEECCHHHHHHHHHHHHHh----CCCCCEEEECCCCCcHHHHHHHHHHhC--CccCCCeEEEeCCCC-CHHHHHHHHcc
Confidence            58899888888888776544    223446699999999999999998631  111112334444432 22222222221


Q ss_pred             HhCCCCCCcccHHHHHHHHHHhcCCceEEEEecCCCCCCccChhHHHHhhccCC----C-------CcEEEEecCCh
Q 036619          265 GLGKSASGLNEFQSLMSRIQSSIKGKKNFLVLDDVWDGDYNKWQPFFRCLKNGL----H-------GSKILVTTRNE  330 (352)
Q Consensus       265 ~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~----~-------gs~IivTTR~~  330 (352)
                      .-.....+...  .....+   .....=.|+||+|..........|...+..+.    .       ..+||.||...
T Consensus        80 ~~~~~~~g~~~--~~~g~l---~~a~gGtL~l~~i~~L~~~~Q~~L~~~l~~~~~~~~g~~~~~~~~~RiI~~s~~~  151 (326)
T PRK11608         80 HEAGAFTGAQK--RHPGRF---ERADGGTLFLDELATAPMLVQEKLLRVIEYGELERVGGSQPLQVNVRLVCATNAD  151 (326)
T ss_pred             ccccccCCccc--ccCCch---hccCCCeEEeCChhhCCHHHHHHHHHHHhcCcEEeCCCCceeeccEEEEEeCchh
Confidence            10000000000  000111   12223358899998766556677777775432    1       25788877543

>PRK12726 flagellar biosynthesis regulator FlhF; Provisional

Probab=96.81  E-value=0.016  Score=53.84  Aligned_cols=91  Identities=19%  Similarity=0.157  Sum_probs=52.1

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCC-CHHHHHHHHHHHhCCCCCCcccHHHHHHHHHHhc
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTF-DQIRIAKAIIEGLGKSASGLNEFQSLMSRIQSSI  287 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~-~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l  287 (352)
                      ...+++.++|+.|+||||++..+.... .... ..+.+|+....- ....-++...+.++.......+..++...+...-
T Consensus       204 ~~~~ii~lvGptGvGKTTt~akLA~~l-~~~g-~~V~lItaDtyR~gAveQLk~yae~lgvpv~~~~dp~dL~~al~~l~  281 (407)
T PRK12726        204 SNHRIISLIGQTGVGKTTTLVKLGWQL-LKQN-RTVGFITTDTFRSGAVEQFQGYADKLDVELIVATSPAELEEAVQYMT  281 (407)
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHHHH-HHcC-CeEEEEeCCccCccHHHHHHHHhhcCCCCEEecCCHHHHHHHHHHHH
Confidence            346899999999999999998887642 2222 345566654321 2244555555555433222234455544444332


Q ss_pred             C-CceEEEEecCCCC
Q 036619          288 K-GKKNFLVLDDVWD  301 (352)
Q Consensus       288 ~-~kr~LlVlDdvw~  301 (352)
                      . +..=+|++|-...
T Consensus       282 ~~~~~D~VLIDTAGr  296 (407)
T PRK12726        282 YVNCVDHILIDTVGR  296 (407)
T ss_pred             hcCCCCEEEEECCCC
Confidence            1 3345777787754

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

Probab=96.81  E-value=0.014  Score=48.40  Aligned_cols=22  Identities=55%  Similarity=0.573  Sum_probs=19.6

Q ss_pred             EEEEEecCCCcHHHHHHHHHhh
Q 036619          213 VISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ++.++|++|+||||++..+...
T Consensus         2 ~~~~~G~~G~GKTt~~~~la~~   23 (173)
T cd03115           2 VILLVGLQGVGKTTTAAKLALY   23 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            6789999999999999888864

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.

>PRK07667 uridine kinase; Provisional

Probab=96.80  E-value=0.002  Score=54.62  Aligned_cols=38  Identities=24%  Similarity=0.289  Sum_probs=29.7

Q ss_pred             HHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          193 KSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       193 ~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .+.+.+.+....    ....+|+|-|.+|+||||+|+.+...
T Consensus         3 ~~~~~~~~~~~~----~~~~iIgI~G~~gsGKStla~~L~~~   40 (193)
T PRK07667          3 TNELINIMKKHK----ENRFILGIDGLSRSGKTTFVANLKEN   40 (193)
T ss_pred             HHHHHHHHHhcC----CCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            456666665544    34589999999999999999998874

>PRK09270 nucleoside triphosphate hydrolase domain-containing protein; Reviewed

Probab=96.77  E-value=0.0071  Score=52.76  Aligned_cols=26  Identities=27%  Similarity=0.414  Sum_probs=23.4

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ....+++|.|+.|.|||||++.+...
T Consensus        31 ~~~~iigi~G~~GsGKTTl~~~L~~~   56 (229)
T PRK09270         31 QRRTIVGIAGPPGAGKSTLAEFLEAL   56 (229)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            55799999999999999999988864

>TIGR00554 panK_bact pantothenate kinase, bacterial type

Probab=96.76  E-value=0.011  Score=53.27  Aligned_cols=25  Identities=28%  Similarity=0.339  Sum_probs=21.8

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHh
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYN  233 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~  233 (352)
                      ..+.+|+|.|..|+||||||+.+..
T Consensus        60 ~~p~IIGIaG~~GSGKSTlar~L~~   84 (290)
T TIGR00554        60 KIPYIISIAGSVAVGKSTTARILQA   84 (290)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHH
Confidence            4578999999999999999987754

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.

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

Probab=96.74  E-value=0.001  Score=55.14  Aligned_cols=88  Identities=16%  Similarity=0.187  Sum_probs=53.2

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhhhhhh-ccCCeEEEEEeCCCCCHH---HHHHHHHHHhCCCCCCcccHHHHHHHHHHh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNNDEVK-RNFEKVIWVCVSDTFDQI---RIAKAIIEGLGKSASGLNEFQSLMSRIQSS  286 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~-~~F~~~~wv~vs~~~~~~---~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~  286 (352)
                      ..++.+.|+.|+|||.||+.+..-  .. +.....+-++++.-..-.   ..+..+...    .+.  ...         
T Consensus         3 ~~~~ll~GpsGvGKT~la~~la~~--l~~~~~~~~~~~d~s~~~~~~~~~~~~~~l~~~----~~~--~v~---------   65 (171)
T PF07724_consen    3 KSNFLLAGPSGVGKTELAKALAEL--LFVGSERPLIRIDMSEYSEGDDVESSVSKLLGS----PPG--YVG---------   65 (171)
T ss_dssp             SEEEEEESSTTSSHHHHHHHHHHH--HT-SSCCEEEEEEGGGHCSHHHCSCHCHHHHHH----TTC--HHH---------
T ss_pred             EEEEEEECCCCCCHHHHHHHHHHH--hccCCccchHHHhhhcccccchHHhhhhhhhhc----ccc--eee---------
Confidence            578889999999999999999873  33 344456666665543311   111111110    000  000         


Q ss_pred             cCCceEEEEecCCCCCCc-----------cChhHHHHhhcc
Q 036619          287 IKGKKNFLVLDDVWDGDY-----------NKWQPFFRCLKN  316 (352)
Q Consensus       287 l~~kr~LlVlDdvw~~~~-----------~~~~~l~~~l~~  316 (352)
                       ....-+|+||++.....           ..|+.|+..+..
T Consensus        66 -~~~~gVVllDEidKa~~~~~~~~~v~~~~V~~~LL~~le~  105 (171)
T PF07724_consen   66 -AEEGGVVLLDEIDKAHPSNSGGADVSGEGVQNSLLQLLEG  105 (171)
T ss_dssp             -HHHHTEEEEETGGGCSHTTTTCSHHHHHHHHHHHHHHHHH
T ss_pred             -ccchhhhhhHHHhhccccccccchhhHHHHHHHHHHHhcc
Confidence             00111999999988877           678888888864

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

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

Probab=96.72  E-value=0.0016  Score=61.96  Aligned_cols=51  Identities=22%  Similarity=0.195  Sum_probs=36.0

Q ss_pred             CccccccchHHHHHHHHcCccc-------cCCCCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          184 GEVCGRVDEKSELFSKLLCESS-------EQQNGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~-------~~~~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .++.|.+..+++|.+.+.-.-.       -+-....-+.++|++|+|||+||+.+++.
T Consensus       183 ~DIgGl~~qi~~l~e~v~lpl~~p~~~~~~gi~~p~gVLL~GPPGTGKT~LAraIA~e  240 (438)
T PTZ00361        183 ADIGGLEQQIQEIKEAVELPLTHPELYDDIGIKPPKGVILYGPPGTGKTLLAKAVANE  240 (438)
T ss_pred             HHhcCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHh
Confidence            4578888888888776632110       01123456779999999999999999984

>cd01125 repA Hexameric Replicative Helicase RepA

Probab=96.71  E-value=0.013  Score=51.55  Aligned_cols=22  Identities=36%  Similarity=0.456  Sum_probs=18.6

Q ss_pred             EEEEEecCCCcHHHHHHHHHhh
Q 036619          213 VISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      +..|+|++|+|||+|+..+.-.
T Consensus         3 ~~ll~g~~G~GKS~lal~la~~   24 (239)
T cd01125           3 VSALVAPGGTGKSSLLLVLALA   24 (239)
T ss_pred             eeEEEcCCCCCHHHHHHHHHHH
Confidence            5678999999999999877653

RepA is encoded by a plasmid, which is found in most Gram negative bacteria. RepA is a 5'-3' DNA helicase which can utilize ATP, GTP and CTP to a lesser extent.

>KOG0741 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=96.71  E-value=0.017  Score=55.17  Aligned_cols=122  Identities=23%  Similarity=0.225  Sum_probs=66.5

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCcccHHHHHHHHHHhcC
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSASGLNEFQSLMSRIQSSIK  288 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~  288 (352)
                      ..+..+.+.|++|+|||+||..+..    ...|..+=-++..+-..+.+               ......+.....+.-+
T Consensus       536 s~lvSvLl~Gp~~sGKTaLAA~iA~----~S~FPFvKiiSpe~miG~sE---------------saKc~~i~k~F~DAYk  596 (744)
T KOG0741|consen  536 SPLVSVLLEGPPGSGKTALAAKIAL----SSDFPFVKIISPEDMIGLSE---------------SAKCAHIKKIFEDAYK  596 (744)
T ss_pred             CcceEEEEecCCCCChHHHHHHHHh----hcCCCeEEEeChHHccCccH---------------HHHHHHHHHHHHHhhc
Confidence            4577788999999999999988885    34564333222111000000               0011122233334445


Q ss_pred             CceEEEEecCCCCC-----Cc-----cChhHHHHhhccC-CCCcEE--EEecCChHHHHHhCC----CCeeeCCCCCC
Q 036619          289 GKKNFLVLDDVWDG-----DY-----NKWQPFFRCLKNG-LHGSKI--LVTTRNESVARMMGS----TDIISIEQLAE  349 (352)
Q Consensus       289 ~kr~LlVlDdvw~~-----~~-----~~~~~l~~~l~~~-~~gs~I--ivTTR~~~va~~~~~----~~~~~l~~L~~  349 (352)
                      ..--.||+||+..-     --     -....|+-.|... ..|-|.  +-||....|...|+-    ...|++..|+.
T Consensus       597 S~lsiivvDdiErLiD~vpIGPRfSN~vlQaL~VllK~~ppkg~kLli~~TTS~~~vL~~m~i~~~F~~~i~Vpnl~~  674 (744)
T KOG0741|consen  597 SPLSIIVVDDIERLLDYVPIGPRFSNLVLQALLVLLKKQPPKGRKLLIFGTTSRREVLQEMGILDCFSSTIHVPNLTT  674 (744)
T ss_pred             CcceEEEEcchhhhhcccccCchhhHHHHHHHHHHhccCCCCCceEEEEecccHHHHHHHcCHHHhhhheeecCccCc
Confidence            66679999998331     00     1123333444433 335554  447777788887764    44667766654

>PRK07993 DNA polymerase III subunit delta'; Validated

Probab=96.68  E-value=0.015  Score=53.59  Aligned_cols=147  Identities=10%  Similarity=0.105  Sum_probs=81.5

Q ss_pred             hHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCC--
Q 036619          192 EKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKS--  269 (352)
Q Consensus       192 ~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~--  269 (352)
                      .-+++.+.+..+.     -..-+.+.|+.|+||+++|..+...--..+..+.       ..++.=...+.+...-.+.  
T Consensus        10 ~~~~l~~~~~~~r-----l~HA~Lf~G~~G~Gk~~lA~~~A~~LlC~~~~~~-------~~Cg~C~sC~~~~~g~HPD~~   77 (334)
T PRK07993         10 DYEQLVGSYQAGR-----GHHALLIQALPGMGDDALIYALSRWLMCQQPQGH-------KSCGHCRGCQLMQAGTHPDYY   77 (334)
T ss_pred             HHHHHHHHHHcCC-----cceEEeeECCCCCCHHHHHHHHHHHHcCCCCCCC-------CCCCCCHHHHHHHcCCCCCEE
Confidence            3455666664432     3567789999999999999887653211111000       0001001111111100000  


Q ss_pred             ---CC---CcccHHHHHHHHHHhc-----CCceEEEEecCCCCCCccChhHHHHhhccCCCCcEEEEecCC-hHHHHHhC
Q 036619          270 ---AS---GLNEFQSLMSRIQSSI-----KGKKNFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKILVTTRN-ESVARMMG  337 (352)
Q Consensus       270 ---~~---~~~~~~~~~~~l~~~l-----~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTTR~-~~va~~~~  337 (352)
                         +.   ..-..+++.+ +.+.+     .+++-++|+|++..++.+.-+.|+..+..-..++.+|++|.+ ..+...+.
T Consensus        78 ~i~p~~~~~~I~idqiR~-l~~~~~~~~~~g~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~lLpTIr  156 (334)
T PRK07993         78 TLTPEKGKSSLGVDAVRE-VTEKLYEHARLGGAKVVWLPDAALLTDAAANALLKTLEEPPENTWFFLACREPARLLATLR  156 (334)
T ss_pred             EEecccccccCCHHHHHH-HHHHHhhccccCCceEEEEcchHhhCHHHHHHHHHHhcCCCCCeEEEEEECChhhChHHHH
Confidence               00   0112333222 22222     466779999999988878888999999877777777777765 44554443


Q ss_pred             C-CCeeeCCCCCCCc
Q 036619          338 S-TDIISIEQLAEEE  351 (352)
Q Consensus       338 ~-~~~~~l~~L~~~e  351 (352)
                      + ...+.+.++++++
T Consensus       157 SRCq~~~~~~~~~~~  171 (334)
T PRK07993        157 SRCRLHYLAPPPEQY  171 (334)
T ss_pred             hccccccCCCCCHHH
Confidence            3 5567888777654

>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family

Probab=96.68  E-value=0.013  Score=51.29  Aligned_cols=114  Identities=18%  Similarity=0.247  Sum_probs=65.5

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCC----------------C--
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKS----------------A--  270 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~----------------~--  270 (352)
                      +.-+++.|.|.+|+|||+||.++... .. ..-..++|++...  +...+.+.+. +++-.                .  
T Consensus        19 ~~gs~~lI~G~pGsGKT~la~~~l~~-~~-~~ge~~lyvs~ee--~~~~i~~~~~-~~g~~~~~~~~~g~l~~~d~~~~~   93 (237)
T TIGR03877        19 PERNVVLLSGGPGTGKSIFSQQFLWN-GL-QMGEPGIYVALEE--HPVQVRRNMA-QFGWDVRKYEEEGKFAIVDAFTGG   93 (237)
T ss_pred             cCCeEEEEEcCCCCCHHHHHHHHHHH-HH-HcCCcEEEEEeeC--CHHHHHHHHH-HhCCCHHHHhhcCCEEEEeccccc
Confidence            45689999999999999999665442 12 2345788888765  4445554432 22110                0  


Q ss_pred             ------------CCcccHHHHHHHHHHhcCC-ceEEEEecCCCCCCccC---h----hHHHHhhccCCCCcEEEEecCC
Q 036619          271 ------------SGLNEFQSLMSRIQSSIKG-KKNFLVLDDVWDGDYNK---W----QPFFRCLKNGLHGSKILVTTRN  329 (352)
Q Consensus       271 ------------~~~~~~~~~~~~l~~~l~~-kr~LlVlDdvw~~~~~~---~----~~l~~~l~~~~~gs~IivTTR~  329 (352)
                                  ....+.+.+...+.+.++. +.-++|+|.+-.-....   .    ..+...+.  ..|..+|+|+..
T Consensus        94 ~~~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~vVIDSls~l~~~~~~~~r~~l~~l~~~lk--~~~~t~llt~~~  170 (237)
T TIGR03877        94 IGEAAEREKYVVKDPTDVRELIDVLRQAIRDINAKRVVIDSVTTLYITKPAMARSIVMQLKRVLS--GLGCTSIFVSQV  170 (237)
T ss_pred             cccccccccccccCcccHHHHHHHHHHHHHHhCCCEEEEcChhHhhcCChHHHHHHHHHHHHHHH--hCCCEEEEEECc
Confidence                        0123556667777766633 34479999985421111   1    11222332  447778888754

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.

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

Probab=96.68  E-value=0.026  Score=48.69  Aligned_cols=57  Identities=16%  Similarity=0.210  Sum_probs=34.1

Q ss_pred             HHHHhcCCceEEEEecCCCCC-CccChhHHHHhhcc--CCCCcEEEEecCChHHHHHhCC
Q 036619          282 RIQSSIKGKKNFLVLDDVWDG-DYNKWQPFFRCLKN--GLHGSKILVTTRNESVARMMGS  338 (352)
Q Consensus       282 ~l~~~l~~kr~LlVlDdvw~~-~~~~~~~l~~~l~~--~~~gs~IivTTR~~~va~~~~~  338 (352)
                      .|.+.|.-+.-+||+|..-+. |...-..+...|..  ...+--+|+.|.+-.++..++.
T Consensus       151 aIARAL~~~PklLIlDEptSaLD~siQa~IlnlL~~l~~~~~lt~l~IsHdl~~v~~~cd  210 (252)
T COG1124         151 AIARALIPEPKLLILDEPTSALDVSVQAQILNLLLELKKERGLTYLFISHDLALVEHMCD  210 (252)
T ss_pred             HHHHHhccCCCEEEecCchhhhcHHHHHHHHHHHHHHHHhcCceEEEEeCcHHHHHHHhh
Confidence            355667778889999987443 11112223333332  2335568889999887776654

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=96.67  E-value=0.0037  Score=64.12  Aligned_cols=51  Identities=22%  Similarity=0.195  Sum_probs=36.2

Q ss_pred             CccccccchHHHHHHHHcCccc-------cCCCCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          184 GEVCGRVDEKSELFSKLLCESS-------EQQNGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~-------~~~~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .++.|.+..++++.+.+...-.       -+-...+-+.++|++|+|||+||+.+.+.
T Consensus       178 ~di~G~~~~~~~l~~~i~~~~~~~~~~~~~gi~~~~giLL~GppGtGKT~laraia~~  235 (733)
T TIGR01243       178 EDIGGLKEAKEKIREMVELPMKHPELFEHLGIEPPKGVLLYGPPGTGKTLLAKAVANE  235 (733)
T ss_pred             HHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCceEEEECCCCCChHHHHHHHHHH
Confidence            3578999888888776632110       01123456789999999999999999874

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.

>TIGR02858 spore_III_AA stage III sporulation protein AA

Probab=96.66  E-value=0.041  Score=49.14  Aligned_cols=129  Identities=14%  Similarity=0.121  Sum_probs=68.6

Q ss_pred             hHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCC
Q 036619          192 EKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSAS  271 (352)
Q Consensus       192 ~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~  271 (352)
                      ..+.++..|...     .....+.|+|+.|.|||||.+.+....   ......+++.-.. .....-..++...+..-+.
T Consensus        97 ~~~~~l~~l~~~-----~~~~~~~i~g~~g~GKttl~~~l~~~~---~~~~G~i~~~g~~-v~~~d~~~ei~~~~~~~~q  167 (270)
T TIGR02858        97 AADKLLPYLVRN-----NRVLNTLIISPPQCGKTTLLRDLARIL---STGISQLGLRGKK-VGIVDERSEIAGCVNGVPQ  167 (270)
T ss_pred             cHHHHHHHHHhC-----CCeeEEEEEcCCCCCHHHHHHHHhCcc---CCCCceEEECCEE-eecchhHHHHHHHhccccc
Confidence            445556666532     235789999999999999999999742   2222333332100 0000011233322221100


Q ss_pred             --------CcccHHHHHHHHHHhc-CCceEEEEecCCCCCCccChhHHHHhhccCCCCcEEEEecCChHHHHH
Q 036619          272 --------GLNEFQSLMSRIQSSI-KGKKNFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKILVTTRNESVARM  335 (352)
Q Consensus       272 --------~~~~~~~~~~~l~~~l-~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTTR~~~va~~  335 (352)
                              -...... ...+...+ ...+-+|++|.+-..  +.+..+...+.   .|..||+||....+...
T Consensus       168 ~~~~~r~~v~~~~~k-~~~~~~~i~~~~P~villDE~~~~--e~~~~l~~~~~---~G~~vI~ttH~~~~~~~  234 (270)
T TIGR02858       168 HDVGIRTDVLDGCPK-AEGMMMLIRSMSPDVIVVDEIGRE--EDVEALLEALH---AGVSIIATAHGRDVEDL  234 (270)
T ss_pred             ccccccccccccchH-HHHHHHHHHhCCCCEEEEeCCCcH--HHHHHHHHHHh---CCCEEEEEechhHHHHH
Confidence                    0111111 11233332 357889999998543  44555555543   47789999998877554

Members of this protein are the stage III sporulation protein AA, encoded by one of several genes in the spoIIIA locus. It seems that this protein is found in a species if and only if that species is capable of endospore formation.

>PRK08533 flagellar accessory protein FlaH; Reviewed

Probab=96.66  E-value=0.021  Score=49.85  Aligned_cols=49  Identities=18%  Similarity=0.198  Sum_probs=31.6

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHH
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAI  262 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i  262 (352)
                      .-.++.|.|.+|+|||||+.++... ..++. ..+++++..  .+...+++.+
T Consensus        23 ~g~~~~i~G~~G~GKTtl~~~~~~~-~~~~g-~~~~yi~~e--~~~~~~~~~~   71 (230)
T PRK08533         23 AGSLILIEGDESTGKSILSQRLAYG-FLQNG-YSVSYVSTQ--LTTTEFIKQM   71 (230)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHH-HHhCC-CcEEEEeCC--CCHHHHHHHH
Confidence            3468999999999999998555443 22333 345666633  3455666665

>PRK05439 pantothenate kinase; Provisional

Probab=96.66  E-value=0.016  Score=52.65  Aligned_cols=25  Identities=28%  Similarity=0.335  Sum_probs=22.6

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHh
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYN  233 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~  233 (352)
                      ..+-+|+|.|.+|+||||+|+.+..
T Consensus        84 ~~~~iIgIaG~~gsGKSTla~~L~~  108 (311)
T PRK05439         84 KVPFIIGIAGSVAVGKSTTARLLQA  108 (311)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHH
Confidence            5679999999999999999988876

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

Probab=96.66  E-value=0.0016  Score=50.84  Aligned_cols=21  Identities=38%  Similarity=0.561  Sum_probs=19.3

Q ss_pred             EEEEecCCCcHHHHHHHHHhh
Q 036619          214 ISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       214 i~I~G~~GiGKTtLa~~v~~~  234 (352)
                      |.|.|++|+||||+|+.+...
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            679999999999999999875

...

>cd03215 ABC_Carb_Monos_II This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=96.65  E-value=0.027  Score=47.15  Aligned_cols=53  Identities=15%  Similarity=0.203  Sum_probs=32.4

Q ss_pred             HHHhcCCceEEEEecCCCCC-CccChhHHHHhhccC-CCCcEEEEecCChHHHHH
Q 036619          283 IQSSIKGKKNFLVLDDVWDG-DYNKWQPFFRCLKNG-LHGSKILVTTRNESVARM  335 (352)
Q Consensus       283 l~~~l~~kr~LlVlDdvw~~-~~~~~~~l~~~l~~~-~~gs~IivTTR~~~va~~  335 (352)
                      |...+-.++-+++||+--.. |......+...+..- ..|..||++|.+......
T Consensus       115 la~al~~~p~llllDEP~~~LD~~~~~~l~~~l~~~~~~~~tiii~sh~~~~~~~  169 (182)
T cd03215         115 LARWLARDPRVLILDEPTRGVDVGAKAEIYRLIRELADAGKAVLLISSELDELLG  169 (182)
T ss_pred             HHHHHccCCCEEEECCCCcCCCHHHHHHHHHHHHHHHHCCCEEEEEeCCHHHHHH
Confidence            44555667778999987443 334455555555432 236678999988654433

The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses (such as xylose, arabinose, and ribose), that cannot be broken down to simple sugars by hydrolysis. In members of Carb_Monos family the single hydrophobic gene product forms a homodimer, while the ABC protein represents a fusion of two nucleotide-binding domains. However, it is assumed that two copies of the ABC domains are present in the assembled transporter.

>PTZ00301 uridine kinase; Provisional

Probab=96.65  E-value=0.0031  Score=54.13  Aligned_cols=24  Identities=29%  Similarity=0.466  Sum_probs=21.4

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      +.+|+|.|.+|+||||||+.+.+.
T Consensus         3 ~~iIgIaG~SgSGKTTla~~l~~~   26 (210)
T PTZ00301          3 CTVIGISGASGSGKSSLSTNIVSE   26 (210)
T ss_pred             CEEEEEECCCcCCHHHHHHHHHHH
Confidence            579999999999999999988763

>TIGR00235 udk uridine kinase

Probab=96.65  E-value=0.0019  Score=55.45  Aligned_cols=26  Identities=35%  Similarity=0.426  Sum_probs=23.1

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      +...+|+|+|++|+|||||++.+...
T Consensus         4 ~~g~vi~I~G~sGsGKSTl~~~l~~~   29 (207)
T TIGR00235         4 PKGIIIGIGGGSGSGKTTVARKIYEQ   29 (207)
T ss_pred             CCeEEEEEECCCCCCHHHHHHHHHHH
Confidence            45689999999999999999999864

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

>PHA02244 ATPase-like protein

Probab=96.65  E-value=0.0084  Score=55.38  Aligned_cols=21  Identities=29%  Similarity=0.366  Sum_probs=18.9

Q ss_pred             EEEEecCCCcHHHHHHHHHhh
Q 036619          214 ISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       214 i~I~G~~GiGKTtLa~~v~~~  234 (352)
                      +.|+|++|+|||+||+.+...
T Consensus       122 VLL~GppGtGKTtLA~aLA~~  142 (383)
T PHA02244        122 VFLKGGAGSGKNHIAEQIAEA  142 (383)
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            567999999999999999874

>cd03369 ABCC_NFT1 Domain 2 of NFT1 (New full-length MRP-type transporter 1)

Probab=96.64  E-value=0.04  Score=47.11  Aligned_cols=53  Identities=17%  Similarity=0.228  Sum_probs=32.8

Q ss_pred             HHHhcCCceEEEEecCCCCC-CccChhHHHHhhccCCCCcEEEEecCChHHHHH
Q 036619          283 IQSSIKGKKNFLVLDDVWDG-DYNKWQPFFRCLKNGLHGSKILVTTRNESVARM  335 (352)
Q Consensus       283 l~~~l~~kr~LlVlDdvw~~-~~~~~~~l~~~l~~~~~gs~IivTTR~~~va~~  335 (352)
                      +...+-.+.=+++||+.-.. |....+.+...+.....|..||++|.+...+..
T Consensus       136 laral~~~p~llllDEP~~~LD~~~~~~l~~~l~~~~~~~tiii~th~~~~~~~  189 (207)
T cd03369         136 LARALLKRPRVLVLDEATASIDYATDALIQKTIREEFTNSTILTIAHRLRTIID  189 (207)
T ss_pred             HHHHHhhCCCEEEEeCCcccCCHHHHHHHHHHHHHhcCCCEEEEEeCCHHHHhh
Confidence            34444556678889987543 333455555666543346678888888776643

NFT1 belongs to the MRP (mulrtidrug resisitance-associated protein) family of ABC transporters. Some of the MRP members have five additional transmembrane segments in their N-terminas, but the function of these additional membrane-spanning domains is not clear. The MRP was found in the multidrug-resisting lung cancer cell in which p-glycoprotein was not overexpressed. MRP exports glutathione by drug stimulation, as well as, certain substrates in conjugated forms with anions such as glutathione, glucuronate, and sulfate.

>COG0396 sufC Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=96.64  E-value=0.028  Score=48.10  Aligned_cols=66  Identities=12%  Similarity=0.176  Sum_probs=42.9

Q ss_pred             HHHHHHHHHhcCCceEEEEecCCCCC-CccChhHHHHhhcc-CCCCcEEEEecCChHHHHHhCCCCee
Q 036619          277 QSLMSRIQSSIKGKKNFLVLDDVWDG-DYNKWQPFFRCLKN-GLHGSKILVTTRNESVARMMGSTDII  342 (352)
Q Consensus       277 ~~~~~~l~~~l~~kr~LlVlDdvw~~-~~~~~~~l~~~l~~-~~~gs~IivTTR~~~va~~~~~~~~~  342 (352)
                      +.-...|.+.+-=++-|.|||...+- |.+..+.+...+.. ...|+-+|+.|..+.++..+.+..+|
T Consensus       149 EkKR~EilQ~~~lePkl~ILDE~DSGLDIdalk~V~~~i~~lr~~~~~~liITHy~rll~~i~pD~vh  216 (251)
T COG0396         149 EKKRNEILQLLLLEPKLAILDEPDSGLDIDALKIVAEGINALREEGRGVLIITHYQRLLDYIKPDKVH  216 (251)
T ss_pred             hHHHHHHHHHHhcCCCEEEecCCCcCccHHHHHHHHHHHHHHhcCCCeEEEEecHHHHHhhcCCCEEE
Confidence            44456666766677789999998764 22333334333332 23467799999999999987664443

>PRK05480 uridine/cytidine kinase; Provisional

Probab=96.62  E-value=0.0019  Score=55.41  Aligned_cols=26  Identities=35%  Similarity=0.514  Sum_probs=23.3

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .+..+|+|.|.+|+|||||++.++..
T Consensus         4 ~~~~iI~I~G~sGsGKTTl~~~l~~~   29 (209)
T PRK05480          4 KKPIIIGIAGGSGSGKTTVASTIYEE   29 (209)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            45789999999999999999999874

>PRK06731 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=96.61  E-value=0.024  Score=50.54  Aligned_cols=103  Identities=12%  Similarity=0.203  Sum_probs=51.3

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCC-CHHHHHHHHHHHhCCCCCCcccHHHHHHHHHHhcC-
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTF-DQIRIAKAIIEGLGKSASGLNEFQSLMSRIQSSIK-  288 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~-~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~-  288 (352)
                      ..+++++|.+|+||||++..+....  ...=..+.+++..... ....-+....+.++-......+...+...+...-. 
T Consensus        75 ~~~i~~~G~~g~GKTtl~~~l~~~l--~~~~~~v~~i~~D~~ri~~~~ql~~~~~~~~~~~~~~~~~~~l~~~l~~l~~~  152 (270)
T PRK06731         75 VQTIALIGPTGVGKTTTLAKMAWQF--HGKKKTVGFITTDHSRIGTVQQLQDYVKTIGFEVIAVRDEAAMTRALTYFKEE  152 (270)
T ss_pred             CCEEEEECCCCCcHHHHHHHHHHHH--HHcCCeEEEEecCCCCHHHHHHHHHHhhhcCceEEecCCHHHHHHHHHHHHhc
Confidence            4689999999999999998887542  1111245555543221 12222223333232221122333444443333212 


Q ss_pred             CceEEEEecCCCCC--CccChhHHHHhhc
Q 036619          289 GKKNFLVLDDVWDG--DYNKWQPFFRCLK  315 (352)
Q Consensus       289 ~kr~LlVlDdvw~~--~~~~~~~l~~~l~  315 (352)
                      .+.=++++|.....  +.+....+...+.
T Consensus       153 ~~~D~ViIDt~Gr~~~~~~~l~el~~~~~  181 (270)
T PRK06731        153 ARVDYILIDTAGKNYRASETVEEMIETMG  181 (270)
T ss_pred             CCCCEEEEECCCCCcCCHHHHHHHHHHHh
Confidence            23457788877554  2233444544443

>COG1121 ZnuC ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]

Probab=96.61  E-value=0.02  Score=50.21  Aligned_cols=124  Identities=19%  Similarity=0.260  Sum_probs=67.6

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhhhh-----hh------ccC---CeEEEEEeCCC------CCHH--------------
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNNDE-----VK------RNF---EKVIWVCVSDT------FDQI--------------  256 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~-----~~------~~F---~~~~wv~vs~~------~~~~--------------  256 (352)
                      -..++|+|+.|.|||||.+.+..--+     +.      ..+   ..+.||.=...      .++.              
T Consensus        30 G~~~~iiGPNGaGKSTLlK~iLGll~p~~G~i~~~g~~~~~~~~~~~IgYVPQ~~~~d~~fP~tV~d~V~~g~~~~~g~~  109 (254)
T COG1121          30 GEITALIGPNGAGKSTLLKAILGLLKPSSGEIKIFGKPVRKRRKRLRIGYVPQKSSVDRSFPITVKDVVLLGRYGKKGWF  109 (254)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCCCcCCcceEEEccccccccccCCeEEEcCcccccCCCCCcCHHHHHHccCccccccc
Confidence            37899999999999999999987211     10      011   24555532111      1122              


Q ss_pred             --------HHHHHHHHHhCCCC-----CCcccHHHH-HHHHHHhcCCceEEEEecCCCCC-CccChhHHHHhhccC-CCC
Q 036619          257 --------RIAKAIIEGLGKSA-----SGLNEFQSL-MSRIQSSIKGKKNFLVLDDVWDG-DYNKWQPFFRCLKNG-LHG  320 (352)
Q Consensus       257 --------~~~~~i~~~l~~~~-----~~~~~~~~~-~~~l~~~l~~kr~LlVlDdvw~~-~~~~~~~l~~~l~~~-~~g  320 (352)
                              +...+.++.++...     -+.-+..+. .-.|.+.|..+.=||+||.--.. |...-..|...+... ..|
T Consensus       110 ~~~~~~d~~~v~~aL~~Vgm~~~~~r~i~~LSGGQ~QRV~lARAL~~~p~lllLDEP~~gvD~~~~~~i~~lL~~l~~eg  189 (254)
T COG1121         110 RRLNKKDKEKVDEALERVGMEDLRDRQIGELSGGQKQRVLLARALAQNPDLLLLDEPFTGVDVAGQKEIYDLLKELRQEG  189 (254)
T ss_pred             ccccHHHHHHHHHHHHHcCchhhhCCcccccCcHHHHHHHHHHHhccCCCEEEecCCcccCCHHHHHHHHHHHHHHHHCC
Confidence                    22333444444321     111122333 34456778889999999975332 222233344444321 228


Q ss_pred             cEEEEecCChHHHH
Q 036619          321 SKILVTTRNESVAR  334 (352)
Q Consensus       321 s~IivTTR~~~va~  334 (352)
                      .-||++|.+-+...
T Consensus       190 ~tIl~vtHDL~~v~  203 (254)
T COG1121         190 KTVLMVTHDLGLVM  203 (254)
T ss_pred             CEEEEEeCCcHHhH
Confidence            88999999865443

>smart00534 MUTSac ATPase domain of DNA mismatch repair MUTS family

Probab=96.61  E-value=0.0036  Score=52.66  Aligned_cols=119  Identities=17%  Similarity=0.212  Sum_probs=58.7

Q ss_pred             EEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCCC---CCcccHHHHHHHHHHhcC-
Q 036619          213 VISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSA---SGLNEFQSLMSRIQSSIK-  288 (352)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~---~~~~~~~~~~~~l~~~l~-  288 (352)
                      ++.|.|+.|.||||+.+.+.-... -.+-.+.+|..-..    -.....++..++...   .+......-...+...+. 
T Consensus         1 ~~~ltG~N~~GKst~l~~i~~~~~-la~~G~~v~a~~~~----~~~~d~il~~~~~~d~~~~~~s~fs~~~~~l~~~l~~   75 (185)
T smart00534        1 VVIITGPNMGGKSTYLRQVGLIVI-MAQIGSFVPAESAE----LPVFDRIFTRIGASDSLAQGLSTFMVEMKETANILKN   75 (185)
T ss_pred             CEEEECCCCCcHHHHHHHHHHHHH-HHHhCCCeeehheE----ecccceEEEEeCCCCchhccccHHHHHHHHHHHHHHh
Confidence            467999999999999999884322 12222222211000    001111111111111   111112111223444443 


Q ss_pred             -CceEEEEecCCCCC-CccChhHH----HHhhccCCCCcEEEEecCChHHHHHhC
Q 036619          289 -GKKNFLVLDDVWDG-DYNKWQPF----FRCLKNGLHGSKILVTTRNESVARMMG  337 (352)
Q Consensus       289 -~kr~LlVlDdvw~~-~~~~~~~l----~~~l~~~~~gs~IivTTR~~~va~~~~  337 (352)
                       .++-|+++|..-.. +...-..+    ...+.. ..|+.+|++|.+.++...+.
T Consensus        76 ~~~~~llllDEp~~g~d~~~~~~~~~~~l~~l~~-~~~~~iii~TH~~~l~~~~~  129 (185)
T smart00534       76 ATENSLVLLDELGRGTSTYDGVAIAAAVLEYLLE-KIGALTLFATHYHELTKLAD  129 (185)
T ss_pred             CCCCeEEEEecCCCCCCHHHHHHHHHHHHHHHHh-cCCCeEEEEecHHHHHHHhh
Confidence             37889999998553 21111222    222222 23677999999998887653

>TIGR02974 phageshock_pspF psp operon transcriptional activator PspF

Probab=96.60  E-value=0.0084  Score=55.26  Aligned_cols=131  Identities=12%  Similarity=0.140  Sum_probs=66.6

Q ss_pred             cccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhh-hhccCCeEEEEEeCCCCCHHHHHHHHHH
Q 036619          186 VCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDE-VKRNFEKVIWVCVSDTFDQIRIAKAIIE  264 (352)
Q Consensus       186 ~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~-~~~~F~~~~wv~vs~~~~~~~~~~~i~~  264 (352)
                      ++|....+.++.+.+..-.    ..-.-|.|+|..|+||+++|+.+++... -...|   +-|+++.-.  ...+...+ 
T Consensus         1 liG~S~~m~~~~~~~~~~a----~~~~pVLI~GE~GtGK~~lAr~iH~~s~r~~~pf---v~vnc~~~~--~~~l~~~l-   70 (329)
T TIGR02974         1 LIGESNAFLEVLEQVSRLA----PLDRPVLIIGERGTGKELIAARLHYLSKRWQGPL---VKLNCAALS--ENLLDSEL-   70 (329)
T ss_pred             CCcCCHHHHHHHHHHHHHh----CCCCCEEEECCCCChHHHHHHHHHHhcCccCCCe---EEEeCCCCC--hHHHHHHH-
Confidence            3566666666666665433    2234467999999999999999986421 11222   334444321  12222211 


Q ss_pred             HhCCCCCCcccHHHHHHHHHHhcCCceEEEEecCCCCCCccChhHHHHhhccCC-----------CCcEEEEecCC
Q 036619          265 GLGKSASGLNEFQSLMSRIQSSIKGKKNFLVLDDVWDGDYNKWQPFFRCLKNGL-----------HGSKILVTTRN  329 (352)
Q Consensus       265 ~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~-----------~gs~IivTTR~  329 (352)
                       ++...........  ...........=.|+||+|..........|...+..+.           ...+||.||..
T Consensus        71 -fG~~~g~~~ga~~--~~~G~~~~a~gGtL~Ldei~~L~~~~Q~~Ll~~l~~~~~~~~g~~~~~~~~~RiI~at~~  143 (329)
T TIGR02974        71 -FGHEAGAFTGAQK--RHQGRFERADGGTLFLDELATASLLVQEKLLRVIEYGEFERVGGSQTLQVDVRLVCATNA  143 (329)
T ss_pred             -hccccccccCccc--ccCCchhhCCCCEEEeCChHhCCHHHHHHHHHHHHcCcEEecCCCceeccceEEEEechh
Confidence             1111000000000  00000112234568999997765555666777775432           23478887753

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

>PRK05022 anaerobic nitric oxide reductase transcription regulator; Provisional

Probab=96.59  E-value=0.0079  Score=58.98  Aligned_cols=134  Identities=16%  Similarity=0.237  Sum_probs=75.2

Q ss_pred             CCccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHH
Q 036619          183 EGEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAI  262 (352)
Q Consensus       183 ~~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i  262 (352)
                      ...++|....+.++.+.+..-.    ....-|.|.|..|+|||++|+.+++...  ..-...+.|+++.-.+  ..+.. 
T Consensus       186 ~~~iig~s~~~~~~~~~i~~~a----~~~~pVlI~Ge~GtGK~~~A~~ih~~s~--r~~~p~v~v~c~~~~~--~~~e~-  256 (509)
T PRK05022        186 EGEMIGQSPAMQQLKKEIEVVA----ASDLNVLILGETGVGKELVARAIHAASP--RADKPLVYLNCAALPE--SLAES-  256 (509)
T ss_pred             CCceeecCHHHHHHHHHHHHHh----CCCCcEEEECCCCccHHHHHHHHHHhCC--cCCCCeEEEEcccCCh--HHHHH-
Confidence            3568999999988888886544    2234567999999999999999997421  1112334455554322  22211 


Q ss_pred             HHHhCCCCCCc-cc-HHHHHHHHHHhcCCceEEEEecCCCCCCccChhHHHHhhccCC-----------CCcEEEEecCC
Q 036619          263 IEGLGKSASGL-NE-FQSLMSRIQSSIKGKKNFLVLDDVWDGDYNKWQPFFRCLKNGL-----------HGSKILVTTRN  329 (352)
Q Consensus       263 ~~~l~~~~~~~-~~-~~~~~~~l~~~l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~-----------~gs~IivTTR~  329 (352)
                        .+.+...+. .. .......+.   ....=.|+||+|.....+....|...+..+.           ...|||.||..
T Consensus       257 --~lfG~~~g~~~ga~~~~~g~~~---~a~gGtL~ldeI~~L~~~~Q~~Ll~~l~~~~~~~~g~~~~~~~~~RiI~~t~~  331 (509)
T PRK05022        257 --ELFGHVKGAFTGAISNRSGKFE---LADGGTLFLDEIGELPLALQAKLLRVLQYGEIQRVGSDRSLRVDVRVIAATNR  331 (509)
T ss_pred             --HhcCccccccCCCcccCCcchh---hcCCCEEEecChhhCCHHHHHHHHHHHhcCCEeeCCCCcceecceEEEEecCC
Confidence              122211100 00 000000011   1223347899998776566777777776432           13488888854


Q ss_pred             h
Q 036619          330 E  330 (352)
Q Consensus       330 ~  330 (352)
                      .
T Consensus       332 ~  332 (509)
T PRK05022        332 D  332 (509)
T ss_pred             C
Confidence            3

>PRK05917 DNA polymerase III subunit delta'; Validated

Probab=96.59  E-value=0.042  Score=49.36  Aligned_cols=61  Identities=11%  Similarity=0.181  Sum_probs=43.6

Q ss_pred             CCceEEEEecCCCCCCccChhHHHHhhccCCCCcEEEEecCC-hHHHHHhCC-CCeeeCCCCC
Q 036619          288 KGKKNFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKILVTTRN-ESVARMMGS-TDIISIEQLA  348 (352)
Q Consensus       288 ~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTTR~-~~va~~~~~-~~~~~l~~L~  348 (352)
                      .+++-++|+|++...+.+.++.|+..+..-..++.+|++|.+ ..+...+-+ ...+++.++.
T Consensus        93 e~~~kv~ii~~ad~mt~~AaNaLLK~LEEPp~~~~fiL~~~~~~~ll~TI~SRcq~~~~~~~~  155 (290)
T PRK05917         93 ESPYKIYIIHEADRMTLDAISAFLKVLEDPPQHGVIILTSAKPQRLPPTIRSRSLSIHIPMEE  155 (290)
T ss_pred             CCCceEEEEechhhcCHHHHHHHHHHhhcCCCCeEEEEEeCChhhCcHHHHhcceEEEccchh
Confidence            356668899999988888999999999877777776666665 455544333 5566666654

>PRK04132 replication factor C small subunit; Provisional

Probab=96.57  E-value=0.014  Score=59.79  Aligned_cols=116  Identities=12%  Similarity=0.087  Sum_probs=71.5

Q ss_pred             cCCCcHHHHHHHHHhhhhhhccC-CeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCcccHHHHHHHHHHhcCCceEEEEec
Q 036619          219 LGGIGKTTLAQLAYNNDEVKRNF-EKVIWVCVSDTFDQIRIAKAIIEGLGKSASGLNEFQSLMSRIQSSIKGKKNFLVLD  297 (352)
Q Consensus       219 ~~GiGKTtLa~~v~~~~~~~~~F-~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlD  297 (352)
                      |.++||||+|..++++. ..+.+ ...+-+++|+..+... .+++++.+....+              .-..+.-++|||
T Consensus       574 Ph~lGKTT~A~ala~~l-~g~~~~~~~lElNASd~rgid~-IR~iIk~~a~~~~--------------~~~~~~KVvIID  637 (846)
T PRK04132        574 PTVLHNTTAALALAREL-FGENWRHNFLELNASDERGINV-IREKVKEFARTKP--------------IGGASFKIIFLD  637 (846)
T ss_pred             CCcccHHHHHHHHHHhh-hcccccCeEEEEeCCCcccHHH-HHHHHHHHHhcCC--------------cCCCCCEEEEEE
Confidence            66789999999999852 11222 2356677777555443 3344333221100              001245799999


Q ss_pred             CCCCCCccChhHHHHhhccCCCCcEEEEecC-ChHHHHHhCC-CCeeeCCCCCCC
Q 036619          298 DVWDGDYNKWQPFFRCLKNGLHGSKILVTTR-NESVARMMGS-TDIISIEQLAEE  350 (352)
Q Consensus       298 dvw~~~~~~~~~l~~~l~~~~~gs~IivTTR-~~~va~~~~~-~~~~~l~~L~~~  350 (352)
                      ++...+....+.|...+..-...+++|++|. ...+...+.+ ...+++.+++++
T Consensus       638 EaD~Lt~~AQnALLk~lEep~~~~~FILi~N~~~kIi~tIrSRC~~i~F~~ls~~  692 (846)
T PRK04132        638 EADALTQDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQSRCAIFRFRPLRDE  692 (846)
T ss_pred             CcccCCHHHHHHHHHHhhCCCCCeEEEEEeCChhhCchHHhhhceEEeCCCCCHH
Confidence            9998877778888888876445566665554 4455444433 567888888754

>PRK08233 hypothetical protein; Provisional

Probab=96.57  E-value=0.002  Score=53.77  Aligned_cols=24  Identities=29%  Similarity=0.477  Sum_probs=21.7

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..+|+|.|.+|+||||||+.+...
T Consensus         3 ~~iI~I~G~~GsGKtTla~~L~~~   26 (182)
T PRK08233          3 TKIITIAAVSGGGKTTLTERLTHK   26 (182)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhh
Confidence            478999999999999999999864

>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=96.55  E-value=0.021  Score=54.06  Aligned_cols=39  Identities=26%  Similarity=0.319  Sum_probs=26.6

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEE
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVC  248 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~  248 (352)
                      ...+++++|+.|+||||+...+............+..++
T Consensus       190 ~g~vi~lvGpnG~GKTTtlakLA~~~~~~~~~~~v~~i~  228 (420)
T PRK14721        190 QGGVYALIGPTGVGKTTTTAKLAARAVIRHGADKVALLT  228 (420)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEe
Confidence            357999999999999999987776422222223444444

>cd03240 ABC_Rad50 The catalytic domains of Rad50 are similar to the ATP-binding cassette of ABC transporters, but are not associated with membrane-spanning domains

Probab=96.55  E-value=0.023  Score=48.62  Aligned_cols=61  Identities=15%  Similarity=0.272  Sum_probs=37.5

Q ss_pred             HHHhcCCceEEEEecCCCCC-CccChh-HHHHhhccCC-C-CcEEEEecCChHHHHHhCCCCeeeCC
Q 036619          283 IQSSIKGKKNFLVLDDVWDG-DYNKWQ-PFFRCLKNGL-H-GSKILVTTRNESVARMMGSTDIISIE  345 (352)
Q Consensus       283 l~~~l~~kr~LlVlDdvw~~-~~~~~~-~l~~~l~~~~-~-gs~IivTTR~~~va~~~~~~~~~~l~  345 (352)
                      +...+....-+++||+.-.. +..... .+...+.... . |..||++|.+.+....  +..++.+.
T Consensus       132 la~al~~~p~illlDEP~~~LD~~~~~~~l~~~l~~~~~~~~~~iiiitH~~~~~~~--~d~i~~l~  196 (204)
T cd03240         132 LAETFGSNCGILALDEPTTNLDEENIEESLAEIIEERKSQKNFQLIVITHDEELVDA--ADHIYRVE  196 (204)
T ss_pred             HHHHhccCCCEEEEcCCccccCHHHHHHHHHHHHHHHHhccCCEEEEEEecHHHHhh--CCEEEEEe
Confidence            45566678889999998553 223344 4555554322 2 5568999988877653  34555443

The conserved ATP-binding motifs common to Rad50 and the ABC transporter family include the Walker A and Walker B motifs, the Q loop, a histidine residue in the switch region, a D-loop, and a conserved LSGG sequence. This conserved sequence, LSGG, is the most specific and characteristic motif of this family and is thus known as the ABC signature sequence.

>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=96.54  E-value=0.0021  Score=57.49  Aligned_cols=96  Identities=28%  Similarity=0.289  Sum_probs=47.4

Q ss_pred             HHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCc
Q 036619          194 SELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSASGL  273 (352)
Q Consensus       194 ~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~  273 (352)
                      ..+++.++...       +-+.++|+.|+|||++++.....- -...| ...-++.+...+...+ +.+++.--....+.
T Consensus        23 ~~ll~~l~~~~-------~pvLl~G~~GtGKT~li~~~l~~l-~~~~~-~~~~~~~s~~Tts~~~-q~~ie~~l~k~~~~   92 (272)
T PF12775_consen   23 SYLLDLLLSNG-------RPVLLVGPSGTGKTSLIQNFLSSL-DSDKY-LVITINFSAQTTSNQL-QKIIESKLEKRRGR   92 (272)
T ss_dssp             HHHHHHHHHCT-------EEEEEESSTTSSHHHHHHHHHHCS-TTCCE-EEEEEES-TTHHHHHH-HHCCCTTECECTTE
T ss_pred             HHHHHHHHHcC-------CcEEEECCCCCchhHHHHhhhccC-Ccccc-ceeEeeccCCCCHHHH-HHHHhhcEEcCCCC
Confidence            34566665432       345799999999999998877531 11111 2334455554333332 23222111000000


Q ss_pred             ccHHHHHHHHHHhcCCceEEEEecCCCCCCccChh
Q 036619          274 NEFQSLMSRIQSSIKGKKNFLVLDDVWDGDYNKWQ  308 (352)
Q Consensus       274 ~~~~~~~~~l~~~l~~kr~LlVlDdvw~~~~~~~~  308 (352)
                      .         ..--.+|+.++.+||+--...+.|.
T Consensus        93 ~---------~gP~~~k~lv~fiDDlN~p~~d~yg  118 (272)
T PF12775_consen   93 V---------YGPPGGKKLVLFIDDLNMPQPDKYG  118 (272)
T ss_dssp             E---------EEEESSSEEEEEEETTT-S---TTS
T ss_pred             C---------CCCCCCcEEEEEecccCCCCCCCCC
Confidence            0         0001478999999999655444444

>COG0572 Udk Uridine kinase [Nucleotide transport and metabolism]

Probab=96.53  E-value=0.0066  Score=51.78  Aligned_cols=26  Identities=31%  Similarity=0.433  Sum_probs=23.4

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .++.+|+|.|.+|+||||+|+.++..
T Consensus         6 ~~~iiIgIaG~SgSGKTTva~~l~~~   31 (218)
T COG0572           6 EKVIIIGIAGGSGSGKTTVAKELSEQ   31 (218)
T ss_pred             CceEEEEEeCCCCCCHHHHHHHHHHH
Confidence            45789999999999999999999974

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

Probab=96.53  E-value=0.0099  Score=57.60  Aligned_cols=98  Identities=16%  Similarity=0.202  Sum_probs=60.3

Q ss_pred             CccccccchHHHHHHHHcCccc------cCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHH
Q 036619          184 GEVCGRVDEKSELFSKLLCESS------EQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIR  257 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~------~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~  257 (352)
                      .++=|.+..+.+|.+++..-..      -+-..++=+.++|++|.|||.||+.+.+.-  .     +-++.++.+     
T Consensus       190 ~diGG~d~~~~el~~li~~i~~Pe~~~~lGv~PprGvLlHGPPGCGKT~lA~AiAgel--~-----vPf~~isAp-----  257 (802)
T KOG0733|consen  190 SDIGGLDKTLAELCELIIHIKHPEVFSSLGVRPPRGVLLHGPPGCGKTSLANAIAGEL--G-----VPFLSISAP-----  257 (802)
T ss_pred             hhccChHHHHHHHHHHHHHhcCchhHhhcCCCCCCceeeeCCCCccHHHHHHHHhhhc--C-----CceEeecch-----
Confidence            4567888888887776643211      012335667799999999999999999852  2     223333332     


Q ss_pred             HHHHHHHHhCCCCCCcccHHHHHHHHHHhcCCceEEEEecCCCC
Q 036619          258 IAKAIIEGLGKSASGLNEFQSLMSRIQSSIKGKKNFLVLDDVWD  301 (352)
Q Consensus       258 ~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdvw~  301 (352)
                         +|+..+.+     .+.+.+.+.+.+.-..-.++++||++.-
T Consensus       258 ---eivSGvSG-----ESEkkiRelF~~A~~~aPcivFiDeIDA  293 (802)
T KOG0733|consen  258 ---EIVSGVSG-----ESEKKIRELFDQAKSNAPCIVFIDEIDA  293 (802)
T ss_pred             ---hhhcccCc-----ccHHHHHHHHHHHhccCCeEEEeecccc
Confidence               23332222     2233344444455567899999999954

>cd03235 ABC_Metallic_Cations ABC component of the metal-type transporters

Probab=96.53  E-value=0.034  Score=47.76  Aligned_cols=24  Identities=29%  Similarity=0.439  Sum_probs=21.4

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      -.+++|+|+.|.|||||++.+..-
T Consensus        25 Ge~~~l~G~nGsGKSTLl~~l~G~   48 (213)
T cd03235          25 GEFLAIVGPNGAGKSTLLKAILGL   48 (213)
T ss_pred             CCEEEEECCCCCCHHHHHHHHcCC
Confidence            468999999999999999998764

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.

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

Probab=96.53  E-value=0.019  Score=50.28  Aligned_cols=27  Identities=33%  Similarity=0.407  Sum_probs=23.6

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHhhh
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYNND  235 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  235 (352)
                      .++.+|.++||+|+||||..+.++.+-
T Consensus        17 ~~p~~ilVvGMAGSGKTTF~QrL~~hl   43 (366)
T KOG1532|consen   17 QRPVIILVVGMAGSGKTTFMQRLNSHL   43 (366)
T ss_pred             cCCcEEEEEecCCCCchhHHHHHHHHH
Confidence            457788899999999999999999863

>TIGR03881 KaiC_arch_4 KaiC domain protein, PAE1156 family

Probab=96.53  E-value=0.026  Score=49.08  Aligned_cols=116  Identities=17%  Similarity=0.172  Sum_probs=63.9

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCCC------------------
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSA------------------  270 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~------------------  270 (352)
                      +.-.++.|.|.+|+|||||+..+.... .+ .-...+|++....  ...+... +++++...                  
T Consensus        18 ~~G~~~~i~G~~G~GKT~l~~~~~~~~-~~-~g~~~~~is~e~~--~~~i~~~-~~~~g~~~~~~~~~~~l~i~d~~~~~   92 (229)
T TIGR03881        18 PRGFFVAVTGEPGTGKTIFCLHFAYKG-LR-DGDPVIYVTTEES--RESIIRQ-AAQFGMDFEKAIEEGKLVIIDALMKE   92 (229)
T ss_pred             cCCeEEEEECCCCCChHHHHHHHHHHH-Hh-cCCeEEEEEccCC--HHHHHHH-HHHhCCCHHHHhhcCCEEEEEccccc
Confidence            346789999999999999998766432 22 3456788876443  3333322 22222110                  


Q ss_pred             ------CCcccHHHHHHHHHHhcCC---ceEEEEecCCCCC---CccChhHHHHhhcc--CCCCcEEEEecCC
Q 036619          271 ------SGLNEFQSLMSRIQSSIKG---KKNFLVLDDVWDG---DYNKWQPFFRCLKN--GLHGSKILVTTRN  329 (352)
Q Consensus       271 ------~~~~~~~~~~~~l~~~l~~---kr~LlVlDdvw~~---~~~~~~~l~~~l~~--~~~gs~IivTTR~  329 (352)
                            ....+.+++...+++.++.   +.-++|+|.+..-   ....-..+...|..  ...|..+|+|+..
T Consensus        93 ~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~vvIDsl~~l~~~~~~~~r~~~~~l~~~l~~~~~tvil~~~~  165 (229)
T TIGR03881        93 KEDEWSLRELSIEELLNKVIEAKKYLGYGHARLVIDSMSAFWLDKPAMARKYSYYLKRVLNRWNFTILLTSQY  165 (229)
T ss_pred             cccccccccCCHHHHHHHHHHHHHhhccCceEEEecCchhhhccChHHHHHHHHHHHHHHHhCCCEEEEEecc
Confidence                  0112456666666666543   3458899997432   11111111111211  2348889999874

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.

>cd00984 DnaB_C DnaB helicase C terminal domain

Probab=96.52  E-value=0.069  Score=46.81  Aligned_cols=117  Identities=15%  Similarity=0.108  Sum_probs=63.7

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCC--------------------
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKS--------------------  269 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~--------------------  269 (352)
                      .-.++.|.|.+|+|||+++..+..+. ..++=..++|++...  +...+...++.....-                    
T Consensus        12 ~G~l~lI~G~~G~GKT~~~~~~~~~~-~~~~g~~vly~s~E~--~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~   88 (242)
T cd00984          12 PGDLIIIAARPSMGKTAFALNIAENI-AKKQGKPVLFFSLEM--SKEQLLQRLLASESGISLSKLRTGSLSDEDWERLAE   88 (242)
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHHH-HHhCCCceEEEeCCC--CHHHHHHHHHHHhcCCCHHHHhcCCCCHHHHHHHHH
Confidence            34688899999999999998776543 233223567776544  2333333332211100                    


Q ss_pred             -------------CCCcccHHHHHHHHHHhcC-CceEEEEecCCCCCCcc-----Chh---HHHHhhcc--CCCCcEEEE
Q 036619          270 -------------ASGLNEFQSLMSRIQSSIK-GKKNFLVLDDVWDGDYN-----KWQ---PFFRCLKN--GLHGSKILV  325 (352)
Q Consensus       270 -------------~~~~~~~~~~~~~l~~~l~-~kr~LlVlDdvw~~~~~-----~~~---~l~~~l~~--~~~gs~Iiv  325 (352)
                                   .....+.+.+...++.... .+.=+||+|.+......     .-.   .+...|..  ...|+-||+
T Consensus        89 ~~~~~~~~~~~i~~~~~~~~~~l~~~i~~~~~~~~~~~vvID~l~~l~~~~~~~~~~~~~~~~~~~L~~la~~~~~~ii~  168 (242)
T cd00984          89 AIGELKELPIYIDDSSSLTVSDIRSRARRLKKEHGLGLIVIDYLQLMSGSKKKGNRQQEVAEISRSLKLLAKELNVPVIA  168 (242)
T ss_pred             HHHHHhcCCEEEeCCCCCCHHHHHHHHHHHHHhcCCCEEEEcCchhcCCCCCCCCHHHHHHHHHHHHHHHHHHhCCeEEE
Confidence                         0112345666666665543 35569999998532111     111   22222321  135788888


Q ss_pred             ecCC
Q 036619          326 TTRN  329 (352)
Q Consensus       326 TTR~  329 (352)
                      |+..
T Consensus       169 ~~q~  172 (242)
T cd00984         169 LSQL  172 (242)
T ss_pred             eccc
Confidence            8853

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.

>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=96.51  E-value=0.0069  Score=53.76  Aligned_cols=77  Identities=21%  Similarity=0.295  Sum_probs=61.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhCcHHHHHHHHHHHHHHHHHHHHH-HhchhcCChHHHHHHHHHHHhhhcchHHHH
Q 036619            4 AIVSSLLDQLNSIAQDQVKGKWRLVTGVEQEVGKLTTNLQAIQAVLEDA-EQRQMKQDKAVTFWLDQLIDASYDMEDVLE   82 (352)
Q Consensus         4 ~~vs~~~~kl~~~l~~~~~~e~~~~~~v~~~~~~L~~~L~~i~~~l~~a-e~~~~~~~~~~~~Wl~~lr~~ayd~eD~lD   82 (352)
                      +.|.+++++|-.+.+.+    ...+.-++.+++-++.+|+.+|.||+.. +..... -+....+..++-..||++|+++|
T Consensus       296 GyVdFlL~NLkdfq~ry----sdSlaflKnQiqvIQ~elesLqpFLk~V~ee~~nk-h~~~ed~a~~ii~kAyevEYVVD  370 (402)
T PF12061_consen  296 GYVDFLLKNLKDFQGRY----SDSLAFLKNQIQVIQTELESLQPFLKHVVEEPHNK-HDTNEDCATQIIRKAYEVEYVVD  370 (402)
T ss_pred             cHHHHHHhhHHHHhccc----cchHHHHHHHHHHHHHHHHHhhHHHHHHHhccchh-hhhhhhHHHHHHHHHhheeeeee
Confidence            46778888888875443    2346668899999999999999999986 443444 33489999999999999999999


Q ss_pred             HHH
Q 036619           83 EWI   85 (352)
Q Consensus        83 ~~~   85 (352)
                      -+.
T Consensus       371 aCi  373 (402)
T PF12061_consen  371 ACI  373 (402)
T ss_pred             hhh
Confidence            865

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.

>KOG2228 consensus Origin recognition complex, subunit 4 [Replication, recombination and repair]

Probab=96.51  E-value=0.031  Score=50.52  Aligned_cols=143  Identities=21%  Similarity=0.222  Sum_probs=75.8

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhh-hhhhccCCeEEEEEeCCCCCH-HHHHHH
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNN-DEVKRNFEKVIWVCVSDTFDQ-IRIAKA  261 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~-~~~~~~F~~~~wv~vs~~~~~-~~~~~~  261 (352)
                      ..++|-.++..++-.++....-.  .....+.|+|+.|.|||+|...+..+ .++.++|   +-|......-. .-.+..
T Consensus        24 ~~l~g~~~~~~~l~~~lkqt~~~--gEsnsviiigprgsgkT~li~~~Ls~~q~~~E~~---l~v~Lng~~~~dk~al~~   98 (408)
T KOG2228|consen   24 INLFGVQDEQKHLSELLKQTILH--GESNSVIIIGPRGSGKTILIDTRLSDIQENGENF---LLVRLNGELQTDKIALKG   98 (408)
T ss_pred             cceeehHHHHHHHHHHHHHHHHh--cCCCceEEEccCCCCceEeeHHHHhhHHhcCCeE---EEEEECccchhhHHHHHH
Confidence            45889899998888888644322  22345679999999999999877765 1223333   33334333322 223445


Q ss_pred             HHHHhCCC----CCCcccHHHHHHHHHHhcC------CceEEEEecCCCCCCccChhH-HHHhhc----cCCCCcEEEEe
Q 036619          262 IIEGLGKS----ASGLNEFQSLMSRIQSSIK------GKKNFLVLDDVWDGDYNKWQP-FFRCLK----NGLHGSKILVT  326 (352)
Q Consensus       262 i~~~l~~~----~~~~~~~~~~~~~l~~~l~------~kr~LlVlDdvw~~~~~~~~~-l~~~l~----~~~~gs~IivT  326 (352)
                      |.+++..+    .....+..+....|...|+      +-+.++|+|.+.-.-...-.. +...|.    ...|=|-|-+|
T Consensus        99 I~rql~~e~~~~~k~~gsfte~l~~lL~~L~~~~~~t~~~ViFIldEfDlf~~h~rQtllYnlfDisqs~r~Piciig~T  178 (408)
T KOG2228|consen   99 ITRQLALELNRIVKSFGSFTENLSKLLEALKKGDETTSGKVIFILDEFDLFAPHSRQTLLYNLFDISQSARAPICIIGVT  178 (408)
T ss_pred             HHHHHHHHHhhhheeecccchhHHHHHHHHhcCCCCCCceEEEEeehhhccccchhhHHHHHHHHHHhhcCCCeEEEEee
Confidence            55554332    1111222222333444442      235788888764321122222 222332    23445667788


Q ss_pred             cCChH
Q 036619          327 TRNES  331 (352)
Q Consensus       327 TR~~~  331 (352)
                      ||-..
T Consensus       179 trld~  183 (408)
T KOG2228|consen  179 TRLDI  183 (408)
T ss_pred             ccccH
Confidence            88653

>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=96.51  E-value=0.0035  Score=50.48  Aligned_cols=24  Identities=33%  Similarity=0.369  Sum_probs=21.3

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..-|.|.|++|+|||||++.+.+.
T Consensus         5 ~mki~ITG~PGvGKtTl~~ki~e~   28 (179)
T COG1618           5 AMKIFITGRPGVGKTTLVLKIAEK   28 (179)
T ss_pred             ceEEEEeCCCCccHHHHHHHHHHH
Confidence            456889999999999999999974

>PRK00889 adenylylsulfate kinase; Provisional

Probab=96.50  E-value=0.032  Score=46.34  Aligned_cols=25  Identities=32%  Similarity=0.405  Sum_probs=22.3

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ...+|.|+|++|+||||+|+.+...
T Consensus         3 ~g~~i~~~G~~GsGKST~a~~la~~   27 (175)
T PRK00889          3 RGVTVWFTGLSGAGKTTIARALAEK   27 (175)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHH
Confidence            3569999999999999999999975

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=96.49  E-value=0.023  Score=50.90  Aligned_cols=40  Identities=33%  Similarity=0.367  Sum_probs=27.8

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeC
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVS  250 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs  250 (352)
                      ...+++.++|++|+||||++.++....  ...-..++++...
T Consensus        70 ~~~~vi~l~G~~G~GKTTt~akLA~~l--~~~g~~V~li~~D  109 (272)
T TIGR00064        70 NKPNVILFVGVNGVGKTTTIAKLANKL--KKQGKSVLLAAGD  109 (272)
T ss_pred             CCCeEEEEECCCCCcHHHHHHHHHHHH--HhcCCEEEEEeCC
Confidence            346899999999999999998887643  2222345555443

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.

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

Probab=96.49  E-value=0.0058  Score=56.28  Aligned_cols=26  Identities=19%  Similarity=0.340  Sum_probs=24.0

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..+..+.|||++|.|||.+|+.+++.
T Consensus       146 k~PlgllL~GPPGcGKTllAraiA~e  171 (413)
T PLN00020        146 KVPLILGIWGGKGQGKSFQCELVFKK  171 (413)
T ss_pred             CCCeEEEeeCCCCCCHHHHHHHHHHH
Confidence            55889999999999999999999985

>TIGR01425 SRP54_euk signal recognition particle protein SRP54

Probab=96.49  E-value=0.026  Score=53.48  Aligned_cols=25  Identities=40%  Similarity=0.395  Sum_probs=21.8

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .+.+|.++|..|+||||++..+...
T Consensus        99 ~~~vi~lvG~~GvGKTTtaaKLA~~  123 (429)
T TIGR01425        99 KQNVIMFVGLQGSGKTTTCTKLAYY  123 (429)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHH
Confidence            4789999999999999999877653

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.

>cd01122 GP4d_helicase GP4d_helicase is a homohexameric 5'-3' helicases

Probab=96.49  E-value=0.048  Score=48.73  Aligned_cols=117  Identities=15%  Similarity=0.184  Sum_probs=65.8

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCC---------------------
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKS---------------------  269 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~---------------------  269 (352)
                      -.++.|.|.+|+|||||+..+..+. ...+=..++|++...+  ...+...+...+...                     
T Consensus        30 g~~~~i~g~~G~GKT~l~~~~~~~~-~~~~g~~vl~iS~E~~--~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  106 (271)
T cd01122          30 GELIILTAGTGVGKTTFLREYALDL-ITQHGVRVGTISLEEP--VVRTARRLLGQYAGKRLHLPDTVFIYTLEEFDAAFD  106 (271)
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHHH-HHhcCceEEEEEcccC--HHHHHHHHHHHHhCCCcccCCccccccHHHHHHHHH
Confidence            4578899999999999998876642 2332346888877553  333333333221110                     


Q ss_pred             ------------CCCcccHHHHHHHHHHhcC-CceEEEEecCCCCCCc------cCh---hHHHHhhcc--CCCCcEEEE
Q 036619          270 ------------ASGLNEFQSLMSRIQSSIK-GKKNFLVLDDVWDGDY------NKW---QPFFRCLKN--GLHGSKILV  325 (352)
Q Consensus       270 ------------~~~~~~~~~~~~~l~~~l~-~kr~LlVlDdvw~~~~------~~~---~~l~~~l~~--~~~gs~Iiv  325 (352)
                                  .....+.+.+...++.... .+.-+||+|.+.....      +..   ..+...|..  ...++.|++
T Consensus       107 ~~~~~~~l~i~d~~~~~~~~~i~~~i~~~~~~~~~~~vvID~l~~l~~~~~~~~~~~~~~~~~~~~L~~la~~~~vtvll  186 (271)
T cd01122         107 EFEGTGRLFMYDSFGEYSMDSVLEKVRYMAVSHGIQHIIIDNLSIMVSDERASGDERKALDEIMTKLRGFATEHGIHITL  186 (271)
T ss_pred             HhcCCCcEEEEcCCCccCHHHHHHHHHHHHhcCCceEEEECCHHHHhccCCCchhHHHHHHHHHHHHHHHHHHhCCEEEE
Confidence                        0011245666677766553 3455899998643211      111   222233332  356888999


Q ss_pred             ecCCh
Q 036619          326 TTRNE  330 (352)
Q Consensus       326 TTR~~  330 (352)
                      |+...
T Consensus       187 ~sq~~  191 (271)
T cd01122         187 VSHLR  191 (271)
T ss_pred             Eeccc
Confidence            98543

Helicases couple NTP hydrolysis to the unwinding of nucleic acid duplexes into their component strands.

>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=96.49  E-value=0.019  Score=55.26  Aligned_cols=39  Identities=26%  Similarity=0.271  Sum_probs=27.9

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEe
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCV  249 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~v  249 (352)
                      ..|++++|+.|+||||++.++......+.....+..+..
T Consensus       256 g~Vi~LvGpnGvGKTTTiaKLA~~~~~~~G~~kV~LI~~  294 (484)
T PRK06995        256 GGVFALMGPTGVGKTTTTAKLAARCVMRHGASKVALLTT  294 (484)
T ss_pred             CcEEEEECCCCccHHHHHHHHHHHHHHhcCCCeEEEEeC
Confidence            479999999999999999988875433332224555554

>PTZ00088 adenylate kinase 1; Provisional

Probab=96.47  E-value=0.0037  Score=54.43  Aligned_cols=22  Identities=36%  Similarity=0.569  Sum_probs=19.8

Q ss_pred             EEEEEecCCCcHHHHHHHHHhh
Q 036619          213 VISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .|.|+|++|+||||+|+.+...
T Consensus         8 rIvl~G~PGsGK~T~a~~La~~   29 (229)
T PTZ00088          8 KIVLFGAPGVGKGTFAEILSKK   29 (229)
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            3889999999999999999874

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

Probab=96.47  E-value=0.012  Score=49.14  Aligned_cols=118  Identities=18%  Similarity=0.170  Sum_probs=60.1

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEE---eCCCC-CHHHHHHHHHHHhC---CCCC---C--------
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVC---VSDTF-DQIRIAKAIIEGLG---KSAS---G--------  272 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~---vs~~~-~~~~~~~~i~~~l~---~~~~---~--------  272 (352)
                      -.+++|+|..|.|||||++.+....   ......+.+.   ++... +...    ..+.+.   ....   .        
T Consensus        26 G~~~~i~G~nGsGKSTLl~~l~G~~---~~~~G~i~~~g~~~~~~~~~~~~----~~~~i~~~~q~~~~~~~~t~~~~l~   98 (178)
T cd03229          26 GEIVALLGPSGSGKSTLLRCIAGLE---EPDSGSILIDGEDLTDLEDELPP----LRRRIGMVFQDFALFPHLTVLENIA   98 (178)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCC---CCCceEEEECCEEccccchhHHH----HhhcEEEEecCCccCCCCCHHHhee
Confidence            4689999999999999999998532   2222333321   11100 0011    111111   0000   0        


Q ss_pred             --cccHHHHHHHHHHhcCCceEEEEecCCCCC-CccChhHHHHhhccC--CCCcEEEEecCChHHHHH
Q 036619          273 --LNEFQSLMSRIQSSIKGKKNFLVLDDVWDG-DYNKWQPFFRCLKNG--LHGSKILVTTRNESVARM  335 (352)
Q Consensus       273 --~~~~~~~~~~l~~~l~~kr~LlVlDdvw~~-~~~~~~~l~~~l~~~--~~gs~IivTTR~~~va~~  335 (352)
                        .+.-+...-.+...+..+.=++++|+--.. |......+...+...  ..|..||++|.+.+....
T Consensus        99 ~~lS~G~~qr~~la~al~~~p~llilDEP~~~LD~~~~~~l~~~l~~~~~~~~~tiii~sH~~~~~~~  166 (178)
T cd03229          99 LGLSGGQQQRVALARALAMDPDVLLLDEPTSALDPITRREVRALLKSLQAQLGITVVLVTHDLDEAAR  166 (178)
T ss_pred             ecCCHHHHHHHHHHHHHHCCCCEEEEeCCcccCCHHHHHHHHHHHHHHHHhcCCEEEEEeCCHHHHHH
Confidence              111122223344555667778889987442 333444555555432  125678888888766553

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.

>cd03244 ABCC_MRP_domain2 Domain 2 of the ABC subfamily C

Probab=96.47  E-value=0.038  Score=47.77  Aligned_cols=53  Identities=13%  Similarity=0.182  Sum_probs=31.7

Q ss_pred             HHHhcCCceEEEEecCCCCC-CccChhHHHHhhccCCCCcEEEEecCChHHHHH
Q 036619          283 IQSSIKGKKNFLVLDDVWDG-DYNKWQPFFRCLKNGLHGSKILVTTRNESVARM  335 (352)
Q Consensus       283 l~~~l~~kr~LlVlDdvw~~-~~~~~~~l~~~l~~~~~gs~IivTTR~~~va~~  335 (352)
                      |...|-.+.-+++||+.-.. |......+...+.....+..||++|.+......
T Consensus       150 laral~~~p~llllDEP~~~LD~~~~~~l~~~l~~~~~~~tii~~sh~~~~~~~  203 (221)
T cd03244         150 LARALLRKSKILVLDEATASVDPETDALIQKTIREAFKDCTVLTIAHRLDTIID  203 (221)
T ss_pred             HHHHHhcCCCEEEEeCccccCCHHHHHHHHHHHHHhcCCCEEEEEeCCHHHHhh
Confidence            34444556668889988553 333445555556543335568888887765543

This family is also known as MRP (mulrtidrug resisitance-associated protein). Some of the MRP members have five additional transmembrane segments in their N-terminus, but the function of these additional membrane-spanning domains is not clear. The MRP was found in the multidrug-resistance lung cancer cell in which p-glycoprotein was not overexpressed. MRP exports glutathione by drug stimulation, as well as, certain substrates in conjugated forms with anions, such as glutathione, glucuronate, and sulfate.

>PRK13539 cytochrome c biogenesis protein CcmA; Provisional

Probab=96.46  E-value=0.031  Score=47.86  Aligned_cols=66  Identities=12%  Similarity=0.148  Sum_probs=40.9

Q ss_pred             HHHhcCCceEEEEecCCCCC-CccChhHHHHhhcc-CCCCcEEEEecCChHHHHHhCCCCeeeCCCCCCCc
Q 036619          283 IQSSIKGKKNFLVLDDVWDG-DYNKWQPFFRCLKN-GLHGSKILVTTRNESVARMMGSTDIISIEQLAEEE  351 (352)
Q Consensus       283 l~~~l~~kr~LlVlDdvw~~-~~~~~~~l~~~l~~-~~~gs~IivTTR~~~va~~~~~~~~~~l~~L~~~e  351 (352)
                      |...+..+.-+++||+--.. |......+...+.. ...|..||++|.+......   ..++.++....+|
T Consensus       138 la~al~~~p~llllDEPt~~LD~~~~~~l~~~l~~~~~~~~tiii~sH~~~~~~~---~~~~~~~~~~~~~  205 (207)
T PRK13539        138 LARLLVSNRPIWILDEPTAALDAAAVALFAELIRAHLAQGGIVIAATHIPLGLPG---ARELDLGPFAAED  205 (207)
T ss_pred             HHHHHhcCCCEEEEeCCcccCCHHHHHHHHHHHHHHHHCCCEEEEEeCCchhhcc---CcEEeecCccCCC
Confidence            44445556788999987442 33344555555543 2346679999988765543   6677777665544

>cd03263 ABC_subfamily_A The ABCA subfamily mediates the transport of a variety of lipid compounds

Probab=96.46  E-value=0.034  Score=48.05  Aligned_cols=53  Identities=21%  Similarity=0.309  Sum_probs=32.5

Q ss_pred             HHHhcCCceEEEEecCCCCC-CccChhHHHHhhccCCCCcEEEEecCChHHHHH
Q 036619          283 IQSSIKGKKNFLVLDDVWDG-DYNKWQPFFRCLKNGLHGSKILVTTRNESVARM  335 (352)
Q Consensus       283 l~~~l~~kr~LlVlDdvw~~-~~~~~~~l~~~l~~~~~gs~IivTTR~~~va~~  335 (352)
                      |...+-.+.-+|+||..-.. |......+...+.....+..||++|.+.+.+..
T Consensus       144 la~al~~~p~llllDEP~~~LD~~~~~~l~~~l~~~~~~~tii~~sH~~~~~~~  197 (220)
T cd03263         144 LAIALIGGPSVLLLDEPTSGLDPASRRAIWDLILEVRKGRSIILTTHSMDEAEA  197 (220)
T ss_pred             HHHHHhcCCCEEEECCCCCCCCHHHHHHHHHHHHHHhcCCEEEEEcCCHHHHHH
Confidence            44445567788999997543 333444555555432234568889988776644

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.

>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=96.46  E-value=0.014  Score=53.19  Aligned_cols=86  Identities=20%  Similarity=0.225  Sum_probs=52.3

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCC-----CcccHHHHHHHH
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSAS-----GLNEFQSLMSRI  283 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~-----~~~~~~~~~~~l  283 (352)
                      +.-+++-|+|+.|+||||||-.+...  ....-..++||.....++...     ++.++....     .....++....+
T Consensus        51 p~G~ivEi~G~~ssGKttLaL~~ia~--~q~~g~~~a~ID~e~~ld~~~-----a~~lGvdl~rllv~~P~~~E~al~~~  123 (322)
T PF00154_consen   51 PRGRIVEIYGPESSGKTTLALHAIAE--AQKQGGICAFIDAEHALDPEY-----AESLGVDLDRLLVVQPDTGEQALWIA  123 (322)
T ss_dssp             ETTSEEEEEESTTSSHHHHHHHHHHH--HHHTT-EEEEEESSS---HHH-----HHHTT--GGGEEEEE-SSHHHHHHHH
T ss_pred             ccCceEEEeCCCCCchhhhHHHHHHh--hhcccceeEEecCcccchhhH-----HHhcCccccceEEecCCcHHHHHHHH
Confidence            44579999999999999999888764  334456799999988877643     344443311     122344445555


Q ss_pred             HHhcC-CceEEEEecCCCC
Q 036619          284 QSSIK-GKKNFLVLDDVWD  301 (352)
Q Consensus       284 ~~~l~-~kr~LlVlDdvw~  301 (352)
                      .+.++ +.--++|+|.|-.
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            55554 3445999999843

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 ....

>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=96.45  E-value=0.021  Score=57.74  Aligned_cols=87  Identities=18%  Similarity=0.263  Sum_probs=47.4

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCC--HHHHHHHHHHHhCCCCCCcccHHHHHHHHHHhcC
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFD--QIRIAKAIIEGLGKSASGLNEFQSLMSRIQSSIK  288 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~--~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~  288 (352)
                      ..++.++|+.|+||||++.++............+..++.. .+.  ....++...+.++.......+..++...+.+ ++
T Consensus       185 g~Vi~lVGpnGvGKTTTiaKLA~~~~~~~G~kkV~lit~D-t~RigA~eQL~~~a~~~gvpv~~~~~~~~l~~al~~-~~  262 (767)
T PRK14723        185 GGVLALVGPTGVGKTTTTAKLAARCVAREGADQLALLTTD-SFRIGALEQLRIYGRILGVPVHAVKDAADLRFALAA-LG  262 (767)
T ss_pred             CeEEEEECCCCCcHHHHHHHHHhhHHHHcCCCeEEEecCc-ccchHHHHHHHHHHHhCCCCccccCCHHHHHHHHHH-hc
Confidence            4799999999999999998888653222222345555433 233  3444555555555433222334444333332 23


Q ss_pred             CceEEEEecCCC
Q 036619          289 GKKNFLVLDDVW  300 (352)
Q Consensus       289 ~kr~LlVlDdvw  300 (352)
                      ++ =+|++|=..
T Consensus       263 ~~-D~VLIDTAG  273 (767)
T PRK14723        263 DK-HLVLIDTVG  273 (767)
T ss_pred             CC-CEEEEeCCC
Confidence            33 255556554

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

Probab=96.45  E-value=0.009  Score=49.85  Aligned_cols=22  Identities=36%  Similarity=0.468  Sum_probs=20.0

Q ss_pred             EEEEEecCCCcHHHHHHHHHhh
Q 036619          213 VISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .|.|+|.+|+||||+|+.+.+.
T Consensus         2 riiilG~pGaGK~T~A~~La~~   23 (178)
T COG0563           2 RILILGPPGAGKSTLAKKLAKK   23 (178)
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            4679999999999999999986

>COG4618 ArpD ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]

Probab=96.45  E-value=0.018  Score=54.73  Aligned_cols=55  Identities=13%  Similarity=0.145  Sum_probs=33.5

Q ss_pred             HHHHHhcCCceEEEEecCCCCCCccC-hhHHHHhhcc-CCCCcEEEEecCChHHHHH
Q 036619          281 SRIQSSIKGKKNFLVLDDVWDGDYNK-WQPFFRCLKN-GLHGSKILVTTRNESVARM  335 (352)
Q Consensus       281 ~~l~~~l~~kr~LlVlDdvw~~~~~~-~~~l~~~l~~-~~~gs~IivTTR~~~va~~  335 (352)
                      --|.+.|-+..+|+|||.--..-++. =..+..++.. ...|+.+|+.|..+.+...
T Consensus       481 IaLARAlYG~P~lvVLDEPNsNLD~~GE~AL~~Ai~~~k~rG~~vvviaHRPs~L~~  537 (580)
T COG4618         481 IALARALYGDPFLVVLDEPNSNLDSEGEAALAAAILAAKARGGTVVVIAHRPSALAS  537 (580)
T ss_pred             HHHHHHHcCCCcEEEecCCCCCcchhHHHHHHHHHHHHHHcCCEEEEEecCHHHHhh
Confidence            34667788999999999864432222 2234444442 2456667777777766543

>cd03213 ABCG_EPDR ABCG transporters are involved in eye pigment (EP) precursor transport, regulation of lipid-trafficking mechanisms, and pleiotropic drug resistance (DR)

Probab=96.45  E-value=0.033  Score=47.17  Aligned_cols=118  Identities=16%  Similarity=0.192  Sum_probs=60.0

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEE---------------EeCCCCC---HHHHHHHHHHHhCCCCCC
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWV---------------CVSDTFD---QIRIAKAIIEGLGKSASG  272 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv---------------~vs~~~~---~~~~~~~i~~~l~~~~~~  272 (352)
                      -.+++|.|+.|.|||||.+.+..-.. .......+++               .+.+...   ...+...+.-....  ..
T Consensus        35 Ge~~~l~G~nGsGKStLl~~i~Gl~~-~~~~~G~i~~~g~~~~~~~~~~~i~~~~q~~~~~~~~t~~~~i~~~~~~--~~  111 (194)
T cd03213          35 GELTAIMGPSGAGKSTLLNALAGRRT-GLGVSGEVLINGRPLDKRSFRKIIGYVPQDDILHPTLTVRETLMFAAKL--RG  111 (194)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCCCC-CCCCceEEEECCEeCchHhhhheEEEccCcccCCCCCcHHHHHHHHHHh--cc
Confidence            46899999999999999999986320 0111111111               1122211   11222222211000  01


Q ss_pred             cccHHHHHHHHHHhcCCceEEEEecCCCCC-CccChhHHHHhhccC-CCCcEEEEecCChH
Q 036619          273 LNEFQSLMSRIQSSIKGKKNFLVLDDVWDG-DYNKWQPFFRCLKNG-LHGSKILVTTRNES  331 (352)
Q Consensus       273 ~~~~~~~~~~l~~~l~~kr~LlVlDdvw~~-~~~~~~~l~~~l~~~-~~gs~IivTTR~~~  331 (352)
                      .+.-+...-.|...|-.+.-+++||+.-.. |......+...+... ..|..||++|.+..
T Consensus       112 LS~G~~qrv~laral~~~p~illlDEP~~~LD~~~~~~l~~~l~~~~~~~~tiii~sh~~~  172 (194)
T cd03213         112 LSGGERKRVSIALELVSNPSLLFLDEPTSGLDSSSALQVMSLLRRLADTGRTIICSIHQPS  172 (194)
T ss_pred             CCHHHHHHHHHHHHHHcCCCEEEEeCCCcCCCHHHHHHHHHHHHHHHhCCCEEEEEecCch
Confidence            222222223344555556678889987543 333455555555432 23677888888864

DR is a well-described phenomenon occurring in fungi and shares several similarities with processes in bacteria and higher eukaryotes. Compared to other members of the ABC transporter subfamilies, the ABCG transporter family is composed of proteins that have an ATP-binding cassette domain at the N-terminus and a TM (transmembrane) domain at the C-terminus.

>cd03283 ABC_MutS-like MutS-like homolog in eukaryotes

Probab=96.44  E-value=0.0091  Score=50.85  Aligned_cols=23  Identities=26%  Similarity=0.195  Sum_probs=20.8

Q ss_pred             EEEEEEecCCCcHHHHHHHHHhh
Q 036619          212 QVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .++.|+|+.|.|||||.+.+...
T Consensus        26 ~~~~ltGpNg~GKSTllr~i~~~   48 (199)
T cd03283          26 NGILITGSNMSGKSTFLRTIGVN   48 (199)
T ss_pred             cEEEEECCCCCChHHHHHHHHHH
Confidence            78999999999999999988753

The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal domain with a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form slid

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

Probab=96.43  E-value=0.0067  Score=48.53  Aligned_cols=39  Identities=26%  Similarity=0.344  Sum_probs=28.6

Q ss_pred             EEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCC
Q 036619          212 QVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSD  251 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~  251 (352)
                      ++|.|+|..|+|||||++.+.+. -.+..+...+..+...
T Consensus         1 pvv~VvG~~~sGKTTl~~~Li~~-l~~~g~~v~~ik~~~~   39 (140)
T PF03205_consen    1 PVVQVVGPKNSGKTTLIRKLINE-LKRRGYRVAVIKHTDH   39 (140)
T ss_dssp             -EEEEEESTTSSHHHHHHHHHHH-HHHTT--EEEEEE-ST
T ss_pred             CEEEEECCCCCCHHHHHHHHHHH-HhHcCCceEEEEEccC
Confidence            47999999999999999999985 3345666666776665

>PRK09519 recA DNA recombination protein RecA; Reviewed

Probab=96.43  E-value=0.014  Score=59.27  Aligned_cols=85  Identities=21%  Similarity=0.213  Sum_probs=57.5

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCC-----CcccHHHHHHHH
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSAS-----GLNEFQSLMSRI  283 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~-----~~~~~~~~~~~l  283 (352)
                      +.-+++-|.|.+|+|||||+.+++...  ...-..++|+.....++..     .+++++....     .....+.....+
T Consensus        58 p~GsiteI~G~~GsGKTtLal~~~~~a--~~~G~~v~yId~E~t~~~~-----~A~~lGvDl~~llv~~~~~~E~~l~~i  130 (790)
T PRK09519         58 PRGRVIEIYGPESSGKTTVALHAVANA--QAAGGVAAFIDAEHALDPD-----YAKKLGVDTDSLLVSQPDTGEQALEIA  130 (790)
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHHHH--HHcCCcEEEECCccchhHH-----HHHHcCCChhHeEEecCCCHHHHHHHH
Confidence            456888899999999999997665432  2233568999888877743     5666665422     122345556666


Q ss_pred             HHhcC-CceEEEEecCCC
Q 036619          284 QSSIK-GKKNFLVLDDVW  300 (352)
Q Consensus       284 ~~~l~-~kr~LlVlDdvw  300 (352)
                      ...++ ++--|||+|.+-
T Consensus       131 ~~lv~~~~~~LVVIDSI~  148 (790)
T PRK09519        131 DMLIRSGALDIVVIDSVA  148 (790)
T ss_pred             HHHhhcCCCeEEEEcchh
Confidence            66664 456699999985

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

Probab=96.42  E-value=0.018  Score=56.84  Aligned_cols=73  Identities=26%  Similarity=0.202  Sum_probs=45.8

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCC--CHHHHHHHHHHHhCCCCCCcccHHHHHHHHHHhc
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTF--DQIRIAKAIIEGLGKSASGLNEFQSLMSRIQSSI  287 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~--~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l  287 (352)
                      ...-|.|.|+.|+|||+||+.+++... +++.-.+..++++.--  ..+++..                 .+...+.+.+
T Consensus       430 ~~~~Ill~G~~GsGKT~L~kal~~~~~-k~~~~hv~~v~Cs~l~~~~~e~iQk-----------------~l~~vfse~~  491 (952)
T KOG0735|consen  430 RHGNILLNGPKGSGKTNLVKALFDYYS-KDLIAHVEIVSCSTLDGSSLEKIQK-----------------FLNNVFSEAL  491 (952)
T ss_pred             ccccEEEeCCCCCCHhHHHHHHHHHhc-cccceEEEEEechhccchhHHHHHH-----------------HHHHHHHHHH
Confidence            356788999999999999999998644 4444344455554321  1111111                 1122333455


Q ss_pred             CCceEEEEecCCC
Q 036619          288 KGKKNFLVLDDVW  300 (352)
Q Consensus       288 ~~kr~LlVlDdvw  300 (352)
                      ....-+|||||+.
T Consensus       492 ~~~PSiIvLDdld  504 (952)
T KOG0735|consen  492 WYAPSIIVLDDLD  504 (952)
T ss_pred             hhCCcEEEEcchh
Confidence            6778899999984

>TIGR00708 cobA cob(I)alamin adenosyltransferase

Probab=96.41  E-value=0.049  Score=44.98  Aligned_cols=119  Identities=12%  Similarity=0.044  Sum_probs=66.1

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeE--EEEEeCCCCCHHHHHHHHHHHh---CCC----CCCc-cc---HH
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKV--IWVCVSDTFDQIRIAKAIIEGL---GKS----ASGL-NE---FQ  277 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~--~wv~vs~~~~~~~~~~~i~~~l---~~~----~~~~-~~---~~  277 (352)
                      ...|-|++..|.||||+|--+.-. .....+.+.  -|+..........++..+.-.+   +..    ..+. .+   ..
T Consensus         5 ~Gli~v~~g~GkGKtt~a~g~a~r-a~~~g~~v~ivQFlKg~~~~GE~~~l~~~~~~~~~~g~g~~~~~~~~~~~~~~~~   83 (173)
T TIGR00708         5 RGIIIVHTGNGKGKTTAAFGMALR-ALGHGKKVGVIQFIKGAWPNGERAAFEPHGVEFQVMGTGFTWETQNREADTAIAK   83 (173)
T ss_pred             ccEEEEECCCCCChHHHHHHHHHH-HHHCCCeEEEEEEecCCcccChHHHHHhcCcEEEECCCCCeecCCCcHHHHHHHH
Confidence            357778888999999999665543 223333221  1333332233344444321000   110    0010 11   22


Q ss_pred             HHHHHHHHhcCCceE-EEEecCCCC---CCccChhHHHHhhccCCCCcEEEEecCCh
Q 036619          278 SLMSRIQSSIKGKKN-FLVLDDVWD---GDYNKWQPFFRCLKNGLHGSKILVTTRNE  330 (352)
Q Consensus       278 ~~~~~l~~~l~~kr~-LlVlDdvw~---~~~~~~~~l~~~l~~~~~gs~IivTTR~~  330 (352)
                      ......++.+...+| |||||.+-.   ...-..+.+...+...+.+.-||+|-|+.
T Consensus        84 ~~~~~a~~~l~~~~~DlvVLDEi~~A~~~gli~~~~v~~lL~~rp~~~evVlTGR~~  140 (173)
T TIGR00708        84 AAWQHAKEMLADPELDLVLLDELTYALKYGYLDVEEVVEALQERPGHQHVIITGRGC  140 (173)
T ss_pred             HHHHHHHHHHhcCCCCEEEehhhHHHHHCCCcCHHHHHHHHHhCCCCCEEEEECCCC
Confidence            334455566655555 999999832   12235667888887777788899999986

Alternate name: corrinoid adenosyltransferase.

>PRK06762 hypothetical protein; Provisional

Probab=96.40  E-value=0.0029  Score=52.09  Aligned_cols=24  Identities=33%  Similarity=0.425  Sum_probs=21.5

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      +.+|.|.|++|+||||+|+.+.+.
T Consensus         2 ~~li~i~G~~GsGKST~A~~L~~~   25 (166)
T PRK06762          2 TTLIIIRGNSGSGKTTIAKQLQER   25 (166)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHH
Confidence            468999999999999999999874

>cd00267 ABC_ATPase ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules

Probab=96.40  E-value=0.012  Score=47.94  Aligned_cols=117  Identities=19%  Similarity=0.244  Sum_probs=63.2

Q ss_pred             EEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCC--CHHHHHHHHHHHhCCCCCCcccHHHHHHHHHHhcCC
Q 036619          212 QVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTF--DQIRIAKAIIEGLGKSASGLNEFQSLMSRIQSSIKG  289 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~--~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~  289 (352)
                      .+++|+|..|.|||||.+.+....   ......+++....-.  .....    ...+.-... .+.-+...-.+...+..
T Consensus        26 ~~~~i~G~nGsGKStll~~l~g~~---~~~~G~i~~~~~~~~~~~~~~~----~~~i~~~~q-lS~G~~~r~~l~~~l~~   97 (157)
T cd00267          26 EIVALVGPNGSGKSTLLRAIAGLL---KPTSGEILIDGKDIAKLPLEEL----RRRIGYVPQ-LSGGQRQRVALARALLL   97 (157)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC---CCCccEEEECCEEcccCCHHHH----HhceEEEee-CCHHHHHHHHHHHHHhc
Confidence            689999999999999999998742   233444444322111  11111    111111000 12222222334455555


Q ss_pred             ceEEEEecCCCCC-CccChhHHHHhhccC-CCCcEEEEecCChHHHHHh
Q 036619          290 KKNFLVLDDVWDG-DYNKWQPFFRCLKNG-LHGSKILVTTRNESVARMM  336 (352)
Q Consensus       290 kr~LlVlDdvw~~-~~~~~~~l~~~l~~~-~~gs~IivTTR~~~va~~~  336 (352)
                      ..-++++|+.-.. |......+...+... ..+..+|++|.+.+....+
T Consensus        98 ~~~i~ilDEp~~~lD~~~~~~l~~~l~~~~~~~~tii~~sh~~~~~~~~  146 (157)
T cd00267          98 NPDLLLLDEPTSGLDPASRERLLELLRELAEEGRTVIIVTHDPELAELA  146 (157)
T ss_pred             CCCEEEEeCCCcCCCHHHHHHHHHHHHHHHHCCCEEEEEeCCHHHHHHh
Confidence            6788899998543 223344455554421 2256789999887766653

The nucleotide-binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03254 ABCC_Glucan_exporter_like Glucan exporter ATP-binding protein

Probab=96.39  E-value=0.042  Score=47.75  Aligned_cols=54  Identities=15%  Similarity=0.217  Sum_probs=33.5

Q ss_pred             HHHHhcCCceEEEEecCCCCC-CccChhHHHHhhccCCCCcEEEEecCChHHHHH
Q 036619          282 RIQSSIKGKKNFLVLDDVWDG-DYNKWQPFFRCLKNGLHGSKILVTTRNESVARM  335 (352)
Q Consensus       282 ~l~~~l~~kr~LlVlDdvw~~-~~~~~~~l~~~l~~~~~gs~IivTTR~~~va~~  335 (352)
                      .|...|-.+.-+++||+--.. |......+...+..-..|..||++|.+......
T Consensus       149 ~la~al~~~p~llllDEP~~~LD~~~~~~l~~~l~~~~~~~tii~~sh~~~~~~~  203 (229)
T cd03254         149 AIARAMLRDPKILILDEATSNIDTETEKLIQEALEKLMKGRTSIIIAHRLSTIKN  203 (229)
T ss_pred             HHHHHHhcCCCEEEEeCccccCCHHHHHHHHHHHHHhcCCCEEEEEecCHHHHhh
Confidence            344455666778999987543 333444555555433346678888888776653

In A. tumefaciens cyclic beta-1, 2-glucan must be transported into the periplasmic space to exert its action as a virluence factor. This subfamily belongs to the MRP-like family and is involved in drug, peptide, and lipid export. The MRP-like family, similar to all ABC proteins, have a common four-domain core structure constituted by two membrane-spanning domains each composed of six transmembrane (TM) helices and two nucleotide-binding domains (NBD). ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK09544 znuC high-affinity zinc transporter ATPase; Reviewed

Probab=96.38  E-value=0.031  Score=49.46  Aligned_cols=24  Identities=29%  Similarity=0.549  Sum_probs=21.6

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      -.+++|+|..|.|||||++.++.-
T Consensus        30 Ge~~~I~G~NGsGKSTLl~~i~Gl   53 (251)
T PRK09544         30 GKILTLLGPNGAGKSTLVRVVLGL   53 (251)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC
Confidence            468999999999999999999864

>PRK04328 hypothetical protein; Provisional

Probab=96.36  E-value=0.016  Score=51.29  Aligned_cols=114  Identities=18%  Similarity=0.228  Sum_probs=63.9

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCC----------------C--
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKS----------------A--  270 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~----------------~--  270 (352)
                      +.-+++.|.|.+|+|||+|+.++... ..+. -..++|++.....  ..+.+. +++++..                .  
T Consensus        21 p~gs~ili~G~pGsGKT~l~~~fl~~-~~~~-ge~~lyis~ee~~--~~i~~~-~~~~g~d~~~~~~~~~l~iid~~~~~   95 (249)
T PRK04328         21 PERNVVLLSGGPGTGKSIFSQQFLWN-GLQM-GEPGVYVALEEHP--VQVRRN-MRQFGWDVRKYEEEGKFAIVDAFTGG   95 (249)
T ss_pred             cCCcEEEEEcCCCCCHHHHHHHHHHH-HHhc-CCcEEEEEeeCCH--HHHHHH-HHHcCCCHHHHhhcCCEEEEeccccc
Confidence            34688999999999999999765543 2222 4568888876643  333332 2222211                0  


Q ss_pred             ------------CCcccHHHHHHHHHHhcCC-ceEEEEecCCCCC---CccCh----hHHHHhhccCCCCcEEEEecCC
Q 036619          271 ------------SGLNEFQSLMSRIQSSIKG-KKNFLVLDDVWDG---DYNKW----QPFFRCLKNGLHGSKILVTTRN  329 (352)
Q Consensus       271 ------------~~~~~~~~~~~~l~~~l~~-kr~LlVlDdvw~~---~~~~~----~~l~~~l~~~~~gs~IivTTR~  329 (352)
                                  ....+.+.+...+.+.++. +.-++|+|.+-..   +....    ..|...+.  ..|+.+|+|+..
T Consensus        96 ~~~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~vVIDSlt~l~~~~~~~~r~~~~~l~~~lk--~~g~t~llt~e~  172 (249)
T PRK04328         96 IGSAAKREKYVVKDPDDVRELIDVLRQAIKDIGAKRVVIDSVSTLYLTKPAMARSIVMQLKRVLS--GLGCTAIFVSQV  172 (249)
T ss_pred             cccccccccccccCcccHHHHHHHHHHHHHhhCCCEEEEeChhHhhcCChHHHHHHHHHHHHHHH--hCCCEEEEEECc
Confidence                        0123455666666666643 3447999998321   11101    11222232  447788888654

>TIGR03878 thermo_KaiC_2 KaiC domain protein, AF_0795 family

Probab=96.36  E-value=0.016  Score=51.63  Aligned_cols=42  Identities=21%  Similarity=0.349  Sum_probs=30.4

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCC
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDT  252 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~  252 (352)
                      +.-+++.|.|.+|+|||+|+.++.... .+. =..+++++...+
T Consensus        34 p~gs~~lI~G~pGtGKT~l~~qf~~~~-a~~-Ge~vlyis~Ee~   75 (259)
T TIGR03878        34 PAYSVINITGVSDTGKSLMVEQFAVTQ-ASR-GNPVLFVTVESP   75 (259)
T ss_pred             ECCcEEEEEcCCCCCHHHHHHHHHHHH-HhC-CCcEEEEEecCC
Confidence            446889999999999999997765432 222 346788887643

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

>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=96.36  E-value=0.0041  Score=56.79  Aligned_cols=50  Identities=22%  Similarity=0.300  Sum_probs=43.9

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHh
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYN  233 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~  233 (352)
                      ..++|.++.+++|++.|.....+.+..-+|+-++|+.|.||||||+.+.+
T Consensus        61 ~~~~G~~~~i~~lV~~fk~AA~g~~~~krIl~L~GPvg~GKSsl~~~Lk~  110 (358)
T PF08298_consen   61 DEFYGMEETIERLVNYFKSAAQGLEERKRILLLLGPVGGGKSSLAELLKR  110 (358)
T ss_pred             ccccCcHHHHHHHHHHHHHHHhccCccceEEEEECCCCCCHHHHHHHHHH
Confidence            47999999999999999876655556789999999999999999988876

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

>cd03232 ABC_PDR_domain2 The pleiotropic drug resistance-like (PDR) family of ATP-binding cassette (ABC) transporters

Probab=96.36  E-value=0.025  Score=47.83  Aligned_cols=23  Identities=35%  Similarity=0.447  Sum_probs=21.1

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYN  233 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~  233 (352)
                      -.+++|+|..|.|||||.+.+..
T Consensus        33 Ge~~~l~G~nGsGKSTLl~~l~G   55 (192)
T cd03232          33 GTLTALMGESGAGKTTLLDVLAG   55 (192)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhC
Confidence            46899999999999999999985

PDR is a well-described phenomenon occurring in fungi and shares several similarities with processes in bacteria and higher eukaryotes. This PDR subfamily represents domain I of its (ABC-IM)2 organization. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>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=96.35  E-value=0.003  Score=43.81  Aligned_cols=22  Identities=32%  Similarity=0.516  Sum_probs=19.6

Q ss_pred             EEEEEecCCCcHHHHHHHHHhh
Q 036619          213 VISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ++.|.|..|+||||+++.+.+.
T Consensus         1 ~i~i~G~~gsGKst~~~~l~~~   22 (69)
T cd02019           1 IIAITGGSGSGKSTVAKKLAEQ   22 (69)
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            4789999999999999998874

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.

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

Probab=96.35  E-value=0.0087  Score=55.72  Aligned_cols=103  Identities=19%  Similarity=0.228  Sum_probs=59.1

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHhhhhh----hccCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCcccHHHHHHHHH
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYNNDEV----KRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSASGLNEFQSLMSRIQ  284 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~----~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~  284 (352)
                      ..++=+-|||..|.|||.|.-.+|+.-.+    +-||              ...+.++-+.+.........    ...+.
T Consensus        60 ~~~~GlYl~G~vG~GKT~Lmd~f~~~lp~~~k~R~HF--------------h~Fm~~vh~~l~~~~~~~~~----l~~va  121 (362)
T PF03969_consen   60 PPPKGLYLWGPVGRGKTMLMDLFYDSLPIKRKRRVHF--------------HEFMLDVHSRLHQLRGQDDP----LPQVA  121 (362)
T ss_pred             CCCceEEEECCCCCchhHHHHHHHHhCCccccccccc--------------cHHHHHHHHHHHHHhCCCcc----HHHHH
Confidence            34677889999999999999999986433    2233              23333333333221111111    23344


Q ss_pred             HhcCCceEEEEecCCCCCCccChhHHHHhhcc-CCCCcEEEEecCCh
Q 036619          285 SSIKGKKNFLVLDDVWDGDYNKWQPFFRCLKN-GLHGSKILVTTRNE  330 (352)
Q Consensus       285 ~~l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~-~~~gs~IivTTR~~  330 (352)
                      +.+.++..||.||...-.|..+--.|...|.. ...|. |||+|.|.
T Consensus       122 ~~l~~~~~lLcfDEF~V~DiaDAmil~rLf~~l~~~gv-vlVaTSN~  167 (362)
T PF03969_consen  122 DELAKESRLLCFDEFQVTDIADAMILKRLFEALFKRGV-VLVATSNR  167 (362)
T ss_pred             HHHHhcCCEEEEeeeeccchhHHHHHHHHHHHHHHCCC-EEEecCCC
Confidence            55566777999999866544332233333332 13466 66666653

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

>cd03217 ABC_FeS_Assembly ABC-type transport system involved in Fe-S cluster assembly, ATPase component

Probab=96.35  E-value=0.027  Score=47.96  Aligned_cols=120  Identities=18%  Similarity=0.211  Sum_probs=61.6

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhhh--hh-hcc--C--------------Ce-EEEEEeCCCCCH--HHHHHHHHHHhCC
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNND--EV-KRN--F--------------EK-VIWVCVSDTFDQ--IRIAKAIIEGLGK  268 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~--~~-~~~--F--------------~~-~~wv~vs~~~~~--~~~~~~i~~~l~~  268 (352)
                      -.+++|+|..|.|||||.+.+....  .. ...  |              .. +.+  +.+....  .....+++...  
T Consensus        26 Ge~~~i~G~nGsGKStLl~~l~G~~~~~p~~G~i~~~g~~~~~~~~~~~~~~~i~~--v~q~~~~~~~~~~~~~l~~~--  101 (200)
T cd03217          26 GEVHALMGPNGSGKSTLAKTIMGHPKYEVTEGEILFKGEDITDLPPEERARLGIFL--AFQYPPEIPGVKNADFLRYV--  101 (200)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCCCcCCCCccEEEECCEECCcCCHHHHhhCcEEE--eecChhhccCccHHHHHhhc--
Confidence            4689999999999999999988741  10 000  0              00 111  1221110  00111111111  


Q ss_pred             CCCCcccHHHHHHHHHHhcCCceEEEEecCCCCC-CccChhHHHHhhccC-CCCcEEEEecCChHHHHH
Q 036619          269 SASGLNEFQSLMSRIQSSIKGKKNFLVLDDVWDG-DYNKWQPFFRCLKNG-LHGSKILVTTRNESVARM  335 (352)
Q Consensus       269 ~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdvw~~-~~~~~~~l~~~l~~~-~~gs~IivTTR~~~va~~  335 (352)
                       ....+..+...-.|...+-...-++++|+.-.. |......+...+... ..|..||++|.+...+..
T Consensus       102 -~~~LS~G~~qrv~laral~~~p~illlDEPt~~LD~~~~~~l~~~L~~~~~~~~tiii~sh~~~~~~~  169 (200)
T cd03217         102 -NEGFSGGEKKRNEILQLLLLEPDLAILDEPDSGLDIDALRLVAEVINKLREEGKSVLIITHYQRLLDY  169 (200)
T ss_pred             -cccCCHHHHHHHHHHHHHhcCCCEEEEeCCCccCCHHHHHHHHHHHHHHHHCCCEEEEEecCHHHHHH
Confidence             011222222233345555666778899987432 333344555555432 236678889988876653

Biosynthesis of iron-sulfur clusters (Fe-S) depends on multiprotein systems. The SUF system of E. coli and Erwinia chrysanthemi is important for Fe-S biogenesis under stressful conditions. The SUF system is made of six proteins: SufC is an atypical cytoplasmic ABC-ATPase, which forms a complex with SufB and SufD; SufA plays the role of a scaffold protein for assembly of iron-sulfur clusters and delivery to target proteins; SufS is a cysteine desulfurase which mobilizes the sulfur atom from cysteine and provides it to the cluster; SufE has no associated function yet.

>cd03243 ABC_MutS_homologs The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch

Probab=96.34  E-value=0.0099  Score=50.74  Aligned_cols=121  Identities=13%  Similarity=0.174  Sum_probs=57.5

Q ss_pred             EEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCCC---CCcccHHHHHHHHHHhc-
Q 036619          212 QVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSA---SGLNEFQSLMSRIQSSI-  287 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~---~~~~~~~~~~~~l~~~l-  287 (352)
                      .++.|+|+.|.|||||.+.+....-.. +...  |+.... ... ....++...+....   ........-...+...+ 
T Consensus        30 ~~~~l~G~Ng~GKStll~~i~~~~~~~-~~g~--~~~~~~-~~i-~~~dqi~~~~~~~d~i~~~~s~~~~e~~~l~~i~~  104 (202)
T cd03243          30 RLLLITGPNMGGKSTYLRSIGLAVLLA-QIGC--FVPAES-ASI-PLVDRIFTRIGAEDSISDGRSTFMAELLELKEILS  104 (202)
T ss_pred             eEEEEECCCCCccHHHHHHHHHHHHHH-HcCC--Cccccc-ccc-CCcCEEEEEecCcccccCCceeHHHHHHHHHHHHH
Confidence            689999999999999999998432111 1111  111100 000 00111111111110   01111111111222222 


Q ss_pred             -CCceEEEEecCCCCCCccCh-hHHHHh-hcc-CCCCcEEEEecCChHHHHHhC
Q 036619          288 -KGKKNFLVLDDVWDGDYNKW-QPFFRC-LKN-GLHGSKILVTTRNESVARMMG  337 (352)
Q Consensus       288 -~~kr~LlVlDdvw~~~~~~~-~~l~~~-l~~-~~~gs~IivTTR~~~va~~~~  337 (352)
                       ...+-++++|..-..-.... ..+... +.. ...++.||++|.+.+++..+.
T Consensus       105 ~~~~~~llllDEp~~gld~~~~~~l~~~ll~~l~~~~~~vi~~tH~~~~~~~~~  158 (202)
T cd03243         105 LATPRSLVLIDELGRGTSTAEGLAIAYAVLEHLLEKGCRTLFATHFHELADLPE  158 (202)
T ss_pred             hccCCeEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCeEEEECChHHHHHHhh
Confidence             35788999999855321111 122211 211 123677999999998887654

Members of the MutS family also possess a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding clamps, and recognition of specific DNA stru

>cd01121 Sms Sms (bacterial radA) DNA repair protein

Probab=96.33  E-value=0.032  Score=52.19  Aligned_cols=84  Identities=24%  Similarity=0.317  Sum_probs=50.8

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCC-----CcccHHHHHHHHH
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSAS-----GLNEFQSLMSRIQ  284 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~-----~~~~~~~~~~~l~  284 (352)
                      .-.++.|.|.+|+|||||+.++....  ...-..++|++....  ...+ ..-+..++....     ...+++.+.+.+.
T Consensus        81 ~GslvLI~G~pG~GKStLllq~a~~~--a~~g~~VlYvs~EEs--~~qi-~~Ra~rlg~~~~~l~l~~e~~le~I~~~i~  155 (372)
T cd01121          81 PGSVILIGGDPGIGKSTLLLQVAARL--AKRGGKVLYVSGEES--PEQI-KLRADRLGISTENLYLLAETNLEDILASIE  155 (372)
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHHH--HhcCCeEEEEECCcC--HHHH-HHHHHHcCCCcccEEEEccCcHHHHHHHHH
Confidence            35789999999999999998887642  223346778876543  2332 222344443222     1233455444443


Q ss_pred             HhcCCceEEEEecCCCC
Q 036619          285 SSIKGKKNFLVLDDVWD  301 (352)
Q Consensus       285 ~~l~~kr~LlVlDdvw~  301 (352)
                         ..+.-+||+|.+..
T Consensus       156 ---~~~~~lVVIDSIq~  169 (372)
T cd01121         156 ---ELKPDLVIIDSIQT  169 (372)
T ss_pred             ---hcCCcEEEEcchHH
Confidence               23566899999854

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.

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

Probab=96.33  E-value=0.047  Score=44.10  Aligned_cols=22  Identities=45%  Similarity=0.622  Sum_probs=19.7

Q ss_pred             EEEEEecCCCcHHHHHHHHHhh
Q 036619          213 VISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ++.|+|.+|+||||||+.+...
T Consensus         1 ~i~i~G~~GsGKSTla~~L~~~   22 (149)
T cd02027           1 VIWLTGLSGSGKSTIARALEEK   22 (149)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHH
Confidence            4789999999999999999874

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

>cd03264 ABC_drug_resistance_like ABC-type multidrug transport system, ATPase component

Probab=96.31  E-value=0.015  Score=50.01  Aligned_cols=54  Identities=17%  Similarity=0.195  Sum_probs=32.0

Q ss_pred             HHHHhcCCceEEEEecCCCCC-CccChhHHHHhhccCCCCcEEEEecCChHHHHH
Q 036619          282 RIQSSIKGKKNFLVLDDVWDG-DYNKWQPFFRCLKNGLHGSKILVTTRNESVARM  335 (352)
Q Consensus       282 ~l~~~l~~kr~LlVlDdvw~~-~~~~~~~l~~~l~~~~~gs~IivTTR~~~va~~  335 (352)
                      .+...+..++-+++||+--.. |...-..+...+.....+..||++|.+.+....
T Consensus       140 ~la~al~~~p~llllDEPt~~LD~~~~~~l~~~l~~~~~~~tii~vsH~~~~~~~  194 (211)
T cd03264         140 GIAQALVGDPSILIVDEPTAGLDPEERIRFRNLLSELGEDRIVILSTHIVEDVES  194 (211)
T ss_pred             HHHHHHhcCCCEEEEcCCcccCCHHHHHHHHHHHHHHhCCCEEEEEcCCHHHHHH
Confidence            344555667778899987442 223344455555432224568888888776543

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.

>cd03251 ABCC_MsbA MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins

Probab=96.31  E-value=0.084  Score=46.03  Aligned_cols=53  Identities=15%  Similarity=0.152  Sum_probs=32.7

Q ss_pred             HHHhcCCceEEEEecCCCCC-CccChhHHHHhhccCCCCcEEEEecCChHHHHH
Q 036619          283 IQSSIKGKKNFLVLDDVWDG-DYNKWQPFFRCLKNGLHGSKILVTTRNESVARM  335 (352)
Q Consensus       283 l~~~l~~kr~LlVlDdvw~~-~~~~~~~l~~~l~~~~~gs~IivTTR~~~va~~  335 (352)
                      |...|-.+.-+++||+.-.. |......+...+.....|..||++|.+......
T Consensus       149 la~al~~~p~lllLDEP~~~LD~~~~~~l~~~l~~~~~~~tii~~sh~~~~~~~  202 (234)
T cd03251         149 IARALLKDPPILILDEATSALDTESERLVQAALERLMKNRTTFVIAHRLSTIEN  202 (234)
T ss_pred             HHHHHhcCCCEEEEeCccccCCHHHHHHHHHHHHHhcCCCEEEEEecCHHHHhh
Confidence            44445556668889987443 333455566666543346678888888766654

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.

>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=96.31  E-value=0.0088  Score=50.02  Aligned_cols=22  Identities=41%  Similarity=0.596  Sum_probs=20.0

Q ss_pred             EEEEEecCCCcHHHHHHHHHhh
Q 036619          213 VISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      +|+|.|.+|+||||||+.+...
T Consensus         1 ii~i~G~sgsGKttla~~l~~~   22 (179)
T cd02028           1 VVGIAGPSGSGKTTFAKKLSNQ   22 (179)
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            5899999999999999998874

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

>KOG2170 consensus ATPase of the AAA+ superfamily [General function prediction only]

Probab=96.30  E-value=0.018  Score=51.23  Aligned_cols=113  Identities=16%  Similarity=0.194  Sum_probs=67.7

Q ss_pred             CccccccchHHHHHHHHcCc-cccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhh---ccCCeEEEEEeCCCCCHHHHH
Q 036619          184 GEVCGRVDEKSELFSKLLCE-SSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVK---RNFEKVIWVCVSDTFDQIRIA  259 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~-~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~---~~F~~~~wv~vs~~~~~~~~~  259 (352)
                      ..++|..-.++.++..+..- .+..+.++-+++.+|.+|+||.-.++.+.++-.-.   ..| ...++..-+        
T Consensus        82 ~~lfGQHla~~~Vv~alk~~~~n~~p~KPLvLSfHG~tGTGKN~Va~iiA~n~~~~Gl~S~~-V~~fvat~h--------  152 (344)
T KOG2170|consen   82 RALFGQHLAKQLVVNALKSHWANPNPRKPLVLSFHGWTGTGKNYVAEIIAENLYRGGLRSPF-VHHFVATLH--------  152 (344)
T ss_pred             HHhhchHHHHHHHHHHHHHHhcCCCCCCCeEEEecCCCCCchhHHHHHHHHHHHhccccchh-HHHhhhhcc--------
Confidence            35778776666666666431 11124678999999999999999999888762111   111 000000000        


Q ss_pred             HHHHHHhCCCCCCcccH----HHHHHHHHHhc-CCceEEEEecCCCCCCccChhHHHHhhc
Q 036619          260 KAIIEGLGKSASGLNEF----QSLMSRIQSSI-KGKKNFLVLDDVWDGDYNKWQPFFRCLK  315 (352)
Q Consensus       260 ~~i~~~l~~~~~~~~~~----~~~~~~l~~~l-~~kr~LlVlDdvw~~~~~~~~~l~~~l~  315 (352)
                                -+....+    +++...++..+ .-+|-|+|||++......-.+.|.+.+.
T Consensus       153 ----------FP~~~~ie~Yk~eL~~~v~~~v~~C~rslFIFDE~DKmp~gLld~lkpfLd  203 (344)
T KOG2170|consen  153 ----------FPHASKIEDYKEELKNRVRGTVQACQRSLFIFDEVDKLPPGLLDVLKPFLD  203 (344)
T ss_pred             ----------CCChHHHHHHHHHHHHHHHHHHHhcCCceEEechhhhcCHhHHHHHhhhhc
Confidence                      1111122    34444444444 4689999999998876666777777765

>TIGR01420 pilT_fam pilus retraction protein PilT

Probab=96.28  E-value=0.015  Score=53.90  Aligned_cols=112  Identities=14%  Similarity=0.222  Sum_probs=62.0

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCcccHHHHHHHHHHhcCCc
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSASGLNEFQSLMSRIQSSIKGK  290 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~k  290 (352)
                      -..+.|.|+.|+||||+.+.+.+.  +..+....++. +.++...  ........+.....+ .+.......++..|...
T Consensus       122 ~g~ili~G~tGSGKTT~l~al~~~--i~~~~~~~i~t-iEdp~E~--~~~~~~~~i~q~evg-~~~~~~~~~l~~~lr~~  195 (343)
T TIGR01420       122 RGLILVTGPTGSGKSTTLASMIDY--INKNAAGHIIT-IEDPIEY--VHRNKRSLINQREVG-LDTLSFANALRAALRED  195 (343)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHh--hCcCCCCEEEE-EcCChhh--hccCccceEEccccC-CCCcCHHHHHHHhhccC
Confidence            367999999999999999988763  33344444443 3332111  000000000000011 11123456677788888


Q ss_pred             eEEEEecCCCCCCccChhHHHHhhccCCCCcEEEEecCChHHH
Q 036619          291 KNFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKILVTTRNESVA  333 (352)
Q Consensus       291 r~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTTR~~~va  333 (352)
                      .=.|++|.+.+.  +.+.....   ....|..|+.|+...+.+
T Consensus       196 pd~i~vgEird~--~~~~~~l~---aa~tGh~v~~T~Ha~~~~  233 (343)
T TIGR01420       196 PDVILIGEMRDL--ETVELALT---AAETGHLVFGTLHTNSAA  233 (343)
T ss_pred             CCEEEEeCCCCH--HHHHHHHH---HHHcCCcEEEEEcCCCHH
Confidence            889999999543  44443333   233466677777765544

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.

>cd03253 ABCC_ATM1_transporter ATM1 is an ABC transporter that is expressed in the mitochondria

Probab=96.28  E-value=0.054  Score=47.33  Aligned_cols=54  Identities=19%  Similarity=0.191  Sum_probs=34.5

Q ss_pred             HHHHhcCCceEEEEecCCCCC-CccChhHHHHhhccCCCCcEEEEecCChHHHHH
Q 036619          282 RIQSSIKGKKNFLVLDDVWDG-DYNKWQPFFRCLKNGLHGSKILVTTRNESVARM  335 (352)
Q Consensus       282 ~l~~~l~~kr~LlVlDdvw~~-~~~~~~~l~~~l~~~~~gs~IivTTR~~~va~~  335 (352)
                      .|...|-.++-+|+||+.-.. |......+...+.....|..||++|.+......
T Consensus       147 ~la~aL~~~p~llllDEP~~~LD~~~~~~l~~~l~~~~~~~tiii~sh~~~~~~~  201 (236)
T cd03253         147 AIARAILKNPPILLLDEATSALDTHTEREIQAALRDVSKGRTTIVIAHRLSTIVN  201 (236)
T ss_pred             HHHHHHhcCCCEEEEeCCcccCCHHHHHHHHHHHHHhcCCCEEEEEcCCHHHHHh
Confidence            345556667789999998553 333445566666543236678888888776653

Although the specific function of ATM1 is unknown, its disruption results in the accumulation of excess mitochondrial iron, loss of mitochondrial cytochromes, oxidative damage to mitochondrial DNA, and decreased levels of cytosolic heme proteins. 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.

>cd03298 ABC_ThiQ_thiamine_transporter ABC-type thiamine tranport system; part of the binding-protein-dependent transport system tbpA-thiPQ for thiamine and TPP

Probab=96.27  E-value=0.025  Score=48.54  Aligned_cols=53  Identities=15%  Similarity=0.172  Sum_probs=32.5

Q ss_pred             HHHhcCCceEEEEecCCCCC-CccChhHHHHhhccC--CCCcEEEEecCChHHHHH
Q 036619          283 IQSSIKGKKNFLVLDDVWDG-DYNKWQPFFRCLKNG--LHGSKILVTTRNESVARM  335 (352)
Q Consensus       283 l~~~l~~kr~LlVlDdvw~~-~~~~~~~l~~~l~~~--~~gs~IivTTR~~~va~~  335 (352)
                      +...+-...-+++||+.-.. |......+...+..-  ..|..||++|.+.+....
T Consensus       139 ia~al~~~p~llllDEP~~~LD~~~~~~l~~~l~~~~~~~~~tii~~sH~~~~~~~  194 (211)
T cd03298         139 LARVLVRDKPVLLLDEPFAALDPALRAEMLDLVLDLHAETKMTVLMVTHQPEDAKR  194 (211)
T ss_pred             HHHHHhcCCCEEEEcCCcccCCHHHHHHHHHHHHHHHHhcCCEEEEEecCHHHHHh
Confidence            34444556678889987443 334455566666532  236678888888775543

Probably responsible for the translocation of thiamine across the membrane. 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.

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

Probab=96.26  E-value=0.011  Score=50.53  Aligned_cols=44  Identities=20%  Similarity=0.180  Sum_probs=34.3

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHh
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYN  233 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~  233 (352)
                      .++||-++.++++.-.-.+      .+.+-+.|.||+|+||||-+..+.+
T Consensus        27 ~dIVGNe~tv~rl~via~~------gnmP~liisGpPG~GKTTsi~~LAr   70 (333)
T KOG0991|consen   27 QDIVGNEDTVERLSVIAKE------GNMPNLIISGPPGTGKTTSILCLAR   70 (333)
T ss_pred             HHhhCCHHHHHHHHHHHHc------CCCCceEeeCCCCCchhhHHHHHHH
Confidence            4689988888877665544      3467788999999999998877765

>COG1102 Cmk Cytidylate kinase [Nucleotide transport and metabolism]

Probab=96.26  E-value=0.011  Score=47.71  Aligned_cols=44  Identities=32%  Similarity=0.378  Sum_probs=32.8

Q ss_pred             EEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCC
Q 036619          213 VISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKS  269 (352)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~  269 (352)
                      +|.|-|++|+||||+|+.+.++....  |           .+.-.++++|++..+.+
T Consensus         2 ~ItIsG~pGsG~TTva~~lAe~~gl~--~-----------vsaG~iFR~~A~e~gms   45 (179)
T COG1102           2 VITISGLPGSGKTTVARELAEHLGLK--L-----------VSAGTIFREMARERGMS   45 (179)
T ss_pred             EEEeccCCCCChhHHHHHHHHHhCCc--e-----------eeccHHHHHHHHHcCCC
Confidence            68999999999999999999863322  1           23346788888877654

>TIGR03740 galliderm_ABC gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit

Probab=96.25  E-value=0.061  Score=46.58  Aligned_cols=53  Identities=17%  Similarity=0.228  Sum_probs=32.4

Q ss_pred             HHHhcCCceEEEEecCCCCC-CccChhHHHHhhccC-CCCcEEEEecCChHHHHH
Q 036619          283 IQSSIKGKKNFLVLDDVWDG-DYNKWQPFFRCLKNG-LHGSKILVTTRNESVARM  335 (352)
Q Consensus       283 l~~~l~~kr~LlVlDdvw~~-~~~~~~~l~~~l~~~-~~gs~IivTTR~~~va~~  335 (352)
                      +...+-..+-+++||+.-.. |....+.+...+... ..|..||++|.+...+..
T Consensus       135 laral~~~p~llllDEP~~~LD~~~~~~l~~~L~~~~~~~~tiii~sH~~~~~~~  189 (223)
T TIGR03740       135 IAIALLNHPKLLILDEPTNGLDPIGIQELRELIRSFPEQGITVILSSHILSEVQQ  189 (223)
T ss_pred             HHHHHhcCCCEEEECCCccCCCHHHHHHHHHHHHHHHHCCCEEEEEcCCHHHHHH
Confidence            44445556678889987443 333444555555432 236679999998876643

Model TIGR03731 represents the family of all lantibiotics related to gallidermin, including epidermin, mutatin, and nisin. This protein family describes the ATP-binding subunit of a gallidermin/epidermin class lantibiotic protection transporter. It is largely restricted to gallidermin-family lantibiotic biosynthesis and export cassettes, but also occurs in orphan transporter cassettes in species that lack candidate lantibiotic precursor and synthetase genes.

>PRK03839 putative kinase; Provisional

Probab=96.25  E-value=0.0037  Score=52.31  Aligned_cols=22  Identities=36%  Similarity=0.696  Sum_probs=20.1

Q ss_pred             EEEEEecCCCcHHHHHHHHHhh
Q 036619          213 VISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .|.|+|++|+||||+++.+++.
T Consensus         2 ~I~l~G~pGsGKsT~~~~La~~   23 (180)
T PRK03839          2 IIAITGTPGVGKTTVSKLLAEK   23 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            4789999999999999999985

>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily

Probab=96.25  E-value=0.0037  Score=52.49  Aligned_cols=24  Identities=29%  Similarity=0.354  Sum_probs=21.7

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..+|.|+|++|+||||+++.+...
T Consensus         3 ~~ii~i~G~~GsGKsTl~~~l~~~   26 (188)
T TIGR01360         3 CKIIFIVGGPGSGKGTQCEKIVEK   26 (188)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHH
Confidence            578999999999999999999864

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.

>KOG0924 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]

Probab=96.25  E-value=0.063  Score=52.79  Aligned_cols=132  Identities=22%  Similarity=0.318  Sum_probs=74.1

Q ss_pred             HHHHHHHHcCccccCCCCeEEEEEEecCCCcHHH-HHHHHHhhhhhhccCCeEEEEEeCCCCCHH--HHHHHHHHHhCCC
Q 036619          193 KSELFSKLLCESSEQQNGLQVISLVGLGGIGKTT-LAQLAYNNDEVKRNFEKVIWVCVSDTFDQI--RIAKAIIEGLGKS  269 (352)
Q Consensus       193 ~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTt-La~~v~~~~~~~~~F~~~~wv~vs~~~~~~--~~~~~i~~~l~~~  269 (352)
                      .++|++.+.        .-.||.|||..|+|||| |++.+|.+-     |...--|.+.++-.+.  .+.+.+.+..+..
T Consensus       361 R~~ll~~ir--------~n~vvvivgETGSGKTTQl~QyL~edG-----Y~~~GmIGcTQPRRvAAiSVAkrVa~EM~~~  427 (1042)
T KOG0924|consen  361 RDQLLSVIR--------ENQVVVIVGETGSGKTTQLAQYLYEDG-----YADNGMIGCTQPRRVAAISVAKRVAEEMGVT  427 (1042)
T ss_pred             HHHHHHHHh--------hCcEEEEEecCCCCchhhhHHHHHhcc-----cccCCeeeecCchHHHHHHHHHHHHHHhCCc
Confidence            455565553        24689999999999987 568888752     3222245666665544  3445555555332


Q ss_pred             CC----------Cc----------ccHHHHHHHHHHhcCCceEEEEecCCCCCCccChhHHHHhhc---cCCCCcEEEEe
Q 036619          270 AS----------GL----------NEFQSLMSRIQSSIKGKKNFLVLDDVWDGDYNKWQPFFRCLK---NGLHGSKILVT  326 (352)
Q Consensus       270 ~~----------~~----------~~~~~~~~~l~~~l~~kr~LlVlDdvw~~~~~~~~~l~~~l~---~~~~gs~IivT  326 (352)
                      ..          +.          ++.--|.+.|.+..-+|=-.||+|..++.. -.-+.+...|.   .....-|+|||
T Consensus       428 lG~~VGYsIRFEdvT~~~T~IkymTDGiLLrEsL~d~~L~kYSviImDEAHERs-lNtDilfGllk~~larRrdlKliVt  506 (1042)
T KOG0924|consen  428 LGDTVGYSIRFEDVTSEDTKIKYMTDGILLRESLKDRDLDKYSVIIMDEAHERS-LNTDILFGLLKKVLARRRDLKLIVT  506 (1042)
T ss_pred             cccccceEEEeeecCCCceeEEEeccchHHHHHhhhhhhhheeEEEechhhhcc-cchHHHHHHHHHHHHhhccceEEEe
Confidence            10          00          122223344444444455589999997642 12233333332   22447799999


Q ss_pred             cCCh---HHHHHhCC
Q 036619          327 TRNE---SVARMMGS  338 (352)
Q Consensus       327 TR~~---~va~~~~~  338 (352)
                      |-.-   ..+..+|.
T Consensus       507 SATm~a~kf~nfFgn  521 (1042)
T KOG0924|consen  507 SATMDAQKFSNFFGN  521 (1042)
T ss_pred             eccccHHHHHHHhCC
Confidence            8764   45666664

>PRK06547 hypothetical protein; Provisional

Probab=96.24  E-value=0.0046  Score=51.34  Aligned_cols=26  Identities=35%  Similarity=0.437  Sum_probs=23.1

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ....+|.|.|++|+||||||+.+.+.
T Consensus        13 ~~~~~i~i~G~~GsGKTt~a~~l~~~   38 (172)
T PRK06547         13 GGMITVLIDGRSGSGKTTLAGALAAR   38 (172)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            45789999999999999999999874

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

Probab=96.23  E-value=0.015  Score=55.64  Aligned_cols=52  Identities=27%  Similarity=0.202  Sum_probs=37.9

Q ss_pred             Ccccccc---chHHHHHHHHcCccc---cCCCCeEEEEEEecCCCcHHHHHHHHHhhh
Q 036619          184 GEVCGRV---DEKSELFSKLLCESS---EQQNGLQVISLVGLGGIGKTTLAQLAYNND  235 (352)
Q Consensus       184 ~~~~gr~---~~~~~l~~~L~~~~~---~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~  235 (352)
                      .++-|-+   .|+++++++|.++.-   -+.+=++=|.++|++|.|||-||+.|.-..
T Consensus       304 ~dVkG~DEAK~ELeEiVefLkdP~kftrLGGKLPKGVLLvGPPGTGKTlLARAvAGEA  361 (752)
T KOG0734|consen  304 EDVKGVDEAKQELEEIVEFLKDPTKFTRLGGKLPKGVLLVGPPGTGKTLLARAVAGEA  361 (752)
T ss_pred             ccccChHHHHHHHHHHHHHhcCcHHhhhccCcCCCceEEeCCCCCchhHHHHHhhccc
Confidence            3455655   567788888876542   123346778899999999999999999753

>cd03237 ABC_RNaseL_inhibitor_domain2 The ATPase domain 2 of RNase L inhibitor

Probab=96.22  E-value=0.045  Score=48.27  Aligned_cols=126  Identities=15%  Similarity=0.115  Sum_probs=64.4

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhhhhhh-c--cCC--eEEEEEeC----CCCCHHHHH--------------HHHHHHhC
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNNDEVK-R--NFE--KVIWVCVS----DTFDQIRIA--------------KAIIEGLG  267 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~-~--~F~--~~~wv~vs----~~~~~~~~~--------------~~i~~~l~  267 (352)
                      -.+++|+|..|+|||||.+.+....... .  .|+  .+.++.-.    ...++.+.+              .++++.++
T Consensus        25 Ge~~~i~G~NGsGKSTLlk~L~G~~~p~~G~i~~~g~~i~~~~q~~~~~~~~tv~e~l~~~~~~~~~~~~~~~~~l~~l~  104 (246)
T cd03237          25 SEVIGILGPNGIGKTTFIKMLAGVLKPDEGDIEIELDTVSYKPQYIKADYEGTVRDLLSSITKDFYTHPYFKTEIAKPLQ  104 (246)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCcCCCCeEEECCceEEEecccccCCCCCCHHHHHHHHhhhccccHHHHHHHHHHcC
Confidence            4689999999999999999998742211 1  011  12222111    011222222              12233332


Q ss_pred             CCC------CCcccHHHHHHHHHHhcCCceEEEEecCCCCC-CccChhHHHHhhccC--CCCcEEEEecCChHHHHHh
Q 036619          268 KSA------SGLNEFQSLMSRIQSSIKGKKNFLVLDDVWDG-DYNKWQPFFRCLKNG--LHGSKILVTTRNESVARMM  336 (352)
Q Consensus       268 ~~~------~~~~~~~~~~~~l~~~l~~kr~LlVlDdvw~~-~~~~~~~l~~~l~~~--~~gs~IivTTR~~~va~~~  336 (352)
                      ...      ...+.-+.-.-.|...|..+.=+++||.--.. |...-..+...+...  ..|..||++|.+...+..+
T Consensus       105 l~~~~~~~~~~LSgGe~qrv~iaraL~~~p~llllDEPt~~LD~~~~~~l~~~l~~~~~~~~~tiiivsHd~~~~~~~  182 (246)
T cd03237         105 IEQILDREVPELSGGELQRVAIAACLSKDADIYLLDEPSAYLDVEQRLMASKVIRRFAENNEKTAFVVEHDIIMIDYL  182 (246)
T ss_pred             CHHHhhCChhhCCHHHHHHHHHHHHHhcCCCEEEEeCCcccCCHHHHHHHHHHHHHHHHhcCCEEEEEeCCHHHHHHh
Confidence            210      01111222223345566667788999987443 222333444444432  2366799999887766543

The ABC ATPase, RNase L inhibitor (RLI), is a key enzyme in ribosomal biogenesis, formation of translation preinitiation complexes, and assembly of HIV capsids. RLI's are not transport proteins and thus cluster with a group of soluble proteins that lack the transmembrane components commonly found in other members of the family. Structurally, RLI's have an N-terminal Fe-S domain and two nucleotide-binding domains which are arranged to form two composite active sites in their interface cleft. RLI is one of the most conserved enzymes between archaea and eukaryotes with a sequence identity of more than 48%. The high degree of evolutionary conservation suggests that RLI performs a central role in archaeal and eukaryotic physiology.

>PF14516 AAA_35: AAA-like domain

Probab=96.22  E-value=0.08  Score=48.91  Aligned_cols=109  Identities=13%  Similarity=0.131  Sum_probs=67.6

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCC-----CCHHHH
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDT-----FDQIRI  258 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~-----~~~~~~  258 (352)
                      +..+.|...-+++.+.|..+       -..+.|.|+..+|||+|...+.+..+- ..+ .++++++..-     .+...+
T Consensus        11 ~~Yi~R~~~e~~~~~~i~~~-------G~~~~I~apRq~GKTSll~~l~~~l~~-~~~-~~v~id~~~~~~~~~~~~~~f   81 (331)
T PF14516_consen   11 PFYIERPPAEQECYQEIVQP-------GSYIRIKAPRQMGKTSLLLRLLERLQQ-QGY-RCVYIDLQQLGSAIFSDLEQF   81 (331)
T ss_pred             CcccCchHHHHHHHHHHhcC-------CCEEEEECcccCCHHHHHHHHHHHHHH-CCC-EEEEEEeecCCCcccCCHHHH
Confidence            44667876667777777543       357889999999999999998875332 244 4557776542     245555


Q ss_pred             HHHHHH----HhCCCCC-------CcccHHHHHHHHHHhc---CCceEEEEecCCCC
Q 036619          259 AKAIIE----GLGKSAS-------GLNEFQSLMSRIQSSI---KGKKNFLVLDDVWD  301 (352)
Q Consensus       259 ~~~i~~----~l~~~~~-------~~~~~~~~~~~l~~~l---~~kr~LlVlDdvw~  301 (352)
                      ++.++.    +++....       .......+...+.+++   .+++.+|+||++..
T Consensus        82 ~~~~~~~i~~~L~l~~~l~~~w~~~~~~~~~~~~~~~~~ll~~~~~~lVL~iDEiD~  138 (331)
T PF14516_consen   82 LRWFCEEISRQLKLDEKLDEYWDEEIGSKISCTEYFEEYLLKQIDKPLVLFIDEIDR  138 (331)
T ss_pred             HHHHHHHHHHHcCCChhHHHHHHHhcCChhhHHHHHHHHHHhcCCCCEEEEEechhh
Confidence            555544    4443221       0112233344444433   26899999999965

>KOG1051 consensus Chaperone HSP104 and related ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones]

Probab=96.22  E-value=0.05  Score=55.84  Aligned_cols=123  Identities=15%  Similarity=0.226  Sum_probs=74.3

Q ss_pred             CccccccchHHHHHHHHcCccccCC--CCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHH
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQ--NGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKA  261 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~--~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~  261 (352)
                      ..++|.++.+..|-+.+.....+-.  .....+.+.|+.|+|||-||+.+..-  +-+..+.-+-+..|.      ... 
T Consensus       562 ~~V~gQ~eAv~aIa~AI~~sr~gl~~~~~~awflflGpdgvGKt~lAkaLA~~--~Fgse~~~IriDmse------~~e-  632 (898)
T KOG1051|consen  562 ERVIGQDEAVAAIAAAIRRSRAGLKDPNPDAWFLFLGPDGVGKTELAKALAEY--VFGSEENFIRLDMSE------FQE-  632 (898)
T ss_pred             hhccchHHHHHHHHHHHHhhhcccCCCCCCeEEEEECCCchhHHHHHHHHHHH--HcCCccceEEechhh------hhh-
Confidence            3567777777777777754432211  25677889999999999999988863  333333444444443      222 


Q ss_pred             HHHHhCCCCCCcccHHHHHHHHHHhcCCceE-EEEecCCCCCCccChhHHHHhhccC
Q 036619          262 IIEGLGKSASGLNEFQSLMSRIQSSIKGKKN-FLVLDDVWDGDYNKWQPFFRCLKNG  317 (352)
Q Consensus       262 i~~~l~~~~~~~~~~~~~~~~l~~~l~~kr~-LlVlDdvw~~~~~~~~~l~~~l~~~  317 (352)
                      +.+.++.+ ++-- ..+-...|-+.++.+.| .|.||||...+......+...+..+
T Consensus       633 vskligsp-~gyv-G~e~gg~LteavrrrP~sVVLfdeIEkAh~~v~n~llq~lD~G  687 (898)
T KOG1051|consen  633 VSKLIGSP-PGYV-GKEEGGQLTEAVKRRPYSVVLFEEIEKAHPDVLNILLQLLDRG  687 (898)
T ss_pred             hhhccCCC-cccc-cchhHHHHHHHHhcCCceEEEEechhhcCHHHHHHHHHHHhcC
Confidence            22333332 2111 11123456667777776 7889999887766777777777654

>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=96.22  E-value=0.012  Score=51.36  Aligned_cols=63  Identities=25%  Similarity=0.275  Sum_probs=35.7

Q ss_pred             hHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHH
Q 036619          192 EKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRI  258 (352)
Q Consensus       192 ~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~  258 (352)
                      +...++..|....    .+..+|+|.|++|+|||||...+.....-+.+=-.++=|.-|.+++--.+
T Consensus        14 ~~~~ll~~l~~~~----g~a~~iGiTG~PGaGKSTli~~l~~~~~~~g~~VaVlAVDPSSp~tGGAl   76 (266)
T PF03308_consen   14 EARELLKRLYPHT----GRAHVIGITGPPGAGKSTLIDALIRELRERGKRVAVLAVDPSSPFTGGAL   76 (266)
T ss_dssp             HHHHHHHHHGGGT----T-SEEEEEEE-TTSSHHHHHHHHHHHHHHTT--EEEEEE-GGGGCC---S
T ss_pred             HHHHHHHHHHhhc----CCceEEEeeCCCCCcHHHHHHHHHHHHhhcCCceEEEEECCCCCCCCCcc
Confidence            4556777776543    45689999999999999999877765332222122333334445544333

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.

>cd03245 ABCC_bacteriocin_exporters ABC-type bacteriocin exporters

Probab=96.22  E-value=0.069  Score=46.11  Aligned_cols=51  Identities=18%  Similarity=0.236  Sum_probs=31.3

Q ss_pred             HHhcCCceEEEEecCCCCC-CccChhHHHHhhccCCCCcEEEEecCChHHHH
Q 036619          284 QSSIKGKKNFLVLDDVWDG-DYNKWQPFFRCLKNGLHGSKILVTTRNESVAR  334 (352)
Q Consensus       284 ~~~l~~kr~LlVlDdvw~~-~~~~~~~l~~~l~~~~~gs~IivTTR~~~va~  334 (352)
                      ...+-.++-+|+||+.-.. |......+...+.....+..||++|.+.+...
T Consensus       152 a~al~~~p~llllDEPt~~LD~~~~~~l~~~l~~~~~~~tii~~sH~~~~~~  203 (220)
T cd03245         152 ARALLNDPPILLLDEPTSAMDMNSEERLKERLRQLLGDKTLIIITHRPSLLD  203 (220)
T ss_pred             HHHHhcCCCEEEEeCccccCCHHHHHHHHHHHHHhcCCCEEEEEeCCHHHHH
Confidence            3344455668999987442 33445556566654323356899998887664

Many non-lantibiotic bacteriocins of lactic acid bacteria are produced as precursors which have N-terminal leader peptides that share similarities in amino acid sequence and contain a conserved processing site of two glycine residues in positions -1 and -2. A dedicated ATP-binding cassette (ABC) transporter is responsible for the proteolytic cleavage of the leader peptides and subsequent translocation of the bacteriocins across the cytoplasmic membrane.

>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=96.21  E-value=0.12  Score=41.53  Aligned_cols=84  Identities=11%  Similarity=0.144  Sum_probs=61.5

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHhhCcHHHHHHHHHHHHHHHHHHHHHHhchhcCChHHHHHHHHHHHhhhcchHHH
Q 036619            2 AHAIVSSLLDQLNSIAQDQVKGKWRLVTGVEQEVGKLTTNLQAIQAVLEDAEQRQMKQDKAVTFWLDQLIDASYDMEDVL   81 (352)
Q Consensus         2 a~~~vs~~~~kl~~~l~~~~~~e~~~~~~v~~~~~~L~~~L~~i~~~l~~ae~~~~~~~~~~~~Wl~~lr~~ayd~eD~l   81 (352)
                      ||.+.+++++...+.|...+.+........+.-+++|...++.|..++++.+.....-+..-+.=++++.+...++++++
T Consensus         3 ~eL~~gaalG~~~~eLlk~v~~~~~k~~~fk~~l~~L~sTl~~i~P~i~eI~~~~~eld~~~~ee~e~L~~~L~~g~~LV   82 (147)
T PF05659_consen    3 AELVGGAALGAVFGELLKAVIDASKKSLSFKSILKRLESTLESIIPIIKEIDKLNVELDRPRQEEIERLKELLEKGKELV   82 (147)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHhhhHHHHHHHHhhhcCCchhHHHHHHHHHHHHHHHHH
Confidence            45555555555555555456666666667788899999999999999999887554323333666888999999999999


Q ss_pred             HHHH
Q 036619           82 EEWI   85 (352)
Q Consensus        82 D~~~   85 (352)
                      +.|.
T Consensus        83 ~k~s   86 (147)
T PF05659_consen   83 EKCS   86 (147)
T ss_pred             HHhc
Confidence            9875

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 [].

>PRK15056 manganese/iron transporter ATP-binding protein; Provisional

Probab=96.20  E-value=0.057  Score=48.37  Aligned_cols=24  Identities=33%  Similarity=0.444  Sum_probs=21.3

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      -.+++|+|+.|.|||||.+.+..-
T Consensus        33 Ge~~~l~G~nGsGKSTLl~~l~Gl   56 (272)
T PRK15056         33 GSIAALVGVNGSGKSTLFKALMGF   56 (272)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            468999999999999999998754

>TIGR03522 GldA_ABC_ATP gliding motility-associated ABC transporter ATP-binding subunit GldA

Probab=96.19  E-value=0.066  Score=48.77  Aligned_cols=24  Identities=21%  Similarity=0.423  Sum_probs=21.5

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      -.+++|+|+.|.|||||.+.+...
T Consensus        28 Gei~~l~G~NGaGKTTLl~~l~Gl   51 (301)
T TIGR03522        28 GRIVGFLGPNGAGKSTTMKIITGY   51 (301)
T ss_pred             CeEEEEECCCCCCHHHHHHHHhCC
Confidence            468999999999999999999864

Members of this protein family are exclusive to the Bacteroidetes phylum (previously Cytophaga-Flavobacteria-Bacteroides). GldA is an ABC transporter ATP-binding protein (pfam00005) linked to a type of rapid surface gliding motility found in certain Bacteroidetes, such as Flavobacterium johnsoniae and Cytophaga hutchinsonii. Knockouts of GldA abolish the gliding phenotype. Gliding motility appears closely linked to chitin utilization in the model species Flavobacterium johnsoniae. Bacteroidetes with members of this protein family appear to have all of the genes associated with gliding motility.

>PRK13531 regulatory ATPase RavA; Provisional

Probab=96.17  E-value=0.0066  Score=58.09  Aligned_cols=43  Identities=19%  Similarity=0.142  Sum_probs=36.6

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..++||++.++.+...++...        -+.|.|++|+|||+||+.+...
T Consensus        20 ~~i~gre~vI~lll~aalag~--------hVLL~GpPGTGKT~LAraLa~~   62 (498)
T PRK13531         20 KGLYERSHAIRLCLLAALSGE--------SVFLLGPPGIAKSLIARRLKFA   62 (498)
T ss_pred             hhccCcHHHHHHHHHHHccCC--------CEEEECCCChhHHHHHHHHHHH
Confidence            458999999999998887543        4679999999999999999874

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

Probab=96.16  E-value=0.021  Score=51.23  Aligned_cols=79  Identities=18%  Similarity=0.282  Sum_probs=48.6

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhhhhhh--ccCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCcccHHHHHHHHHHhcC
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNNDEVK--RNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSASGLNEFQSLMSRIQSSIK  288 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~--~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~  288 (352)
                      -++|.++|++|.|||+|.+.+++.-.++  +.|....-+.++.    ..++..-...      ...-...+.++|.+.++
T Consensus       177 NRliLlhGPPGTGKTSLCKaLaQkLSIR~~~~y~~~~liEins----hsLFSKWFsE------SgKlV~kmF~kI~ELv~  246 (423)
T KOG0744|consen  177 NRLILLHGPPGTGKTSLCKALAQKLSIRTNDRYYKGQLIEINS----HSLFSKWFSE------SGKLVAKMFQKIQELVE  246 (423)
T ss_pred             eeEEEEeCCCCCChhHHHHHHHHhheeeecCccccceEEEEeh----hHHHHHHHhh------hhhHHHHHHHHHHHHHh
Confidence            4889999999999999999999875443  3444444444332    2222222211      11234456677777776


Q ss_pred             Cce--EEEEecCC
Q 036619          289 GKK--NFLVLDDV  299 (352)
Q Consensus       289 ~kr--~LlVlDdv  299 (352)
                      ++.  .++.+|.|
T Consensus       247 d~~~lVfvLIDEV  259 (423)
T KOG0744|consen  247 DRGNLVFVLIDEV  259 (423)
T ss_pred             CCCcEEEEEeHHH
Confidence            654  45677888

>PRK04040 adenylate kinase; Provisional

Probab=96.14  E-value=0.005  Score=51.93  Aligned_cols=24  Identities=33%  Similarity=0.642  Sum_probs=21.5

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..+|.|+|++|+||||+++.+...
T Consensus         2 ~~~i~v~G~pG~GKtt~~~~l~~~   25 (188)
T PRK04040          2 MKVVVVTGVPGVGKTTVLNKALEK   25 (188)
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHHH
Confidence            368999999999999999999874

>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C

Probab=96.13  E-value=0.041  Score=46.37  Aligned_cols=42  Identities=29%  Similarity=0.403  Sum_probs=27.6

Q ss_pred             EEEEEEecCCCcHHHHHHHHHhhhhhhccC--------CeEEEEEeCCCC
Q 036619          212 QVISLVGLGGIGKTTLAQLAYNNDEVKRNF--------EKVIWVCVSDTF  253 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F--------~~~~wv~vs~~~  253 (352)
                      .+..|+|++|+||||++..+.........|        ..++|++...+.
T Consensus        33 ~l~~i~g~~g~GKT~~~~~l~~~~~~g~~~~g~~~~~~~~Vl~i~~E~~~   82 (193)
T PF13481_consen   33 ELTLIAGPPGSGKTTLALQLAAALATGRPFLGELPPRPGRVLYISLEDSE   82 (193)
T ss_dssp             SEEEEEECSTSSHHHHHHHHHHHHHT---TT---------EEEEESSS-H
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHHHHhCCccCCcccccCceEEEEeccCCH
Confidence            477899999999999997777653332222        367788776653

>PRK06002 fliI flagellum-specific ATP synthase; Validated

Probab=96.13  E-value=0.034  Score=52.97  Aligned_cols=86  Identities=20%  Similarity=0.168  Sum_probs=48.5

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCC------CCCccc-----HHHH
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKS------ASGLNE-----FQSL  279 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~------~~~~~~-----~~~~  279 (352)
                      -..++|+|..|+|||||++.+....   .....+++..-...-++..+....+......      ..+...     .-..
T Consensus       165 Gqri~I~G~SGsGKTTLL~~Ia~l~---~pd~gvv~liGergrev~e~~~~~l~~~r~rtI~vV~qsd~~~~~r~~~~~~  241 (450)
T PRK06002        165 GQRIGIFAGSGVGKSTLLAMLARAD---AFDTVVIALVGERGREVREFLEDTLADNLKKAVAVVATSDESPMMRRLAPLT  241 (450)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCCC---CCCeeeeeecccCCccHHHHhHHHHHHhhCCeEEEEEcCCCCHHHHHHHHHH
Confidence            4578999999999999999888632   2233444444334445554444443332110      111111     1112


Q ss_pred             HHHHHHhc--CCceEEEEecCC
Q 036619          280 MSRIQSSI--KGKKNFLVLDDV  299 (352)
Q Consensus       280 ~~~l~~~l--~~kr~LlVlDdv  299 (352)
                      .-.+.+++  +++..||++||+
T Consensus       242 a~~iAEyfrd~G~~Vll~~Dsl  263 (450)
T PRK06002        242 ATAIAEYFRDRGENVLLIVDSV  263 (450)
T ss_pred             HHHHHHHHHHcCCCEEEeccch
Confidence            22234444  589999999998

>TIGR00150 HI0065_YjeE ATPase, YjeE family

Probab=96.13  E-value=0.0076  Score=47.55  Aligned_cols=24  Identities=42%  Similarity=0.326  Sum_probs=21.9

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      -.++.+.|.-|.|||||++.+...
T Consensus        22 ~~~i~l~G~lGaGKTtl~~~l~~~   45 (133)
T TIGR00150        22 GTVVLLKGDLGAGKTTLVQGLLQG   45 (133)
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHH
Confidence            468999999999999999999975

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.

>PRK13543 cytochrome c biogenesis protein CcmA; Provisional

Probab=96.12  E-value=0.07  Score=45.94  Aligned_cols=24  Identities=29%  Similarity=0.308  Sum_probs=21.4

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      -.+++|+|..|.|||||.+.+...
T Consensus        37 Ge~~~i~G~nGsGKSTLl~~i~G~   60 (214)
T PRK13543         37 GEALLVQGDNGAGKTTLLRVLAGL   60 (214)
T ss_pred             CCEEEEEcCCCCCHHHHHHHHhCC
Confidence            468999999999999999999864

>cd03249 ABC_MTABC3_MDL1_MDL2 MTABC3 (also known as ABCB6) is a mitochondrial ATP-binding cassette protein involved in iron homeostasis and one of four ABC transporters expressed in the mitochondrial inner membrane, the other three being MDL1(ABC7), MDL2, and ATM1

Probab=96.11  E-value=0.065  Score=46.88  Aligned_cols=52  Identities=19%  Similarity=0.277  Sum_probs=32.5

Q ss_pred             HHHhcCCceEEEEecCCCCC-CccChhHHHHhhccCCCCcEEEEecCChHHHH
Q 036619          283 IQSSIKGKKNFLVLDDVWDG-DYNKWQPFFRCLKNGLHGSKILVTTRNESVAR  334 (352)
Q Consensus       283 l~~~l~~kr~LlVlDdvw~~-~~~~~~~l~~~l~~~~~gs~IivTTR~~~va~  334 (352)
                      |...|-.+.=+|+||+.-.. |......+...+.....|..||++|.+.+.+.
T Consensus       150 la~al~~~p~llllDEP~~gLD~~~~~~l~~~l~~~~~g~~vi~~sh~~~~~~  202 (238)
T cd03249         150 IARALLRNPKILLLDEATSALDAESEKLVQEALDRAMKGRTTIVIAHRLSTIR  202 (238)
T ss_pred             HHHHHhcCCCEEEEeCccccCCHHHHHHHHHHHHHhcCCCEEEEEeCCHHHHh
Confidence            44445556668899998553 33344555555543335667888888877665

In fact, the yeast MDL1 (multidrug resistance-like protein 1) and MDL2 (multidrug resistance-like protein 2) transporters are also included in this CD. MDL1 is an ATP-dependent permease that acts as a high-copy suppressor of ATM1 and is thought to have a role in resistance to oxidative stress. Interestingly, subfamily B is more closely related to the carboxyl-terminal component of subfamily C than the two halves of ABCC molecules are with one another.

>COG3903 Predicted ATPase [General function prediction only]

Probab=96.10  E-value=0.0023  Score=59.11  Aligned_cols=130  Identities=20%  Similarity=0.237  Sum_probs=77.7

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHH-HHHHHHHHHhCCCCCCcccHHHHHHHHHHhcC
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQI-RIAKAIIEGLGKSASGLNEFQSLMSRIQSSIK  288 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~-~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~  288 (352)
                      ..+.+.++|.|||||||++-.+..   +...|..-.|+.--.+++-. .+.-.....++....+   .+.....+...+.
T Consensus        13 ~~RlvtL~g~ggvgkttl~~~~a~---~~~~~~~~v~~vdl~pitD~~~v~~~~ag~~gl~~~~---g~~~~~~~~~~~~   86 (414)
T COG3903          13 ALRLVTLTGAGGVGKTTLALQAAH---AASEYADGVAFVDLAPITDPALVFPTLAGALGLHVQP---GDSAVDTLVRRIG   86 (414)
T ss_pred             hhheeeeeccCccceehhhhhhHh---HhhhcccceeeeeccccCchhHhHHHHHhhccccccc---chHHHHHHHHHHh
Confidence            468899999999999999988876   56678666655544444433 3333333435443222   1233455667778


Q ss_pred             CceEEEEecCCCCCCccChhHHHHhhccCCCCcEEEEecCChHHHHHhCCCCeeeCCCCCC
Q 036619          289 GKKNFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKILVTTRNESVARMMGSTDIISIEQLAE  349 (352)
Q Consensus       289 ~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTTR~~~va~~~~~~~~~~l~~L~~  349 (352)
                      ++|.++|+||.-+-- ..-..+.-.+-.+.+.-.|+.|+|..-..   .......+.+|+.
T Consensus        87 ~rr~llvldncehl~-~~~a~~i~all~~~~~~~~~atsre~~l~---~ge~~~~~~~L~~  143 (414)
T COG3903          87 DRRALLVLDNCEHLL-DACAALIVALLGACPRLAILATSREAILV---AGEVHRRVPSLSL  143 (414)
T ss_pred             hhhHHHHhcCcHHHH-HHHHHHHHHHHccchhhhhHHHhHhhhcc---cccccccCCcccc
Confidence            899999999983321 11112233344445555688888865322   2244455555554

>PRK13647 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=96.10  E-value=0.063  Score=48.19  Aligned_cols=55  Identities=18%  Similarity=0.225  Sum_probs=33.3

Q ss_pred             HHHHHhcCCceEEEEecCCCCC-CccChhHHHHhhccC-CCCcEEEEecCChHHHHH
Q 036619          281 SRIQSSIKGKKNFLVLDDVWDG-DYNKWQPFFRCLKNG-LHGSKILVTTRNESVARM  335 (352)
Q Consensus       281 ~~l~~~l~~kr~LlVlDdvw~~-~~~~~~~l~~~l~~~-~~gs~IivTTR~~~va~~  335 (352)
                      -.|...|-.+.=+|+||+.-.. |......+...+... ..|..||++|.+.+.+..
T Consensus       147 v~laraL~~~p~llllDEPt~~LD~~~~~~l~~~l~~~~~~g~tili~tH~~~~~~~  203 (274)
T PRK13647        147 VAIAGVLAMDPDVIVLDEPMAYLDPRGQETLMEILDRLHNQGKTVIVATHDVDLAAE  203 (274)
T ss_pred             HHHHHHHHcCCCEEEEECCCcCCCHHHHHHHHHHHHHHHHCCCEEEEEeCCHHHHHH
Confidence            3345556677789999998553 223344455555422 236678888888776543

>cd03280 ABC_MutS2 MutS2 homologs in bacteria and eukaryotes

Probab=96.09  E-value=0.024  Score=48.25  Aligned_cols=21  Identities=24%  Similarity=0.240  Sum_probs=19.8

Q ss_pred             EEEEEEecCCCcHHHHHHHHH
Q 036619          212 QVISLVGLGGIGKTTLAQLAY  232 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~  232 (352)
                      +++.|.|+.|.|||||.+.+.
T Consensus        29 ~~~~ltG~Ng~GKStll~~i~   49 (200)
T cd03280          29 RVLVITGPNAGGKTVTLKTLG   49 (200)
T ss_pred             eEEEEECCCCCChHHHHHHHH
Confidence            689999999999999999987

The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family also possess a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding clamps, a

>cd02023 UMPK Uridine monophosphate kinase (UMPK, EC 2

Probab=96.09  E-value=0.004  Score=52.96  Aligned_cols=22  Identities=36%  Similarity=0.543  Sum_probs=19.7

Q ss_pred             EEEEEecCCCcHHHHHHHHHhh
Q 036619          213 VISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      +|+|.|..|+|||||++.+..-
T Consensus         1 iigi~G~~GsGKSTl~~~l~~~   22 (198)
T cd02023           1 IIGIAGGSGSGKTTVAEEIIEQ   22 (198)
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            5899999999999999998763

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.

>cd03236 ABC_RNaseL_inhibitor_domain1 The ATPase domain 1 of RNase L inhibitor

Probab=96.08  E-value=0.068  Score=47.39  Aligned_cols=25  Identities=40%  Similarity=0.538  Sum_probs=21.8

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .-.+++|+|+.|.|||||.+.++.-
T Consensus        25 ~Ge~~~IvG~nGsGKSTLlk~l~Gl   49 (255)
T cd03236          25 EGQVLGLVGPNGIGKSTALKILAGK   49 (255)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            3468999999999999999988764

The ABC ATPase, RNase L inhibitor (RLI), is a key enzyme in ribosomal biogenesis, formation of translation preinitiation complexes, and assembly of HIV capsids. RLI s are not transport proteins and thus cluster with a group of soluble proteins that lack the transmembrane components commonly found in other members of the family. Structurally, RLIs 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.

>PRK07132 DNA polymerase III subunit delta'; Validated

Probab=96.08  E-value=0.061  Score=48.75  Aligned_cols=120  Identities=9%  Similarity=0.124  Sum_probs=72.3

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhhhhh------h--ccCCeEEEEEe-CCCCCHHHHHHHHHHHhCCCCCCcccHHHHHH
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNNDEV------K--RNFEKVIWVCV-SDTFDQIRIAKAIIEGLGKSASGLNEFQSLMS  281 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~------~--~~F~~~~wv~v-s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~  281 (352)
                      ..+..++|..|.||+++|..+.+.--.      .  .|=+-..++.. .....                     .+++..
T Consensus        18 ~haYLf~G~eg~gk~~~a~~~a~~l~c~~~~~~~~~~~p~n~~~~d~~g~~i~---------------------vd~Ir~   76 (299)
T PRK07132         18 SHSFLLKSNYNEDIDEKILYFLNKFNNLQITNLNEQELPANIILFDIFDKDLS---------------------KSEFLS   76 (299)
T ss_pred             CeEEEEeCCCCCCHHHHHHHHHHHHcCcCCCCCCCCCCCcceEEeccCCCcCC---------------------HHHHHH
Confidence            567779999999999999888764211      1  11111222211 11122                     222222


Q ss_pred             HHHHh---c--CCceEEEEecCCCCCCccChhHHHHhhccCCCCcEEEEecC-ChHHHHHh-CCCCeeeCCCCCCCc
Q 036619          282 RIQSS---I--KGKKNFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKILVTTR-NESVARMM-GSTDIISIEQLAEEE  351 (352)
Q Consensus       282 ~l~~~---l--~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTTR-~~~va~~~-~~~~~~~l~~L~~~e  351 (352)
                      .+...   -  .+.+-++|+|++...+....+.|...+...+.++.+|++|. .+.+-..+ +....+++.++++++
T Consensus        77 l~~~~~~~~~~~~~~KvvII~~~e~m~~~a~NaLLK~LEEPp~~t~~il~~~~~~kll~TI~SRc~~~~f~~l~~~~  153 (299)
T PRK07132         77 AINKLYFSSFVQSQKKILIIKNIEKTSNSLLNALLKTIEEPPKDTYFLLTTKNINKVLPTIVSRCQVFNVKEPDQQK  153 (299)
T ss_pred             HHHHhccCCcccCCceEEEEecccccCHHHHHHHHHHhhCCCCCeEEEEEeCChHhChHHHHhCeEEEECCCCCHHH
Confidence            22221   0  25778899999977766678889999988777887776554 44454443 336788888887654

>TIGR03771 anch_rpt_ABC anchored repeat-type ABC transporter, ATP-binding subunit

Probab=96.08  E-value=0.071  Score=46.22  Aligned_cols=53  Identities=21%  Similarity=0.281  Sum_probs=32.5

Q ss_pred             HHHHhcCCceEEEEecCCCCC-CccChhHHHHhhccC-CCCcEEEEecCChHHHH
Q 036619          282 RIQSSIKGKKNFLVLDDVWDG-DYNKWQPFFRCLKNG-LHGSKILVTTRNESVAR  334 (352)
Q Consensus       282 ~l~~~l~~kr~LlVlDdvw~~-~~~~~~~l~~~l~~~-~~gs~IivTTR~~~va~  334 (352)
                      .|...|-.+.-++++|+--.. |......+...+... ..|..||++|.+.+...
T Consensus       123 ~laral~~~p~llilDEP~~~LD~~~~~~l~~~l~~~~~~~~tvii~sH~~~~~~  177 (223)
T TIGR03771       123 LVARALATRPSVLLLDEPFTGLDMPTQELLTELFIELAGAGTAILMTTHDLAQAM  177 (223)
T ss_pred             HHHHHHhcCCCEEEEeCCcccCCHHHHHHHHHHHHHHHHcCCEEEEEeCCHHHHH
Confidence            445556667788999987442 333444555555432 23667888888876443

This protein family is the ATP-binding cassette subunit of binding protein-dependent ABC transporter complex that strictly co-occurs with TIGR03769. TIGRFAMs model TIGR03769 describes a protein domain that occurs singly or as one of up to three repeats in proteins of a number of Actinobacteria, including Propionibacterium acnes KPA171202. The TIGR03769 domain occurs both in an adjacent gene for the substrate-binding protein and in additional (often nearby) proteins, often with LPXTG-like sortase recognition signals. Homologous ATP-binding subunits outside the scope of this family include manganese transporter MntA in Synechocystis sp. PCC 6803 and chelated iron transporter subunits. The function of this transporter complex is unknown.

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

Probab=96.07  E-value=0.054  Score=51.27  Aligned_cols=50  Identities=28%  Similarity=0.239  Sum_probs=34.2

Q ss_pred             CccccccchHHHHHHHHc-------C--cccc---CCCCeEEEEEEecCCCcHHHHHHHHHh
Q 036619          184 GEVCGRVDEKSELFSKLL-------C--ESSE---QQNGLQVISLVGLGGIGKTTLAQLAYN  233 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~-------~--~~~~---~~~~~~vi~I~G~~GiGKTtLa~~v~~  233 (352)
                      ..++|.++.++.+...+.       .  ....   -.-....+.++|++|+|||+||+.+..
T Consensus        77 ~~ViGQe~A~~~l~~av~~h~~~~~~~~~~~~~~~~~~~~~~iLL~GP~GsGKT~lAraLA~  138 (413)
T TIGR00382        77 EYVIGQEQAKKVLSVAVYNHYKRLNFEKNKKSDNGVELSKSNILLIGPTGSGKTLLAQTLAR  138 (413)
T ss_pred             ceecCHHHHHHHHHHHHHHHHhhhccccccccccccccCCceEEEECCCCcCHHHHHHHHHH
Confidence            568898888887755441       1  0100   001135788999999999999999986

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.

>PRK11823 DNA repair protein RadA; Provisional

Probab=96.07  E-value=0.058  Score=51.92  Aligned_cols=84  Identities=23%  Similarity=0.299  Sum_probs=50.5

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCC-----CcccHHHHHHHHH
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSAS-----GLNEFQSLMSRIQ  284 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~-----~~~~~~~~~~~l~  284 (352)
                      .-.++.|.|.+|+|||||+.++.....  ..-..++|++....  ...+.. -++.++....     ...+.+.+...+.
T Consensus        79 ~Gs~~lI~G~pG~GKTtL~lq~a~~~a--~~g~~vlYvs~Ees--~~qi~~-ra~rlg~~~~~l~~~~e~~l~~i~~~i~  153 (446)
T PRK11823         79 PGSVVLIGGDPGIGKSTLLLQVAARLA--AAGGKVLYVSGEES--ASQIKL-RAERLGLPSDNLYLLAETNLEAILATIE  153 (446)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHH--hcCCeEEEEEcccc--HHHHHH-HHHHcCCChhcEEEeCCCCHHHHHHHHH
Confidence            457899999999999999988876422  22245777776543  333322 2444543211     1234555544443


Q ss_pred             HhcCCceEEEEecCCCC
Q 036619          285 SSIKGKKNFLVLDDVWD  301 (352)
Q Consensus       285 ~~l~~kr~LlVlDdvw~  301 (352)
                      +   .+.-+||+|.+..
T Consensus       154 ~---~~~~lVVIDSIq~  167 (446)
T PRK11823        154 E---EKPDLVVIDSIQT  167 (446)
T ss_pred             h---hCCCEEEEechhh
Confidence            2   3556899999853

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

Probab=96.06  E-value=0.056  Score=50.36  Aligned_cols=59  Identities=27%  Similarity=0.330  Sum_probs=32.0

Q ss_pred             CeEEEEEEecCCCcHHHHH-HHHHhhhhhhccCCeEEEEEeCCC-CCHHHHHHHHHHHhCCC
Q 036619          210 GLQVISLVGLGGIGKTTLA-QLAYNNDEVKRNFEKVIWVCVSDT-FDQIRIAKAIIEGLGKS  269 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa-~~v~~~~~~~~~F~~~~wv~vs~~-~~~~~~~~~i~~~l~~~  269 (352)
                      +.+++++||+.|+||||-. +....- .....=..+..|+...- .....-++.-++-++.+
T Consensus       202 ~~~vi~LVGPTGVGKTTTlAKLAar~-~~~~~~~kVaiITtDtYRIGA~EQLk~Ya~im~vp  262 (407)
T COG1419         202 QKRVIALVGPTGVGKTTTLAKLAARY-VMLKKKKKVAIITTDTYRIGAVEQLKTYADIMGVP  262 (407)
T ss_pred             cCcEEEEECCCCCcHHHHHHHHHHHH-HhhccCcceEEEEeccchhhHHHHHHHHHHHhCCc
Confidence            3799999999999998754 444432 21222234555654432 12333344444444443

>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=96.06  E-value=0.025  Score=48.70  Aligned_cols=82  Identities=21%  Similarity=0.310  Sum_probs=50.2

Q ss_pred             EEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCC-CHHHHHHHHHHHhCCC-------CCCccc--------
Q 036619          212 QVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTF-DQIRIAKAIIEGLGKS-------ASGLNE--------  275 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~-~~~~~~~~i~~~l~~~-------~~~~~~--------  275 (352)
                      .-++|+|.+|+|||+|+..+.++.    .-+..+++.+.+.. .+.++.+++...-...       ..+...        
T Consensus        16 qr~~I~g~~g~GKt~Ll~~i~~~~----~~d~~V~~~iGer~~Ev~~~~~~~~~~~~~~~t~vv~~t~~~~~~~r~~~~~   91 (215)
T PF00006_consen   16 QRIGIFGGAGVGKTVLLQEIANNQ----DADVVVYALIGERGREVTEFIEELKGEGALERTVVVAATSDEPPAARYRAPY   91 (215)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHHC----TTTEEEEEEESECHHHHHHHHHHHHHTTGGGGEEEEEEETTS-HHHHHHHHH
T ss_pred             CEEEEEcCcccccchhhHHHHhcc----cccceeeeeccccchhHHHHHHHHhhcccccccccccccchhhHHHHhhhhc
Confidence            467899999999999999998753    22345777776653 4555555554321111       011110        


Q ss_pred             -HHHHHHHHHHhcCCceEEEEecCC
Q 036619          276 -FQSLMSRIQSSIKGKKNFLVLDDV  299 (352)
Q Consensus       276 -~~~~~~~l~~~l~~kr~LlVlDdv  299 (352)
                       .-...+.+++  +++..|+++||+
T Consensus        92 ~a~t~AEyfrd--~G~dVlli~Dsl  114 (215)
T PF00006_consen   92 TALTIAEYFRD--QGKDVLLIIDSL  114 (215)
T ss_dssp             HHHHHHHHHHH--TTSEEEEEEETH
T ss_pred             cchhhhHHHhh--cCCceeehhhhh
Confidence             1122333444  799999999998

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 ....

>PRK09580 sufC cysteine desulfurase ATPase component; Reviewed

Probab=96.05  E-value=0.061  Score=47.38  Aligned_cols=24  Identities=29%  Similarity=0.393  Sum_probs=21.6

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      -.+++|+|..|.|||||.+.+..-
T Consensus        27 Ge~~~i~G~nGsGKSTLl~~l~Gl   50 (248)
T PRK09580         27 GEVHAIMGPNGSGKSTLSATLAGR   50 (248)
T ss_pred             CCEEEEECCCCCCHHHHHHHHcCC
Confidence            468999999999999999999875

>COG1703 ArgK Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]

Probab=96.03  E-value=0.01  Score=52.71  Aligned_cols=65  Identities=25%  Similarity=0.243  Sum_probs=44.1

Q ss_pred             HHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHH
Q 036619          193 KSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKA  261 (352)
Q Consensus       193 ~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~  261 (352)
                      -.+|+..|....    .+..+|+|.|.||+|||||...+-....-+.|=-.++=|.-|.+++--.++-+
T Consensus        37 a~~ll~~l~p~t----G~a~viGITG~PGaGKSTli~~L~~~l~~~G~rVaVlAVDPSSp~TGGsiLGD  101 (323)
T COG1703          37 ARELLRALYPRT----GNAHVIGITGVPGAGKSTLIEALGRELRERGHRVAVLAVDPSSPFTGGSILGD  101 (323)
T ss_pred             HHHHHHHHhhcC----CCCcEEEecCCCCCchHHHHHHHHHHHHHCCcEEEEEEECCCCCCCCcccccc
Confidence            345666666544    56789999999999999999887765433444334455556667765555544

>PF13479 AAA_24: AAA domain

Probab=96.03  E-value=0.025  Score=48.73  Aligned_cols=20  Identities=45%  Similarity=0.421  Sum_probs=17.7

Q ss_pred             EEEEEEecCCCcHHHHHHHH
Q 036619          212 QVISLVGLGGIGKTTLAQLA  231 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v  231 (352)
                      -.+.|+|.+|+||||+|..+
T Consensus         4 ~~~lIyG~~G~GKTt~a~~~   23 (213)
T PF13479_consen    4 IKILIYGPPGSGKTTLAASL   23 (213)
T ss_pred             eEEEEECCCCCCHHHHHHhC
Confidence            45779999999999999877

>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=96.02  E-value=0.03  Score=50.04  Aligned_cols=23  Identities=39%  Similarity=0.332  Sum_probs=18.1

Q ss_pred             EEEEEEecCCCcHHHHHHHHHhh
Q 036619          212 QVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..|.|.|.+|+||||+|+.+...
T Consensus         2 pLiil~G~P~SGKTt~a~~L~~~   24 (270)
T PF08433_consen    2 PLIILCGLPCSGKTTRAKELKKY   24 (270)
T ss_dssp             -EEEEE--TTSSHHHHHHHHHHH
T ss_pred             EEEEEEcCCCCcHHHHHHHHHHH
Confidence            46889999999999999999875

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

>PRK00625 shikimate kinase; Provisional

Probab=96.01  E-value=0.0053  Score=50.99  Aligned_cols=22  Identities=32%  Similarity=0.389  Sum_probs=19.6

Q ss_pred             EEEEEecCCCcHHHHHHHHHhh
Q 036619          213 VISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .|.|+||+|+||||+++.+.+.
T Consensus         2 ~I~LiG~pGsGKTT~~k~La~~   23 (173)
T PRK00625          2 QIFLCGLPTVGKTSFGKALAKF   23 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            3789999999999999999874

>PRK12597 F0F1 ATP synthase subunit beta; Provisional

Probab=96.01  E-value=0.039  Score=52.85  Aligned_cols=88  Identities=16%  Similarity=0.114  Sum_probs=55.2

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCC-CHHHHHHHHHHHhCCC-------CCCccc-----HH
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTF-DQIRIAKAIIEGLGKS-------ASGLNE-----FQ  277 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~-~~~~~~~~i~~~l~~~-------~~~~~~-----~~  277 (352)
                      -..++|+|.+|+|||||+..+.++.. +++-+.++++-+.... .+..++..+...-...       ..+...     .-
T Consensus       143 GQR~gIfa~~G~GKt~Ll~~~~~~~~-~~~~dv~V~~liGER~rEv~ef~~~~~~~~~l~rsvvv~atsd~~~~~R~~a~  221 (461)
T PRK12597        143 GGKTGLFGGAGVGKTVLMMELIFNIS-KQHSGSSVFAGVGERSREGHELYHEMKESGVLDKTVMVYGQMNEPPGARMRVV  221 (461)
T ss_pred             CCEEEeecCCCCChhHHHHHHHHHHH-hhCCCEEEEEcCCcchHHHHHHHHHHHhcCCcceeEEEecCCCCCHHHHHHHH
Confidence            35688999999999999988887533 2356777777776544 3455555555432111       001111     11


Q ss_pred             HHHHHHHHhc---CCceEEEEecCC
Q 036619          278 SLMSRIQSSI---KGKKNFLVLDDV  299 (352)
Q Consensus       278 ~~~~~l~~~l---~~kr~LlVlDdv  299 (352)
                      ...-.+.+++   +++..||++||+
T Consensus       222 ~~a~tiAEyfrd~~G~~VLl~~Dsl  246 (461)
T PRK12597        222 LTGLTIAEYLRDEEKEDVLLFIDNI  246 (461)
T ss_pred             HHHHHHHHHHHHhcCCceEEEeccc
Confidence            2233455555   389999999999

>COG3267 ExeA Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]

Probab=96.00  E-value=0.15  Score=44.39  Aligned_cols=103  Identities=18%  Similarity=0.297  Sum_probs=65.1

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCC-CCCHHHHHHHHHHHhCCCCCCc--ccHHHHHHHHHH
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSD-TFDQIRIAKAIIEGLGKSASGL--NEFQSLMSRIQS  285 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~-~~~~~~~~~~i~~~l~~~~~~~--~~~~~~~~~l~~  285 (352)
                      .+-+++.++|.-|.|||.+.+.....  ..  =+.++=|.+.. ..+...+...|+..+...+...  .-.++....|..
T Consensus        49 d~qg~~~vtGevGsGKTv~~Ral~~s--~~--~d~~~~v~i~~~~~s~~~~~~ai~~~l~~~p~~~~~~~~e~~~~~L~a  124 (269)
T COG3267          49 DGQGILAVTGEVGSGKTVLRRALLAS--LN--EDQVAVVVIDKPTLSDATLLEAIVADLESQPKVNVNAVLEQIDRELAA  124 (269)
T ss_pred             cCCceEEEEecCCCchhHHHHHHHHh--cC--CCceEEEEecCcchhHHHHHHHHHHHhccCccchhHHHHHHHHHHHHH
Confidence            34579999999999999999944432  11  12222244444 4567788888888887732211  123444555555


Q ss_pred             hc-CCce-EEEEecCCCCCCccChhHHHHhhc
Q 036619          286 SI-KGKK-NFLVLDDVWDGDYNKWQPFFRCLK  315 (352)
Q Consensus       286 ~l-~~kr-~LlVlDdvw~~~~~~~~~l~~~l~  315 (352)
                      .. +++| ..+++|+......+..+.++-...
T Consensus       125 l~~~g~r~v~l~vdEah~L~~~~le~Lrll~n  156 (269)
T COG3267         125 LVKKGKRPVVLMVDEAHDLNDSALEALRLLTN  156 (269)
T ss_pred             HHHhCCCCeEEeehhHhhhChhHHHHHHHHHh
Confidence            54 5777 899999998766566666554443

>PRK00131 aroK shikimate kinase; Reviewed

Probab=95.98  E-value=0.006  Score=50.44  Aligned_cols=24  Identities=33%  Similarity=0.480  Sum_probs=21.5

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ...|.|+|++|+||||+|+.+...
T Consensus         4 ~~~i~l~G~~GsGKstla~~La~~   27 (175)
T PRK00131          4 GPNIVLIGFMGAGKSTIGRLLAKR   27 (175)
T ss_pred             CCeEEEEcCCCCCHHHHHHHHHHH
Confidence            458889999999999999999874

>PRK10820 DNA-binding transcriptional regulator TyrR; Provisional

Probab=95.97  E-value=0.019  Score=56.51  Aligned_cols=152  Identities=11%  Similarity=0.102  Sum_probs=79.6

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHH
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAII  263 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~  263 (352)
                      ..++|....+.++++.+..-..    .-.-|.|+|..|+||++||+.++... .+ .-..-+.++++.-.  ...+..  
T Consensus       204 ~~~ig~s~~~~~~~~~~~~~A~----~~~pvlI~GE~GtGK~~lA~aiH~~s-~r-~~~pfv~inca~~~--~~~~e~--  273 (520)
T PRK10820        204 SQIVAVSPKMRQVVEQARKLAM----LDAPLLITGDTGTGKDLLAYACHLRS-PR-GKKPFLALNCASIP--DDVVES--  273 (520)
T ss_pred             cceeECCHHHHHHHHHHHHHhC----CCCCEEEECCCCccHHHHHHHHHHhC-CC-CCCCeEEeccccCC--HHHHHH--
Confidence            4588988888888777643321    12236699999999999999987531 11 11223445554432  122221  


Q ss_pred             HHhCCCCCCc-ccHHHHHHHHHHhc-CCceEEEEecCCCCCCccChhHHHHhhccCC-----------CCcEEEEecCCh
Q 036619          264 EGLGKSASGL-NEFQSLMSRIQSSI-KGKKNFLVLDDVWDGDYNKWQPFFRCLKNGL-----------HGSKILVTTRNE  330 (352)
Q Consensus       264 ~~l~~~~~~~-~~~~~~~~~l~~~l-~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~-----------~gs~IivTTR~~  330 (352)
                       .+.+...+. .......   ..++ ....=.|+||++..........|...+..+.           ...|||.||...
T Consensus       274 -elFG~~~~~~~~~~~~~---~g~~e~a~~GtL~LdeI~~L~~~~Q~~Ll~~l~~~~~~~~g~~~~~~~~vRiI~st~~~  349 (520)
T PRK10820        274 -ELFGHAPGAYPNALEGK---KGFFEQANGGSVLLDEIGEMSPRMQAKLLRFLNDGTFRRVGEDHEVHVDVRVICATQKN  349 (520)
T ss_pred             -HhcCCCCCCcCCcccCC---CChhhhcCCCEEEEeChhhCCHHHHHHHHHHHhcCCcccCCCCcceeeeeEEEEecCCC
Confidence             122211100 0000000   0011 1223457899998876556667777776531           123788877654


Q ss_pred             HH--HH-------HhC--CCCeeeCCCCCC
Q 036619          331 SV--AR-------MMG--STDIISIEQLAE  349 (352)
Q Consensus       331 ~v--a~-------~~~--~~~~~~l~~L~~  349 (352)
                      -.  ..       ...  ....++|.||.+
T Consensus       350 l~~l~~~g~f~~dL~~rL~~~~i~lPpLre  379 (520)
T PRK10820        350 LVELVQKGEFREDLYYRLNVLTLNLPPLRD  379 (520)
T ss_pred             HHHHHHcCCccHHHHhhcCeeEEeCCCccc
Confidence            21  11       111  135677888865

>cd03285 ABC_MSH2_euk MutS2 homolog in eukaryotes

Probab=95.95  E-value=0.015  Score=50.35  Aligned_cols=121  Identities=15%  Similarity=0.175  Sum_probs=60.5

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCC---CcccHHHHHHHHHHh
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSAS---GLNEFQSLMSRIQSS  286 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~---~~~~~~~~~~~l~~~  286 (352)
                      ...++.|.|+.|.|||||.+.+..-. +-.+-  -++|.+..  ....+...|+..++....   +.+....-...+...
T Consensus        29 ~~~~~~l~G~n~~GKstll~~i~~~~-~la~~--g~~vpa~~--~~~~~~~~il~~~~l~d~~~~~lS~~~~e~~~~a~i  103 (222)
T cd03285          29 KSRFLIITGPNMGGKSTYIRQIGVIV-LMAQI--GCFVPCDS--ADIPIVDCILARVGASDSQLKGVSTFMAEMLETAAI  103 (222)
T ss_pred             CCeEEEEECCCCCChHHHHHHHHHHH-HHHHh--CCCcCccc--EEEeccceeEeeeccccchhcCcChHHHHHHHHHHH
Confidence            35789999999999999998876431 11111  11222221  011122333333332211   111111111222222


Q ss_pred             c--CCceEEEEecCCCC---CC-cc--ChhHHHHhhccCCCCcEEEEecCChHHHHHhC
Q 036619          287 I--KGKKNFLVLDDVWD---GD-YN--KWQPFFRCLKNGLHGSKILVTTRNESVARMMG  337 (352)
Q Consensus       287 l--~~kr~LlVlDdvw~---~~-~~--~~~~l~~~l~~~~~gs~IivTTR~~~va~~~~  337 (352)
                      +  -..+-|++||..-.   .. ..  .|..+ ..+.. ..|+.+|+||...++...+.
T Consensus       104 l~~~~~~sLvLLDEp~~gT~~lD~~~~~~~il-~~l~~-~~~~~vlisTH~~el~~~~~  160 (222)
T cd03285         104 LKSATENSLIIIDELGRGTSTYDGFGLAWAIA-EYIAT-QIKCFCLFATHFHELTALAD  160 (222)
T ss_pred             HHhCCCCeEEEEecCcCCCChHHHHHHHHHHH-HHHHh-cCCCeEEEEechHHHHHHhh
Confidence            3  35678999999832   21 00  12222 33332 24788999999888776543

The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal domain with a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding c

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

Probab=95.94  E-value=0.0063  Score=50.76  Aligned_cols=23  Identities=39%  Similarity=0.547  Sum_probs=20.3

Q ss_pred             EEEEEEecCCCcHHHHHHHHHhh
Q 036619          212 QVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .++.|+|+.|+|||||++.+...
T Consensus         2 ~~~~i~G~sGsGKttl~~~l~~~   24 (179)
T TIGR02322         2 RLIYVVGPSGAGKDTLLDYARAR   24 (179)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHH
Confidence            37889999999999999998764

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.

>cd03250 ABCC_MRP_domain1 Domain 1 of the ABC subfamily C

Probab=95.93  E-value=0.12  Score=43.96  Aligned_cols=63  Identities=14%  Similarity=0.275  Sum_probs=37.1

Q ss_pred             HHHHHHhcCCceEEEEecCCCCC-CccChhHHHH-hhcc-CCCCcEEEEecCChHHHHHhCCCCeeeC
Q 036619          280 MSRIQSSIKGKKNFLVLDDVWDG-DYNKWQPFFR-CLKN-GLHGSKILVTTRNESVARMMGSTDIISI  344 (352)
Q Consensus       280 ~~~l~~~l~~kr~LlVlDdvw~~-~~~~~~~l~~-~l~~-~~~gs~IivTTR~~~va~~~~~~~~~~l  344 (352)
                      .-.|...+..+.-++++|+--.. |....+.+.. .+.. ...|..||++|.+......  +.+++.|
T Consensus       135 rv~laral~~~p~llllDEP~~~LD~~~~~~l~~~ll~~~~~~~~tvi~~sh~~~~~~~--~d~i~~l  200 (204)
T cd03250         135 RISLARAVYSDADIYLLDDPLSAVDAHVGRHIFENCILGLLLNNKTRILVTHQLQLLPH--ADQIVVL  200 (204)
T ss_pred             HHHHHHHHhcCCCEEEEeCccccCCHHHHHHHHHHHHHHhccCCCEEEEEeCCHHHHhh--CCEEEEE
Confidence            34455666778889999986443 2233344544 3332 2346778888888776654  3444443

This family is also known as MRP (mulrtidrug resisitance-associated protein). Some of the MRP members have five additional transmembrane segments in their N-terminas, but the function of these additional membrane-spanning domains is not clear. The MRP was found in the multidrug-resisting lung cancer cell in which p-glycoprotein was not overexpressed. MRP exports glutathione by drug stimulation, as well as, certain substrates in conjugated forms with anions, such as glutathione, glucuronate, and sulfate.

>PRK10875 recD exonuclease V subunit alpha; Provisional

Probab=95.92  E-value=0.032  Score=55.65  Aligned_cols=53  Identities=15%  Similarity=0.080  Sum_probs=32.5

Q ss_pred             EEEEEEecCCCcHHHHHHHHHhhhhh-hccCCeEEEEEeCCCCCHHHHHHHHHH
Q 036619          212 QVISLVGLGGIGKTTLAQLAYNNDEV-KRNFEKVIWVCVSDTFDQIRIAKAIIE  264 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~-~~~F~~~~wv~vs~~~~~~~~~~~i~~  264 (352)
                      ++..|.|.+|.||||++..+...-.- ...=...+.+.....--..++.+.+..
T Consensus       168 ~~~vItGgpGTGKTt~v~~ll~~l~~~~~~~~~~i~l~APTgkAA~rL~e~~~~  221 (615)
T PRK10875        168 RISVISGGPGTGKTTTVAKLLAALIQLADGERCRIRLAAPTGKAAARLTESLGK  221 (615)
T ss_pred             CeEEEEeCCCCCHHHHHHHHHHHHHHhcCCCCcEEEEECCcHHHHHHHHHHHHh
Confidence            57789999999999999888764211 111124555555554444555544443

>PRK10751 molybdopterin-guanine dinucleotide biosynthesis protein B; Provisional

Probab=95.92  E-value=0.0081  Score=49.70  Aligned_cols=25  Identities=24%  Similarity=0.372  Sum_probs=22.4

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ...+++|+|..|+|||||++.+...
T Consensus         5 ~~~ii~ivG~sgsGKTTLi~~li~~   29 (173)
T PRK10751          5 MIPLLAIAAWSGTGKTTLLKKLIPA   29 (173)
T ss_pred             CceEEEEECCCCChHHHHHHHHHHH
Confidence            4679999999999999999999864

>TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family

Probab=95.92  E-value=0.0053  Score=51.40  Aligned_cols=22  Identities=32%  Similarity=0.354  Sum_probs=19.8

Q ss_pred             EEEEEecCCCcHHHHHHHHHhh
Q 036619          213 VISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      +|.|+|++|+||||+|+.+...
T Consensus         1 ~i~i~G~pGsGKst~a~~la~~   22 (183)
T TIGR01359         1 VVFVLGGPGSGKGTQCAKIVEN   22 (183)
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            5789999999999999999874

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.

>COG1066 Sms Predicted ATP-dependent serine protease [Posttranslational modification, protein turnover, chaperones]

Probab=95.92  E-value=0.031  Score=51.92  Aligned_cols=82  Identities=23%  Similarity=0.359  Sum_probs=52.3

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCC-----CcccHHHHHHHHHH
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSAS-----GLNEFQSLMSRIQS  285 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~-----~~~~~~~~~~~l~~  285 (352)
                      -.++.|-|.+|||||||.-++..+  ....- .+++|+--..  ..++ +--++.++....     ...+++.+...+.+
T Consensus        93 Gs~iLIgGdPGIGKSTLLLQva~~--lA~~~-~vLYVsGEES--~~Qi-klRA~RL~~~~~~l~l~aEt~~e~I~~~l~~  166 (456)
T COG1066          93 GSVILIGGDPGIGKSTLLLQVAAR--LAKRG-KVLYVSGEES--LQQI-KLRADRLGLPTNNLYLLAETNLEDIIAELEQ  166 (456)
T ss_pred             ccEEEEccCCCCCHHHHHHHHHHH--HHhcC-cEEEEeCCcC--HHHH-HHHHHHhCCCccceEEehhcCHHHHHHHHHh
Confidence            478999999999999999888875  33222 6776665543  3222 233455554332     23445555444444


Q ss_pred             hcCCceEEEEecCCCC
Q 036619          286 SIKGKKNFLVLDDVWD  301 (352)
Q Consensus       286 ~l~~kr~LlVlDdvw~  301 (352)
                         .+.-|+|+|-+..
T Consensus       167 ---~~p~lvVIDSIQT  179 (456)
T COG1066         167 ---EKPDLVVIDSIQT  179 (456)
T ss_pred             ---cCCCEEEEeccce
Confidence               6788999999855

>TIGR03574 selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal

Probab=95.91  E-value=0.052  Score=47.95  Aligned_cols=21  Identities=38%  Similarity=0.615  Sum_probs=19.1

Q ss_pred             EEEEecCCCcHHHHHHHHHhh
Q 036619          214 ISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       214 i~I~G~~GiGKTtLa~~v~~~  234 (352)
                      |.++|++|+||||+|+.+...
T Consensus         2 Ivl~G~pGSGKST~a~~La~~   22 (249)
T TIGR03574         2 IILTGLPGVGKSTFSKELAKK   22 (249)
T ss_pred             EEEEcCCCCCHHHHHHHHHHH
Confidence            679999999999999999874

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.

>PHA02774 E1; Provisional

Probab=95.90  E-value=0.041  Score=53.68  Aligned_cols=40  Identities=13%  Similarity=0.113  Sum_probs=29.0

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCC
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDT  252 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~  252 (352)
                      ++..-+.|+|++|.|||.+|-.+.+-  ..  -..+.||+....
T Consensus       432 PKknciv~~GPP~TGKS~fa~sL~~~--L~--G~vi~fvN~~s~  471 (613)
T PHA02774        432 PKKNCLVIYGPPDTGKSMFCMSLIKF--LK--GKVISFVNSKSH  471 (613)
T ss_pred             CcccEEEEECCCCCCHHHHHHHHHHH--hC--CCEEEEEECccc
Confidence            44568889999999999999888873  21  235677775433

>cd03287 ABC_MSH3_euk MutS3 homolog in eukaryotes

Probab=95.90  E-value=0.024  Score=49.10  Aligned_cols=118  Identities=14%  Similarity=0.197  Sum_probs=61.4

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCC---Ccc----cHHHHHHHH
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSAS---GLN----EFQSLMSRI  283 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~---~~~----~~~~~~~~l  283 (352)
                      ..++.|.|+.|.||||+.+.+.-.. +..+-.+..|..-..    ...+.+|.-.++....   +.+    ++.++...+
T Consensus        31 g~~~~itG~N~~GKStll~~i~~~~-~la~~G~~v~a~~~~----~~~~~~i~~~~~~~d~~~~~~StF~~e~~~~~~il  105 (222)
T cd03287          31 GYCQIITGPNMGGKSSYIRQVALIT-IMAQIGSFVPASSAT----LSIFDSVLTRMGASDSIQHGMSTFMVELSETSHIL  105 (222)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHH-HHHhCCCEEEcCceE----EeccceEEEEecCccccccccchHHHHHHHHHHHH
Confidence            4678899999999999999888642 222222333321110    0111122222221111   111    122333333


Q ss_pred             HHhcCCceEEEEecCCCCCCc--cCh---hHHHHhhccCCCCcEEEEecCChHHHHHh
Q 036619          284 QSSIKGKKNFLVLDDVWDGDY--NKW---QPFFRCLKNGLHGSKILVTTRNESVARMM  336 (352)
Q Consensus       284 ~~~l~~kr~LlVlDdvw~~~~--~~~---~~l~~~l~~~~~gs~IivTTR~~~va~~~  336 (352)
                      +.  .+++-|++||.......  +.-   ..+...+... .++.+|++|.+.+++...
T Consensus       106 ~~--~~~~sLvllDE~~~gT~~~d~~~i~~~il~~l~~~-~~~~~i~~TH~~~l~~~~  160 (222)
T cd03287         106 SN--CTSRSLVILDELGRGTSTHDGIAIAYATLHYLLEE-KKCLVLFVTHYPSLGEIL  160 (222)
T ss_pred             Hh--CCCCeEEEEccCCCCCChhhHHHHHHHHHHHHHhc-cCCeEEEEcccHHHHHHH
Confidence            22  35789999999744211  111   1223333332 478899999999988765

The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal domain with a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding c

>PRK09280 F0F1 ATP synthase subunit beta; Validated

Probab=95.90  E-value=0.063  Score=51.36  Aligned_cols=88  Identities=18%  Similarity=0.130  Sum_probs=52.9

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCC-CHHHHHHHHHHHhCCC-------CCCcccH-----H
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTF-DQIRIAKAIIEGLGKS-------ASGLNEF-----Q  277 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~-~~~~~~~~i~~~l~~~-------~~~~~~~-----~  277 (352)
                      -..++|+|.+|+|||||+..+..+... ++=+.++++-+.... .+..++.++...-...       ..+..-.     -
T Consensus       144 GQR~gIfa~~GvGKt~Ll~~i~~~~~~-~~~~v~V~~liGER~rEv~efi~~~~~~~~l~rsvvV~atsd~p~~~r~~a~  222 (463)
T PRK09280        144 GGKIGLFGGAGVGKTVLIQELINNIAK-EHGGYSVFAGVGERTREGNDLYHEMKESGVLDKTALVFGQMNEPPGARLRVA  222 (463)
T ss_pred             CCEEEeecCCCCChhHHHHHHHHHHHh-cCCCEEEEEEeccCcHHHHHHHHHHHhcCCcceeEEEEECCCCCHHHHHHHH
Confidence            356889999999999999888765322 222456677665544 3455666655432111       0011111     1


Q ss_pred             HHHHHHHHhc---CCceEEEEecCC
Q 036619          278 SLMSRIQSSI---KGKKNFLVLDDV  299 (352)
Q Consensus       278 ~~~~~l~~~l---~~kr~LlVlDdv  299 (352)
                      ...-.+.+++   +++..||++||+
T Consensus       223 ~~a~tiAEyfrd~~G~~VLll~Dsl  247 (463)
T PRK09280        223 LTGLTMAEYFRDVEGQDVLLFIDNI  247 (463)
T ss_pred             HHHHHHHHHHHHhcCCceEEEecch
Confidence            2223355555   789999999999

>TIGR03263 guanyl_kin guanylate kinase

Probab=95.89  E-value=0.0065  Score=50.72  Aligned_cols=23  Identities=30%  Similarity=0.554  Sum_probs=20.9

Q ss_pred             EEEEEEecCCCcHHHHHHHHHhh
Q 036619          212 QVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      +++.|+|+.|+|||||++.+...
T Consensus         2 ~ii~l~G~~GsGKsTl~~~L~~~   24 (180)
T TIGR03263         2 LLIVISGPSGVGKSTLVKALLEE   24 (180)
T ss_pred             cEEEEECCCCCCHHHHHHHHHcc
Confidence            47899999999999999999973

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.

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

Probab=95.88  E-value=0.017  Score=46.83  Aligned_cols=36  Identities=39%  Similarity=0.272  Sum_probs=26.4

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEE
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVC  248 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~  248 (352)
                      ..+|-|.|.+|+||||||+.+...  ....-..+.++.
T Consensus         2 g~vIwltGlsGsGKtTlA~~L~~~--L~~~g~~~~~LD   37 (156)
T PF01583_consen    2 GFVIWLTGLSGSGKTTLARALERR--LFARGIKVYLLD   37 (156)
T ss_dssp             -EEEEEESSTTSSHHHHHHHHHHH--HHHTTS-EEEEE
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHH--HHHcCCcEEEec
Confidence            468889999999999999999984  444434455553

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 ....

>COG0488 Uup ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]

Probab=95.87  E-value=0.032  Score=54.60  Aligned_cols=132  Identities=18%  Similarity=0.178  Sum_probs=72.5

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhhhhh-hc-----cCCeEEEEEeCC-C-C---CH------------HHHHHHHHHHhC
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNNDEV-KR-----NFEKVIWVCVSD-T-F---DQ------------IRIAKAIIEGLG  267 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~-~~-----~F~~~~wv~vs~-~-~---~~------------~~~~~~i~~~l~  267 (352)
                      -..|+|+|+.|+|||||.+.+.....- ..     .--.+.|+.-.. . .   ++            ..-.+..+..++
T Consensus       348 g~riaiiG~NG~GKSTLlk~l~g~~~~~~G~v~~g~~v~igyf~Q~~~~l~~~~t~~d~l~~~~~~~~e~~~r~~L~~f~  427 (530)
T COG0488         348 GDRIAIVGPNGAGKSTLLKLLAGELGPLSGTVKVGETVKIGYFDQHRDELDPDKTVLEELSEGFPDGDEQEVRAYLGRFG  427 (530)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhhhcccCCceEEeCCceEEEEEEehhhhcCccCcHHHHHHhhCccccHHHHHHHHHHcC
Confidence            457899999999999999999653111 11     111122222111 0 0   01            222233333332


Q ss_pred             CCCC-------CcccHHHHHHHHHHhcCCceEEEEecCCCCC-CccChhHHHHhhccCCCCcEEEEecCChHHHHHhCCC
Q 036619          268 KSAS-------GLNEFQSLMSRIQSSIKGKKNFLVLDDVWDG-DYNKWQPFFRCLKNGLHGSKILVTTRNESVARMMGST  339 (352)
Q Consensus       268 ~~~~-------~~~~~~~~~~~l~~~l~~kr~LlVlDdvw~~-~~~~~~~l~~~l~~~~~gs~IivTTR~~~va~~~~~~  339 (352)
                      -...       ..+.-+...-.|...+-...=+||||.--+. |.+..+.|..+|..- +|+ ||+.|.+........ .
T Consensus       428 F~~~~~~~~v~~LSGGEk~Rl~La~ll~~~pNvLiLDEPTNhLDi~s~~aLe~aL~~f-~Gt-vl~VSHDr~Fl~~va-~  504 (530)
T COG0488         428 FTGEDQEKPVGVLSGGEKARLLLAKLLLQPPNLLLLDEPTNHLDIESLEALEEALLDF-EGT-VLLVSHDRYFLDRVA-T  504 (530)
T ss_pred             CChHHHhCchhhcCHhHHHHHHHHHHhccCCCEEEEcCCCccCCHHHHHHHHHHHHhC-CCe-EEEEeCCHHHHHhhc-c
Confidence            2211       1122344444566667788889999987443 334556666666543 476 899999988776544 3


Q ss_pred             CeeeCC
Q 036619          340 DIISIE  345 (352)
Q Consensus       340 ~~~~l~  345 (352)
                      +++.+.
T Consensus       505 ~i~~~~  510 (530)
T COG0488         505 RIWLVE  510 (530)
T ss_pred             eEEEEc
Confidence            344433

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

Probab=95.87  E-value=0.039  Score=50.29  Aligned_cols=97  Identities=16%  Similarity=0.191  Sum_probs=57.4

Q ss_pred             CccccccchHHHHHHHHcCccc-------cCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHH
Q 036619          184 GEVCGRVDEKSELFSKLLCESS-------EQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQI  256 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~-------~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~  256 (352)
                      ..+=|-++.+++|.+...-+--       -+-+.++=|.++|++|.|||-||+.|.++  ....|     +.|..+    
T Consensus       151 ~dIGGL~~Qi~EirE~VELPL~~PElF~~~GI~PPKGVLLYGPPGTGKTLLAkAVA~~--T~AtF-----IrvvgS----  219 (406)
T COG1222         151 EDIGGLDEQIQEIREVVELPLKNPELFEELGIDPPKGVLLYGPPGTGKTLLAKAVANQ--TDATF-----IRVVGS----  219 (406)
T ss_pred             hhccCHHHHHHHHHHHhcccccCHHHHHHcCCCCCCceEeeCCCCCcHHHHHHHHHhc--cCceE-----EEeccH----
Confidence            3456777777777665422110       02234566779999999999999999995  33333     333321    


Q ss_pred             HHHHHHHHHhCCCCCCcccHHHHHHHHHHhcC-CceEEEEecCCCC
Q 036619          257 RIAKAIIEGLGKSASGLNEFQSLMSRIQSSIK-GKKNFLVLDDVWD  301 (352)
Q Consensus       257 ~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~-~kr~LlVlDdvw~  301 (352)
                          ++.+..-+      +...++..+.+.-+ .....|++|.+..
T Consensus       220 ----ElVqKYiG------EGaRlVRelF~lArekaPsIIFiDEIDA  255 (406)
T COG1222         220 ----ELVQKYIG------EGARLVRELFELAREKAPSIIFIDEIDA  255 (406)
T ss_pred             ----HHHHHHhc------cchHHHHHHHHHHhhcCCeEEEEechhh
Confidence                22222221      12344555555543 5688999998843

>PRK13537 nodulation ABC transporter NodI; Provisional

Probab=95.87  E-value=0.09  Score=48.00  Aligned_cols=24  Identities=29%  Similarity=0.387  Sum_probs=21.4

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      -.+++|+|+.|.|||||.+.+..-
T Consensus        33 Gei~gllGpNGaGKSTLl~~l~Gl   56 (306)
T PRK13537         33 GECFGLLGPNGAGKTTTLRMLLGL   56 (306)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhcC
Confidence            368999999999999999999864

>PRK07594 type III secretion system ATPase SsaN; Validated

Probab=95.87  E-value=0.05  Score=51.71  Aligned_cols=85  Identities=16%  Similarity=0.263  Sum_probs=49.5

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCC-CCHHHHHHHHHHHhCCC-------CCCcccHHH----
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDT-FDQIRIAKAIIEGLGKS-------ASGLNEFQS----  278 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~-~~~~~~~~~i~~~l~~~-------~~~~~~~~~----  278 (352)
                      -..++|+|..|+|||||.+.+.+..    +.+...+..+... ..+..++.+....-...       ..+..-...    
T Consensus       155 GqrigI~G~sG~GKSTLL~~I~~~~----~~d~~vi~~iGeRgrEv~efl~~~~~~~~~~rtv~vv~tsd~p~~~r~~a~  230 (433)
T PRK07594        155 GQRVGIFSAPGVGKSTLLAMLCNAP----DADSNVLVLIGERGREVREFIDFTLSEETRKRCVIVVATSDRPALERVRAL  230 (433)
T ss_pred             CCEEEEECCCCCCccHHHHHhcCCC----CCCEEEEEEECCCchHHHHHHHHhhccCCcceEEEEEECCCCCHHHHHHHH
Confidence            4678999999999999999998742    3444555555543 34445555543211000       001111111    


Q ss_pred             -HHHHHHHhc--CCceEEEEecCC
Q 036619          279 -LMSRIQSSI--KGKKNFLVLDDV  299 (352)
Q Consensus       279 -~~~~l~~~l--~~kr~LlVlDdv  299 (352)
                       ..-.+.+++  ++++.||++||+
T Consensus       231 ~~a~tiAEyfrd~G~~VLl~~Dsl  254 (433)
T PRK07594        231 FVATTIAEFFRDNGKRVVLLADSL  254 (433)
T ss_pred             HHHHHHHHHHHHCCCcEEEEEeCH
Confidence             122344444  689999999999

>PF06745 KaiC: KaiC; InterPro: IPR014774 This entry represents a domain within bacterial and archaeal proteins, most of which are hypothetical

Probab=95.84  E-value=0.014  Score=50.72  Aligned_cols=87  Identities=28%  Similarity=0.360  Sum_probs=52.5

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCC---------------CCC-
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKS---------------ASG-  272 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~---------------~~~-  272 (352)
                      +.-+++.|.|.+|+|||+|+.++... ..++.=..++|++...+.  ..+.+.+- +++..               ... 
T Consensus        17 p~gs~~li~G~~GsGKT~l~~q~l~~-~~~~~ge~vlyvs~ee~~--~~l~~~~~-s~g~d~~~~~~~g~l~~~d~~~~~   92 (226)
T PF06745_consen   17 PKGSVVLISGPPGSGKTTLALQFLYN-GLKNFGEKVLYVSFEEPP--EELIENMK-SFGWDLEEYEDSGKLKIIDAFPER   92 (226)
T ss_dssp             ETTSEEEEEESTTSSHHHHHHHHHHH-HHHHHT--EEEEESSS-H--HHHHHHHH-TTTS-HHHHHHTTSEEEEESSGGG
T ss_pred             CCCcEEEEEeCCCCCcHHHHHHHHHH-hhhhcCCcEEEEEecCCH--HHHHHHHH-HcCCcHHHHhhcCCEEEEeccccc
Confidence            44678999999999999999665433 222212457888876543  44444432 33211               001 


Q ss_pred             ----cccHHHHHHHHHHhcCC-ceEEEEecCC
Q 036619          273 ----LNEFQSLMSRIQSSIKG-KKNFLVLDDV  299 (352)
Q Consensus       273 ----~~~~~~~~~~l~~~l~~-kr~LlVlDdv  299 (352)
                          ..+.+.+...+.+.++. +...+|+|.+
T Consensus        93 ~~~~~~~~~~l~~~i~~~i~~~~~~~vVIDsl  124 (226)
T PF06745_consen   93 IGWSPNDLEELLSKIREAIEELKPDRVVIDSL  124 (226)
T ss_dssp             ST-TSCCHHHHHHHHHHHHHHHTSSEEEEETH
T ss_pred             ccccccCHHHHHHHHHHHHHhcCCCEEEEECH
Confidence                34567777777777653 4479999987

More than one copy is sometimes found in each protein in this entry. These include KaiC, which is one of the Kai proteins among which direct protein-protein association may be a critical process in the generation of circadian rhythms in cyanobacteria []. The circadian clock protein KaiC, is encoded in the kaiABC operon that controls circadian rhythms and may be universal in Cyanobacteria. Each member contains two copies of this domain, which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor. RadA/Sms is a highly conserved eubacterial protein that shares sequence similarity with both RecA strand transferase and lon protease. The RadA/Sms family are probable ATP-dependent proteases involved in both DNA repair and degradation of proteins, peptides, glycopeptides. They are classified in as non-peptidase homologues and unassigned peptidases in MEROPS peptidase family S16 (lon protease family, clan SJ). RadA/Sms is involved in recombination and recombinational repair, most likely involving the stabilisation or processing of branched DNA molecules or blocked replication forks because of its genetic redundancy with RecG and RuvABC [].; PDB: 2W0M_A 2ZTS_C 4DUG_B 3K0E_B 3K09_B 3S1A_E 3JZM_E 2GBL_B 3DVL_A 1TF7_C ....

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

Probab=95.84  E-value=0.12  Score=45.45  Aligned_cols=24  Identities=25%  Similarity=0.374  Sum_probs=21.8

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHh
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYN  233 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~  233 (352)
                      .-.+++|+|+.|+|||||.+.++.
T Consensus        27 ~G~i~~iiGpNG~GKSTLLk~l~g   50 (258)
T COG1120          27 KGEITGILGPNGSGKSTLLKCLAG   50 (258)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhc
Confidence            357999999999999999999987

>PF02463 SMC_N: RecF/RecN/SMC N terminal domain; InterPro: IPR003395 This domain is found at the N terminus of structural maintenance of chromosomes (SMC) proteins, which function together with other proteins in a range of chromosomal transactions, including chromosome condensation, sister-chromatid cohesion, recombination, DNA repair and epigenetic silencing of gene expression []

Probab=95.84  E-value=0.045  Score=47.25  Aligned_cols=47  Identities=26%  Similarity=0.284  Sum_probs=31.6

Q ss_pred             ceEEEEecCCCCC-CccChhHHHHhhccCCCCcEEEEecCChHHHHHh
Q 036619          290 KKNFLVLDDVWDG-DYNKWQPFFRCLKNGLHGSKILVTTRNESVARMM  336 (352)
Q Consensus       290 kr~LlVlDdvw~~-~~~~~~~l~~~l~~~~~gs~IivTTR~~~va~~~  336 (352)
                      ..-++||||+... |......+...+......+.+||||..+.+...+
T Consensus       158 ~~p~~ilDEvd~~LD~~~~~~l~~~l~~~~~~~Q~ii~Th~~~~~~~a  205 (220)
T PF02463_consen  158 PSPFLILDEVDAALDEQNRKRLADLLKELSKQSQFIITTHNPEMFEDA  205 (220)
T ss_dssp             --SEEEEESTTTTS-HHHHHHHHHHHHHHTTTSEEEEE-S-HHHHTT-
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccc
Confidence            3458999999764 3345666777777666678999999999887654

The domain is also found in RecF and RecN proteins, which are involved in DNA metabolism and recombination.; PDB: 3HTK_A 1W1W_C 2WD5_A 3L51_A 1XEW_Y 3KTA_B 3NWC_B 1XEX_A 1GXL_C 1GXK_A ....

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

Probab=95.82  E-value=0.082  Score=47.00  Aligned_cols=88  Identities=17%  Similarity=0.178  Sum_probs=53.7

Q ss_pred             EEEEEEecCCCcHHHHHHHHHhhhhh--hccCCeEEEEEeCCCC-CHHHHHHHHHHHhCCCC-------CCcccH-----
Q 036619          212 QVISLVGLGGIGKTTLAQLAYNNDEV--KRNFEKVIWVCVSDTF-DQIRIAKAIIEGLGKSA-------SGLNEF-----  276 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~--~~~F~~~~wv~vs~~~-~~~~~~~~i~~~l~~~~-------~~~~~~-----  276 (352)
                      ..++|.|..|+|||+|+..+.++...  +.+-+.++++-+.+.. .+.+++.++...-....       .+..-.     
T Consensus        70 QR~gIfgg~GvGKt~L~~~i~~~~~~~~~~~~~v~V~~~IGeR~rev~e~~~~~~~~~~l~~tv~v~~t~~~~~~~r~~a  149 (276)
T cd01135          70 QKIPIFSGSGLPHNELAAQIARQAGVVGEEENFAVVFAAMGITMEDARFFKDDFEETGALERVVLFLNLANDPTIERIIT  149 (276)
T ss_pred             CEEEeecCCCCChhHHHHHHHHhhhccccCCCCEEEEEEeccccHHHHHHHHHhhhcCCcceEEEEEecCCCCHHHHHHH
Confidence            46789999999999999888875331  1234678888887755 45556555554321110       011111     


Q ss_pred             HHHHHHHHHhc---CCceEEEEecCC
Q 036619          277 QSLMSRIQSSI---KGKKNFLVLDDV  299 (352)
Q Consensus       277 ~~~~~~l~~~l---~~kr~LlVlDdv  299 (352)
                      -...-.+.+++   ++++.|+++||+
T Consensus       150 ~~~a~aiAEyfrd~~g~~VLl~~D~l  175 (276)
T cd01135         150 PRMALTTAEYLAYEKGKHVLVILTDM  175 (276)
T ss_pred             HHHHHHHHHHHHhccCCeEEEEEcCh
Confidence            11223345554   378999999998

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.

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

Probab=95.82  E-value=0.0062  Score=51.17  Aligned_cols=22  Identities=36%  Similarity=0.540  Sum_probs=20.0

Q ss_pred             EEEEEecCCCcHHHHHHHHHhh
Q 036619          213 VISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      +|+|.|.+|+||||||+.+...
T Consensus         1 ii~i~G~sgsGKTtla~~l~~~   22 (187)
T cd02024           1 IVGISGVTNSGKTTLAKLLQRI   22 (187)
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            5889999999999999999874

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.

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

Probab=95.81  E-value=0.014  Score=51.91  Aligned_cols=87  Identities=20%  Similarity=0.261  Sum_probs=57.2

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCC-------------------
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKS-------------------  269 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~-------------------  269 (352)
                      +.-+++.|+|.+|+|||+++.++...  ...++..++||+.....  ..+.+...+ ++..                   
T Consensus        21 p~g~~~lI~G~pGsGKT~f~~qfl~~--~~~~ge~vlyvs~~e~~--~~l~~~~~~-~g~d~~~~~~~g~l~i~d~~~~~   95 (260)
T COG0467          21 PRGSVVLITGPPGTGKTIFALQFLYE--GAREGEPVLYVSTEESP--EELLENARS-FGWDLEVYIEKGKLAILDAFLSE   95 (260)
T ss_pred             cCCcEEEEEcCCCCcHHHHHHHHHHH--HHhcCCcEEEEEecCCH--HHHHHHHHH-cCCCHHHHhhcCCEEEEEccccc
Confidence            55789999999999999999766653  44458889999988743  344433322 2111                   


Q ss_pred             CC-------CcccHHHHHHHHHHhcCC-ceEEEEecCCC
Q 036619          270 AS-------GLNEFQSLMSRIQSSIKG-KKNFLVLDDVW  300 (352)
Q Consensus       270 ~~-------~~~~~~~~~~~l~~~l~~-kr~LlVlDdvw  300 (352)
                      ..       ...+...+...|.+..+. +..-+|+|.+-
T Consensus        96 ~~~~~~~~~~~~~~~~l~~~I~~~~~~~~~~~~ViDsi~  134 (260)
T COG0467          96 KGLVSIVVGDPLDLEELLDRIREIVEKEGADRVVIDSIT  134 (260)
T ss_pred             cccccccccCCccHHHHHHHHHHHHHHhCCCEEEEeCCc
Confidence            00       012455667777776643 37788999985

>PTZ00185 ATPase alpha subunit; Provisional

Probab=95.81  E-value=0.081  Score=51.00  Aligned_cols=90  Identities=18%  Similarity=0.190  Sum_probs=52.8

Q ss_pred             eEEEEEEecCCCcHHHHH-HHHHhhhhhh-----ccCCeEEEEEeCCCCCHHHHHHHHHHHhCC-CC-------CCcccH
Q 036619          211 LQVISLVGLGGIGKTTLA-QLAYNNDEVK-----RNFEKVIWVCVSDTFDQIRIAKAIIEGLGK-SA-------SGLNEF  276 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa-~~v~~~~~~~-----~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~-~~-------~~~~~~  276 (352)
                      -..++|.|..|+|||+|| ..+.+...+.     ++-..++++-+.+..+...-+.+.++.-+. ..       .+....
T Consensus       189 GQR~lIfGd~GtGKTtLAld~IinQ~~~~~~~~~~~~~v~VyvaIGeR~rEV~ei~~~L~e~GaL~~TvVV~AtAdep~~  268 (574)
T PTZ00185        189 GQRELIVGDRQTGKTSIAVSTIINQVRINQQILSKNAVISIYVSIGQRCSNVARIHRLLRSYGALRYTTVMAATAAEPAG  268 (574)
T ss_pred             CCEEEeecCCCCChHHHHHHHHHhhhhhccccccCCCCEEEEEEeccchHHHHHHHHHHHhcCCccceEEEEECCCCCHH
Confidence            356789999999999997 6667654321     244578888888876544334444444331 10       011111


Q ss_pred             H-----HHHHHHHHhc--CCceEEEEecCCC
Q 036619          277 Q-----SLMSRIQSSI--KGKKNFLVLDDVW  300 (352)
Q Consensus       277 ~-----~~~~~l~~~l--~~kr~LlVlDdvw  300 (352)
                      .     -..-.+.+++  +++..|||+||+-
T Consensus       269 ~r~~Apy~a~tiAEYFrd~GkdVLiv~DDLT  299 (574)
T PTZ00185        269 LQYLAPYSGVTMGEYFMNRGRHCLCVYDDLS  299 (574)
T ss_pred             HHHHHHHHHHHHHHHHHHcCCCEEEEEcCch
Confidence            1     1112233333  5899999999993

>PRK15064 ABC transporter ATP-binding protein; Provisional

Probab=95.80  E-value=0.15  Score=50.31  Aligned_cols=52  Identities=13%  Similarity=0.252  Sum_probs=32.5

Q ss_pred             HHHHhcCCceEEEEecCCCCC-CccChhHHHHhhccCCCCcEEEEecCChHHHHH
Q 036619          282 RIQSSIKGKKNFLVLDDVWDG-DYNKWQPFFRCLKNGLHGSKILVTTRNESVARM  335 (352)
Q Consensus       282 ~l~~~l~~kr~LlVlDdvw~~-~~~~~~~l~~~l~~~~~gs~IivTTR~~~va~~  335 (352)
                      .|...|-.+.-+|+||.--.. |...-..+...+..  .|..||++|.+.+....
T Consensus       165 ~lA~aL~~~p~lLlLDEPt~~LD~~~~~~l~~~l~~--~~~tiiivsHd~~~~~~  217 (530)
T PRK15064        165 LLAQALFSNPDILLLDEPTNNLDINTIRWLEDVLNE--RNSTMIIISHDRHFLNS  217 (530)
T ss_pred             HHHHHHhcCCCEEEEcCCCcccCHHHHHHHHHHHHh--CCCeEEEEeCCHHHHHh
Confidence            344455566779999998654 33334445555543  35568999988776544

>PRK05922 type III secretion system ATPase; Validated

Probab=95.79  E-value=0.069  Score=50.74  Aligned_cols=85  Identities=14%  Similarity=0.160  Sum_probs=48.4

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCC-CCCHHHHHHHHHHHhCCCCC-------Cccc-----HH
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSD-TFDQIRIAKAIIEGLGKSAS-------GLNE-----FQ  277 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~-~~~~~~~~~~i~~~l~~~~~-------~~~~-----~~  277 (352)
                      -..++|+|..|+|||||.+.+....    +.+....+.+.. ...+...+.+..........       +...     ..
T Consensus       157 GqrigI~G~nG~GKSTLL~~Ia~~~----~~d~gvi~liGerg~ev~eyl~q~~~~~~~~rTVlv~atsd~~~~~r~~a~  232 (434)
T PRK05922        157 GQRIGVFSEPGSGKSSLLSTIAKGS----KSTINVIALIGERGREVREYIEQHKEGLAAQRTIIIASPAHETAPTKVIAG  232 (434)
T ss_pred             CcEEEEECCCCCChHHHHHHHhccC----CCCceEEEEeCCCCchHHHHHHHHHhhccccceEEEEECCCCCHHHHHHHH
Confidence            3568999999999999999998642    223333333333 23344555554443322110       1111     11


Q ss_pred             HHHHHHHHhc--CCceEEEEecCC
Q 036619          278 SLMSRIQSSI--KGKKNFLVLDDV  299 (352)
Q Consensus       278 ~~~~~l~~~l--~~kr~LlVlDdv  299 (352)
                      ...-.+.+++  ++++.||++||+
T Consensus       233 ~~a~tiAEyfrd~G~~VLl~~Dsl  256 (434)
T PRK05922        233 RAAMTIAEYFRDQGHRVLFIMDSL  256 (434)
T ss_pred             HHHHHHHHHHHHcCCCEEEeccch
Confidence            2223344554  689999999999

>PRK05986 cob(I)alamin adenolsyltransferase/cobinamide ATP-dependent adenolsyltransferase; Validated

Probab=95.79  E-value=0.089  Score=44.16  Aligned_cols=118  Identities=14%  Similarity=0.056  Sum_probs=66.3

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCC---CCCHHHHHHHHH--HH--hCCC----C-CCccc---
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSD---TFDQIRIAKAII--EG--LGKS----A-SGLNE---  275 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~---~~~~~~~~~~i~--~~--l~~~----~-~~~~~---  275 (352)
                      ...|-|+|..|-||||+|--+.-.  ...+=-.+..+-.-+   .......+..+-  ..  .+..    . ....+   
T Consensus        22 ~g~v~v~~g~GkGKtt~a~g~a~r--a~g~G~~V~ivQFlKg~~~~GE~~~l~~l~~v~~~~~g~~~~~~~~~~~e~~~~   99 (191)
T PRK05986         22 KGLLIVHTGNGKGKSTAAFGMALR--AVGHGKKVGVVQFIKGAWSTGERNLLEFGGGVEFHVMGTGFTWETQDRERDIAA   99 (191)
T ss_pred             CCeEEEECCCCCChHHHHHHHHHH--HHHCCCeEEEEEEecCCCccCHHHHHhcCCCcEEEECCCCCcccCCCcHHHHHH
Confidence            467889999999999999666543  222222333333322   223333333310  00  0110    0 00011   


Q ss_pred             HHHHHHHHHHhcCCceE-EEEecCCCC---CCccChhHHHHhhccCCCCcEEEEecCCh
Q 036619          276 FQSLMSRIQSSIKGKKN-FLVLDDVWD---GDYNKWQPFFRCLKNGLHGSKILVTTRNE  330 (352)
Q Consensus       276 ~~~~~~~l~~~l~~kr~-LlVlDdvw~---~~~~~~~~l~~~l~~~~~gs~IivTTR~~  330 (352)
                      ........++.+.+.+| |||||.+-.   ...-..+++...+.....+.-||+|=|+.
T Consensus       100 ~~~~~~~a~~~l~~~~ydlvVLDEi~~Al~~gli~~eevi~~L~~rp~~~evVlTGR~~  158 (191)
T PRK05986        100 AREGWEEAKRMLADESYDLVVLDELTYALKYGYLDVEEVLEALNARPGMQHVVITGRGA  158 (191)
T ss_pred             HHHHHHHHHHHHhCCCCCEEEEehhhHHHHCCCccHHHHHHHHHcCCCCCEEEEECCCC
Confidence            22334455666655555 999999833   22245677888887777788999999986

>cd01129 PulE-GspE PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP)

Probab=95.78  E-value=0.047  Score=48.66  Aligned_cols=108  Identities=16%  Similarity=0.239  Sum_probs=55.5

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCcccHHHHHHHHHHhcCCc
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSASGLNEFQSLMSRIQSSIKGK  290 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~k  290 (352)
                      -.++.|.|..|.||||+++.+.+.  +...-..++  .+.++....  +.. ..++......   .......++..|+..
T Consensus        80 ~GlilisG~tGSGKTT~l~all~~--i~~~~~~ii--tiEdp~E~~--~~~-~~q~~v~~~~---~~~~~~~l~~~lR~~  149 (264)
T cd01129          80 HGIILVTGPTGSGKTTTLYSALSE--LNTPEKNII--TVEDPVEYQ--IPG-INQVQVNEKA---GLTFARGLRAILRQD  149 (264)
T ss_pred             CCEEEEECCCCCcHHHHHHHHHhh--hCCCCCeEE--EECCCceec--CCC-ceEEEeCCcC---CcCHHHHHHHHhccC
Confidence            357899999999999999887653  221111222  232221110  000 0111111111   113456677777777


Q ss_pred             eEEEEecCCCCCCccChhHHHHhhccCCCCcEEEEecCChHHH
Q 036619          291 KNFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKILVTTRNESVA  333 (352)
Q Consensus       291 r~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTTR~~~va  333 (352)
                      .=.|+++++.+.  +....+..+.   ..|..++-|..-.++.
T Consensus       150 PD~i~vgEiR~~--e~a~~~~~aa---~tGh~v~tTlHa~~~~  187 (264)
T cd01129         150 PDIIMVGEIRDA--ETAEIAVQAA---LTGHLVLSTLHTNDAP  187 (264)
T ss_pred             CCEEEeccCCCH--HHHHHHHHHH---HcCCcEEEEeccCCHH
Confidence            888999999554  3333332322   2355465555554443

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.

>cd03227 ABC_Class2 ABC-type Class 2 contains systems involved in cellular processes other than transport

Probab=95.78  E-value=0.087  Score=43.18  Aligned_cols=54  Identities=20%  Similarity=0.391  Sum_probs=33.3

Q ss_pred             ceEEEEecCCCCC-CccChhHHHHhhccC-CCCcEEEEecCChHHHHHhCCCCeeeCC
Q 036619          290 KKNFLVLDDVWDG-DYNKWQPFFRCLKNG-LHGSKILVTTRNESVARMMGSTDIISIE  345 (352)
Q Consensus       290 kr~LlVlDdvw~~-~~~~~~~l~~~l~~~-~~gs~IivTTR~~~va~~~~~~~~~~l~  345 (352)
                      ++-|++||+.-.. +...-..+...+... ..|+.+|++|.+.+++...  ...+.+.
T Consensus        99 ~~~llllDEp~~gld~~~~~~l~~~l~~~~~~~~~vii~TH~~~~~~~~--d~~~~l~  154 (162)
T cd03227          99 PRPLYILDEIDRGLDPRDGQALAEAILEHLVKGAQVIVITHLPELAELA--DKLIHIK  154 (162)
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHHHHHHhcCCEEEEEcCCHHHHHhh--hhEEEEE
Confidence            6789999998654 222233344444321 1278899999999888753  4444443

These families are characterised by the fact that the ABC subunit is made up of duplicated, fused ABC modules (ABC2). No known transmembrane proteins or domains are associated with these proteins.

>PRK10416 signal recognition particle-docking protein FtsY; Provisional

Probab=95.78  E-value=0.081  Score=48.48  Aligned_cols=25  Identities=36%  Similarity=0.417  Sum_probs=22.3

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ...++.++|++|+||||++..+...
T Consensus       113 ~~~vi~lvGpnGsGKTTt~~kLA~~  137 (318)
T PRK10416        113 KPFVILVVGVNGVGKTTTIGKLAHK  137 (318)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHH
Confidence            4689999999999999999888764

>PRK14738 gmk guanylate kinase; Provisional

Probab=95.78  E-value=0.0093  Score=51.10  Aligned_cols=26  Identities=15%  Similarity=0.285  Sum_probs=22.5

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ...+.+.|+|++|+|||||++.+...
T Consensus        11 ~~~~~ivi~GpsG~GK~tl~~~L~~~   36 (206)
T PRK14738         11 AKPLLVVISGPSGVGKDAVLARMRER   36 (206)
T ss_pred             CCCeEEEEECcCCCCHHHHHHHHHhc
Confidence            45788999999999999999988753

>TIGR00390 hslU ATP-dependent protease HslVU, ATPase subunit

Probab=95.77  E-value=0.028  Score=52.87  Aligned_cols=51  Identities=20%  Similarity=0.225  Sum_probs=36.3

Q ss_pred             CccccccchHHHHHHHHcCc--------cccCCCCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          184 GEVCGRVDEKSELFSKLLCE--------SSEQQNGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~--------~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..++|.++.++.+.-.+...        .-.....++.|.++|++|+|||+||+.+...
T Consensus        12 ~~IiGQ~eAkk~lsvAl~n~~~r~~~~~~~~~e~~p~~ILLiGppG~GKT~lAraLA~~   70 (441)
T TIGR00390        12 KYIIGQDNAKKSVAIALRNRYRRSQLNEELKDEVTPKNILMIGPTGVGKTEIARRLAKL   70 (441)
T ss_pred             hhccCHHHHHHHHHHHHHhhhhhhccccccccccCCceEEEECCCCCCHHHHHHHHHHH
Confidence            45788888888776555432        0001123467889999999999999999874

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.

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

Probab=95.77  E-value=0.007  Score=48.86  Aligned_cols=22  Identities=27%  Similarity=0.566  Sum_probs=19.4

Q ss_pred             EEEEEecCCCcHHHHHHHHHhh
Q 036619          213 VISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ++.|.|++|+||||+|+.+...
T Consensus         1 li~l~G~~GsGKST~a~~l~~~   22 (150)
T cd02021           1 IIVVMGVSGSGKSTVGKALAER   22 (150)
T ss_pred             CEEEEcCCCCCHHHHHHHHHhh
Confidence            3678999999999999999874

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

>PRK08972 fliI flagellum-specific ATP synthase; Validated

Probab=95.76  E-value=0.057  Score=51.27  Aligned_cols=85  Identities=15%  Similarity=0.230  Sum_probs=50.3

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCC-HHHHHHHHHHHhCCC-------CCCcccH-----H
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFD-QIRIAKAIIEGLGKS-------ASGLNEF-----Q  277 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~-~~~~~~~i~~~l~~~-------~~~~~~~-----~  277 (352)
                      -..++|+|..|+|||||++.+....    ..+.++.+-+.+... +..+...++..-+..       ..+..-.     -
T Consensus       162 GqrigI~G~sG~GKSTLL~~I~~~~----~~dv~Vi~lIGER~rEv~efi~~~l~~~~l~rtvvv~atsd~p~~~R~~a~  237 (444)
T PRK08972        162 GQRMGLFAGSGVGKSVLLGMMTRGT----TADVIVVGLVGERGREVKEFIEEILGEEGRARSVVVAAPADTSPLMRLKGC  237 (444)
T ss_pred             CCEEEEECCCCCChhHHHHHhccCC----CCCEEEEEEEcCChHHHHHHHHHhhccCCcccEEEEEECCCCCHHHHHHHH
Confidence            4678999999999999999998631    224555566655443 344555544331111       0011111     1


Q ss_pred             HHHHHHHHhc--CCceEEEEecCC
Q 036619          278 SLMSRIQSSI--KGKKNFLVLDDV  299 (352)
Q Consensus       278 ~~~~~l~~~l--~~kr~LlVlDdv  299 (352)
                      ...-.+.+++  +++..||++||+
T Consensus       238 ~~A~tiAEyfrd~G~~VLl~~Dsl  261 (444)
T PRK08972        238 ETATTIAEYFRDQGLNVLLLMDSL  261 (444)
T ss_pred             HHHHHHHHHHHHcCCCEEEEEcCh
Confidence            1122244444  689999999998

>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=95.76  E-value=0.0054  Score=47.74  Aligned_cols=27  Identities=37%  Similarity=0.575  Sum_probs=18.1

Q ss_pred             EEEEecCCCcHHHHHHHHHhhhhhhccCC
Q 036619          214 ISLVGLGGIGKTTLAQLAYNNDEVKRNFE  242 (352)
Q Consensus       214 i~I~G~~GiGKTtLa~~v~~~~~~~~~F~  242 (352)
                      +.|+|.+|+||||+|+.+...  +...|.
T Consensus         2 vLleg~PG~GKT~la~~lA~~--~~~~f~   28 (131)
T PF07726_consen    2 VLLEGVPGVGKTTLAKALARS--LGLSFK   28 (131)
T ss_dssp             EEEES---HHHHHHHHHHHHH--TT--EE
T ss_pred             EeeECCCccHHHHHHHHHHHH--cCCcee
Confidence            579999999999999999973  555564

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.

>TIGR02314 ABC_MetN D-methionine ABC transporter, ATP-binding protein

Probab=95.76  E-value=0.071  Score=49.43  Aligned_cols=55  Identities=22%  Similarity=0.262  Sum_probs=33.1

Q ss_pred             HHHHhcCCceEEEEecCCCCC-CccChhHHHHhhccC--CCCcEEEEecCChHHHHHh
Q 036619          282 RIQSSIKGKKNFLVLDDVWDG-DYNKWQPFFRCLKNG--LHGSKILVTTRNESVARMM  336 (352)
Q Consensus       282 ~l~~~l~~kr~LlVlDdvw~~-~~~~~~~l~~~l~~~--~~gs~IivTTR~~~va~~~  336 (352)
                      .|...|....-+|++|..-+. |...-..+...+...  ..|..||++|.+.+++..+
T Consensus       150 ~IARAL~~~P~iLLlDEPts~LD~~t~~~i~~lL~~l~~~~g~tiiliTH~~~~v~~~  207 (343)
T TIGR02314       150 AIARALASNPKVLLCDEATSALDPATTQSILELLKEINRRLGLTILLITHEMDVVKRI  207 (343)
T ss_pred             HHHHHHHhCCCEEEEeCCcccCCHHHHHHHHHHHHHHHHhcCCEEEEEeCCHHHHHHh
Confidence            345555667778899987543 222333444444432  2266799999888776543

Members of this family are the ATP-binding protein of the D-methionine ABC transporter complex. Known members belong to the Proteobacteria.

>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=95.75  E-value=0.0089  Score=45.98  Aligned_cols=22  Identities=32%  Similarity=0.567  Sum_probs=19.7

Q ss_pred             EEEEecCCCcHHHHHHHHHhhh
Q 036619          214 ISLVGLGGIGKTTLAQLAYNND  235 (352)
Q Consensus       214 i~I~G~~GiGKTtLa~~v~~~~  235 (352)
                      |.|+|..|+|||||.+.+...+
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            6799999999999999998754

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.

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

Probab=95.74  E-value=0.13  Score=43.80  Aligned_cols=122  Identities=20%  Similarity=0.262  Sum_probs=66.4

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeC-------------------CCCC---HHHH----------
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVS-------------------DTFD---QIRI----------  258 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs-------------------~~~~---~~~~----------  258 (352)
                      -.|++|+|+.|+|||||.+.+..=+..   =+..+|+.-.                   |.|+   ...+          
T Consensus        28 Gevv~iiGpSGSGKSTlLRclN~LE~~---~~G~I~i~g~~~~~~~~~~~~R~~vGmVFQ~fnLFPHlTvleNv~lap~~  104 (240)
T COG1126          28 GEVVVIIGPSGSGKSTLLRCLNGLEEP---DSGSITVDGEDVGDKKDILKLRRKVGMVFQQFNLFPHLTVLENVTLAPVK  104 (240)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHCCcCC---CCceEEECCEeccchhhHHHHHHhcCeecccccccccchHHHHHHhhhHH
Confidence            468999999999999999988753222   2334555321                   1121   1112          


Q ss_pred             ------------HHHHHHHhCCC------CCCcccHHHHHHHHHHhcCCceEEEEecCCCCC-CccChhHHHHhhcc-CC
Q 036619          259 ------------AKAIIEGLGKS------ASGLNEFQSLMSRIQSSIKGKKNFLVLDDVWDG-DYNKWQPFFRCLKN-GL  318 (352)
Q Consensus       259 ------------~~~i~~~l~~~------~~~~~~~~~~~~~l~~~l~~kr~LlVlDdvw~~-~~~~~~~l~~~l~~-~~  318 (352)
                                  ..++++.++..      +...+.-++-.-.|.+.|.-++-++.||..-+. |++.-.++...+.. ..
T Consensus       105 v~~~~k~eA~~~A~~lL~~VGL~~ka~~yP~qLSGGQqQRVAIARALaM~P~vmLFDEPTSALDPElv~EVL~vm~~LA~  184 (240)
T COG1126         105 VKKLSKAEAREKALELLEKVGLADKADAYPAQLSGGQQQRVAIARALAMDPKVMLFDEPTSALDPELVGEVLDVMKDLAE  184 (240)
T ss_pred             HcCCCHHHHHHHHHHHHHHcCchhhhhhCccccCcHHHHHHHHHHHHcCCCCEEeecCCcccCCHHHHHHHHHHHHHHHH
Confidence                        22223333322      111222333344566777777888899998654 33333344444432 23


Q ss_pred             CCcEEEEecCChHHHHH
Q 036619          319 HGSKILVTTRNESVARM  335 (352)
Q Consensus       319 ~gs~IivTTR~~~va~~  335 (352)
                      .|-..|+.|..-.-|+.
T Consensus       185 eGmTMivVTHEM~FAr~  201 (240)
T COG1126         185 EGMTMIIVTHEMGFARE  201 (240)
T ss_pred             cCCeEEEEechhHHHHH
Confidence            46667777776655554

>PRK03846 adenylylsulfate kinase; Provisional

Probab=95.74  E-value=0.01  Score=50.47  Aligned_cols=26  Identities=31%  Similarity=0.353  Sum_probs=23.0

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .+..++.|+|++|+||||||+.+...
T Consensus        22 ~~~~~i~i~G~~GsGKSTla~~l~~~   47 (198)
T PRK03846         22 HKGVVLWFTGLSGSGKSTVAGALEEA   47 (198)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            45689999999999999999999873

>cd04159 Arl10_like Arl10-like subfamily

Probab=95.74  E-value=0.042  Score=44.01  Aligned_cols=21  Identities=48%  Similarity=0.640  Sum_probs=19.2

Q ss_pred             EEEEecCCCcHHHHHHHHHhh
Q 036619          214 ISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       214 i~I~G~~GiGKTtLa~~v~~~  234 (352)
                      |+|+|..|+|||||.+.+...
T Consensus         2 i~i~G~~~~GKssl~~~l~~~   22 (159)
T cd04159           2 ITLVGLQNSGKTTLVNVIAGG   22 (159)
T ss_pred             EEEEcCCCCCHHHHHHHHccC
Confidence            689999999999999998875

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.

>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=95.74  E-value=0.0073  Score=48.38  Aligned_cols=22  Identities=36%  Similarity=0.597  Sum_probs=19.9

Q ss_pred             EEEEEecCCCcHHHHHHHHHhh
Q 036619          213 VISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      +|.|+|++|+||||+|+.+...
T Consensus         1 ~I~i~G~~GsGKst~a~~la~~   22 (147)
T cd02020           1 IIAIDGPAGSGKSTVAKLLAKK   22 (147)
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            5789999999999999999874

>PRK13545 tagH teichoic acids export protein ATP-binding subunit; Provisional

Probab=95.73  E-value=0.15  Score=49.65  Aligned_cols=24  Identities=33%  Similarity=0.617  Sum_probs=21.6

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      -.+++|+|+.|.|||||.+.+..-
T Consensus        50 GEivgIiGpNGSGKSTLLkiLaGL   73 (549)
T PRK13545         50 GEIVGIIGLNGSGKSTLSNLIAGV   73 (549)
T ss_pred             CCEEEEEcCCCCCHHHHHHHHhCC
Confidence            468999999999999999999864

>PRK08149 ATP synthase SpaL; Validated

Probab=95.72  E-value=0.067  Score=50.76  Aligned_cols=85  Identities=13%  Similarity=0.247  Sum_probs=49.6

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCC-CCCHHHHHHHHHHHhCCC-------CCCccc-----HH
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSD-TFDQIRIAKAIIEGLGKS-------ASGLNE-----FQ  277 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~-~~~~~~~~~~i~~~l~~~-------~~~~~~-----~~  277 (352)
                      -..++|+|..|+|||||.+.++...    +-+.++...+.. .-++..+...........       ..+...     ..
T Consensus       151 Gq~i~I~G~sG~GKTTLl~~i~~~~----~~dv~v~g~Ig~rg~ev~e~~~~~l~~~~~~~~~vV~~~sd~p~~~r~~a~  226 (428)
T PRK08149        151 GQRMGIFASAGCGKTSLMNMLIEHS----EADVFVIGLIGERGREVTEFVESLRASSRREKCVLVYATSDFSSVDRCNAA  226 (428)
T ss_pred             CCEEEEECCCCCChhHHHHHHhcCC----CCCeEEEEEEeeCCccHHHHHHHHhhcccccceEEEEECCCCCHHHHHhHH
Confidence            4578999999999999999998742    223333333433 334555655555533221       011111     11


Q ss_pred             HHHHHHHHhc--CCceEEEEecCC
Q 036619          278 SLMSRIQSSI--KGKKNFLVLDDV  299 (352)
Q Consensus       278 ~~~~~l~~~l--~~kr~LlVlDdv  299 (352)
                      .....+.+++  ++|+.||++||+
T Consensus       227 ~~a~tiAE~fr~~G~~Vll~~Dsl  250 (428)
T PRK08149        227 LVATTVAEYFRDQGKRVVLFIDSM  250 (428)
T ss_pred             HHHHHHHHHHHHcCCCEEEEccch
Confidence            1223334444  689999999998

>PRK12678 transcription termination factor Rho; Provisional

Probab=95.71  E-value=0.049  Score=53.14  Aligned_cols=96  Identities=18%  Similarity=0.132  Sum_probs=53.0

Q ss_pred             HHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEE-eCCCCCHHHHHHHHHHHhCCC----
Q 036619          195 ELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVC-VSDTFDQIRIAKAIIEGLGKS----  269 (352)
Q Consensus       195 ~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~-vs~~~~~~~~~~~i~~~l~~~----  269 (352)
                      +++++|+.-.     .-....|+|++|+|||||++.+.+.. ...+-++.++|. |.+.....   .++.+.+...    
T Consensus       405 RvIDll~PIG-----kGQR~LIvgpp~aGKTtLL~~IAn~i-~~n~~~~~~ivvLIgERpeEV---tdm~rsVkgeVVas  475 (672)
T PRK12678        405 RVIDLIMPIG-----KGQRGLIVSPPKAGKTTILQNIANAI-TTNNPECHLMVVLVDERPEEV---TDMQRSVKGEVIAS  475 (672)
T ss_pred             eeeeeecccc-----cCCEeEEeCCCCCCHHHHHHHHHHHH-hhcCCCeEEEEEEEeCchhhH---HHHHHhccceEEEE
Confidence            4555554432     23567799999999999999998842 223445555443 44433221   2233333221    


Q ss_pred             -CCCcc----cHHHHHHHHHHhc--CCceEEEEecCC
Q 036619          270 -ASGLN----EFQSLMSRIQSSI--KGKKNFLVLDDV  299 (352)
Q Consensus       270 -~~~~~----~~~~~~~~l~~~l--~~kr~LlVlDdv  299 (352)
                       .+...    ....+.-.+.+++  +++.+||++|++
T Consensus       476 T~D~p~~~~~~~a~~ai~~Ae~fre~G~dVlillDSl  512 (672)
T PRK12678        476 TFDRPPSDHTTVAELAIERAKRLVELGKDVVVLLDSI  512 (672)
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHHHHcCCCEEEEEeCc
Confidence             11110    0122233344444  789999999998

>PRK00300 gmk guanylate kinase; Provisional

Probab=95.71  E-value=0.0089  Score=51.05  Aligned_cols=24  Identities=33%  Similarity=0.425  Sum_probs=21.8

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..+|+|+|+.|+|||||++.+...
T Consensus         5 g~~i~i~G~sGsGKstl~~~l~~~   28 (205)
T PRK00300          5 GLLIVLSGPSGAGKSTLVKALLER   28 (205)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhh
Confidence            468999999999999999999874

>cd00227 CPT Chloramphenicol (Cm) phosphotransferase (CPT)

Probab=95.71  E-value=0.0086  Score=49.84  Aligned_cols=23  Identities=26%  Similarity=0.362  Sum_probs=20.8

Q ss_pred             EEEEEEecCCCcHHHHHHHHHhh
Q 036619          212 QVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ++|.+.|++|+||||+|+.+...
T Consensus         3 ~~i~l~G~~gsGKst~a~~l~~~   25 (175)
T cd00227           3 RIIILNGGSSAGKSSIARALQSV   25 (175)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHh
Confidence            58899999999999999999864

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

>TIGR03498 FliI_clade3 flagellar protein export ATPase FliI

Probab=95.71  E-value=0.054  Score=51.36  Aligned_cols=86  Identities=20%  Similarity=0.198  Sum_probs=47.1

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCC-------CCCcccHH-----H
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKS-------ASGLNEFQ-----S  278 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~-------~~~~~~~~-----~  278 (352)
                      -..++|+|..|+|||||.+.+.....   ....++...-...-.+.++....+..-+..       ..+.....     .
T Consensus       140 Gq~i~I~G~sG~GKTtLl~~I~~~~~---~~~gvi~~iGer~~ev~~~~~~~l~~~~~~~tvvv~atsd~~~~~r~~a~~  216 (418)
T TIGR03498       140 GQRLGIFAGSGVGKSTLLSMLARNTD---ADVVVIALVGERGREVREFLEDDLGEEGLKRSVVVVATSDESPLMRRQAAY  216 (418)
T ss_pred             CcEEEEECCCCCChHHHHHHHhCCCC---CCEEEEEEEeeechHHHHHHHHhhhccccceeEEEEECCCCCHHHHHHHHH
Confidence            45789999999999999998886421   122222222222333444555443332111       01111111     1


Q ss_pred             HHHHHHHhc--CCceEEEEecCC
Q 036619          279 LMSRIQSSI--KGKKNFLVLDDV  299 (352)
Q Consensus       279 ~~~~l~~~l--~~kr~LlVlDdv  299 (352)
                      ..-.+.+++  +++..||++||+
T Consensus       217 ~a~~iAEyfrd~G~~Vll~~Dsl  239 (418)
T TIGR03498       217 TATAIAEYFRDQGKDVLLLMDSV  239 (418)
T ss_pred             HHHHHHHHHHHcCCCEEEeccch
Confidence            222344444  689999999998

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.

>PRK00279 adk adenylate kinase; Reviewed

Probab=95.71  E-value=0.026  Score=48.61  Aligned_cols=22  Identities=32%  Similarity=0.418  Sum_probs=19.4

Q ss_pred             EEEEEecCCCcHHHHHHHHHhh
Q 036619          213 VISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .|.|+|++|+||||+|+.+...
T Consensus         2 ~I~v~G~pGsGKsT~a~~la~~   23 (215)
T PRK00279          2 RLILLGPPGAGKGTQAKFIAEK   23 (215)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            3779999999999999998864

>cd03289 ABCC_CFTR2 The CFTR subfamily domain 2

Probab=95.70  E-value=0.14  Score=46.05  Aligned_cols=24  Identities=33%  Similarity=0.339  Sum_probs=21.2

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      -.+++|+|..|.|||||.+.+..-
T Consensus        30 Ge~~~IvG~nGsGKSTLl~~L~gl   53 (275)
T cd03289          30 GQRVGLLGRTGSGKSTLLSAFLRL   53 (275)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhhh
Confidence            458999999999999999999853

The cystic fibrosis transmembrane regulator (CFTR), the product of the gene mutated in patients with cystic fibrosis, has adapted the ABC transporter structural motif to form a tightly regulated anion channel at the apical surface of many epithelia. Use of the term assembly of a functional ion channel implies the coming together of subunits or at least smaller not-yet functional components of the active whole. In fact, on the basis of current knowledge only the CFTR polypeptide itself is required to form an ATP- and protein kinase A-dependent low-conductance chloride channel of the type present in the apical membrane of many epithelial cells. CFTR displays the typical organization (IM-ABC)2 and carries a characteristic hydrophilic R-domain that separates IM1-ABC1 from IM2-ABC2.

>PRK06217 hypothetical protein; Validated

Probab=95.69  E-value=0.0084  Score=50.31  Aligned_cols=35  Identities=23%  Similarity=0.457  Sum_probs=25.6

Q ss_pred             EEEEEecCCCcHHHHHHHHHhhhhhhccC--CeEEEEE
Q 036619          213 VISLVGLGGIGKTTLAQLAYNNDEVKRNF--EKVIWVC  248 (352)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~~~~~~~F--~~~~wv~  248 (352)
                      .|.|.|.+|+||||||+.+...... .+|  |..+|-.
T Consensus         3 ~I~i~G~~GsGKSTla~~L~~~l~~-~~~~~D~~~~~~   39 (183)
T PRK06217          3 RIHITGASGSGTTTLGAALAERLDI-PHLDTDDYFWLP   39 (183)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcCC-cEEEcCceeecc
Confidence            4889999999999999999975332 233  4556643

>TIGR03880 KaiC_arch_3 KaiC domain protein, AF_0351 family

Probab=95.68  E-value=0.092  Score=45.51  Aligned_cols=42  Identities=26%  Similarity=0.354  Sum_probs=30.5

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCC
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDT  252 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~  252 (352)
                      +.-.++.|.|.+|+|||+++..+... ..+. =..++|++...+
T Consensus        14 ~~g~~~li~G~~G~GKt~~~~~~~~~-~~~~-g~~~~y~s~e~~   55 (224)
T TIGR03880        14 PEGHVIVVIGEYGTGKTTFSLQFLYQ-GLKN-GEKAMYISLEER   55 (224)
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHH-HHhC-CCeEEEEECCCC
Confidence            34678999999999999999777653 2222 346778877664

This model represents a rather narrowly distributed archaeal protein family in which members have a single copy of the KaiC domain. This stands in contrast to the circadian clock protein KaiC itself, with two copies of the domain. Members are expected to have weak ATPase activity, by homology to the autokinase/autophosphorylase KaiC itself.

>TIGR01447 recD exodeoxyribonuclease V, alpha subunit

Probab=95.66  E-value=0.042  Score=54.64  Aligned_cols=22  Identities=27%  Similarity=0.203  Sum_probs=19.4

Q ss_pred             EEEEEEecCCCcHHHHHHHHHh
Q 036619          212 QVISLVGLGGIGKTTLAQLAYN  233 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~  233 (352)
                      ++..|.|.+|.||||++..+..
T Consensus       161 ~~~vitGgpGTGKTt~v~~ll~  182 (586)
T TIGR01447       161 NFSLITGGPGTGKTTTVARLLL  182 (586)
T ss_pred             CeEEEEcCCCCCHHHHHHHHHH
Confidence            5778899999999999988775

This family describes the exodeoxyribonuclease V alpha subunit, RecD. RecD is part of a RecBCD complex. A related family in the Gram-positive bacteria separates in a phylogenetic tree, has an additional N-terminal extension of about 200 residues, and is not supported as a member of a RecBCD complex by neighboring genes. The related family is consequently described by a different model.

>PRK13949 shikimate kinase; Provisional

Probab=95.65  E-value=0.0091  Score=49.43  Aligned_cols=22  Identities=45%  Similarity=0.499  Sum_probs=19.9

Q ss_pred             EEEEEecCCCcHHHHHHHHHhh
Q 036619          213 VISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      -|.|+|++|+|||||++.+...
T Consensus         3 ~I~liG~~GsGKstl~~~La~~   24 (169)
T PRK13949          3 RIFLVGYMGAGKTTLGKALARE   24 (169)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            4789999999999999999874

>smart00487 DEXDc DEAD-like helicases superfamily

Probab=95.64  E-value=0.05  Score=45.32  Aligned_cols=22  Identities=27%  Similarity=0.212  Sum_probs=17.4

Q ss_pred             EEEEEEecCCCcHHH-HHHHHHh
Q 036619          212 QVISLVGLGGIGKTT-LAQLAYN  233 (352)
Q Consensus       212 ~vi~I~G~~GiGKTt-La~~v~~  233 (352)
                      +.+.|.|..|.|||+ ++..++.
T Consensus        25 ~~~~i~~~~GsGKT~~~~~~~~~   47 (201)
T smart00487       25 RDVILAAPTGSGKTLAALLPALE   47 (201)
T ss_pred             CcEEEECCCCCchhHHHHHHHHH
Confidence            577899999999999 4455554

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

Probab=95.64  E-value=0.025  Score=43.86  Aligned_cols=47  Identities=17%  Similarity=0.235  Sum_probs=33.8

Q ss_pred             ccccccchHHHHHHHH----cCccccCCCCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          185 EVCGRVDEKSELFSKL----LCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       185 ~~~gr~~~~~~l~~~L----~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .++|..-..+.+++.+    .+.   .+.++-|++..|.+|+|||.+++.+.++
T Consensus        26 ~l~GQhla~~~v~~ai~~~l~~~---~p~KpLVlSfHG~tGtGKn~v~~liA~~   76 (127)
T PF06309_consen   26 NLFGQHLAVEVVVNAIKGHLANP---NPRKPLVLSFHGWTGTGKNFVSRLIAEH   76 (127)
T ss_pred             HccCcHHHHHHHHHHHHHHHcCC---CCCCCEEEEeecCCCCcHHHHHHHHHHH
Confidence            4666655555554444    333   2367899999999999999999888765

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

>TIGR03575 selen_PSTK_euk L-seryl-tRNA(Sec) kinase, eukaryotic

Probab=95.63  E-value=0.11  Score=47.84  Aligned_cols=37  Identities=30%  Similarity=0.343  Sum_probs=24.9

Q ss_pred             EEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCC
Q 036619          214 ISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSD  251 (352)
Q Consensus       214 i~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~  251 (352)
                      +.+.|++|.||||+++.+.+.-.....+ .+++++..+
T Consensus         2 ~~l~Gl~GaGKST~~~~l~~~l~~~~g~-~v~~~~~Dd   38 (340)
T TIGR03575         2 CVLCGLPAAGKSTLARSLSATLRRERGW-AVAVITYDD   38 (340)
T ss_pred             eEEECCCCCCHHHHHHHHHHHHHhccCC-eEEEEcccc
Confidence            5689999999999999998753222222 345555444

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.

>PRK11388 DNA-binding transcriptional regulator DhaR; Provisional

Probab=95.62  E-value=0.041  Score=55.66  Aligned_cols=131  Identities=18%  Similarity=0.124  Sum_probs=69.8

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHH
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAII  263 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~  263 (352)
                      +.++|....+.++++.+..-..   . ..-|.|+|..|+||+++|+.+++.-. + .-..-+.|++..-. ...+..+++
T Consensus       325 ~~l~g~s~~~~~~~~~~~~~a~---~-~~pvli~Ge~GtGK~~~A~~ih~~s~-r-~~~pfv~vnc~~~~-~~~~~~elf  397 (638)
T PRK11388        325 DHMPQDSPQMRRLIHFGRQAAK---S-SFPVLLCGEEGVGKALLAQAIHNESE-R-AAGPYIAVNCQLYP-DEALAEEFL  397 (638)
T ss_pred             cceEECCHHHHHHHHHHHHHhC---c-CCCEEEECCCCcCHHHHHHHHHHhCC-c-cCCCeEEEECCCCC-hHHHHHHhc
Confidence            3578888888887777654331   1 22366999999999999999987421 1 11122334444322 122222222


Q ss_pred             HHhCCCCCCcccHHHHHHHHHHhcCCceEEEEecCCCCCCccChhHHHHhhccCC---C--------CcEEEEecCC
Q 036619          264 EGLGKSASGLNEFQSLMSRIQSSIKGKKNFLVLDDVWDGDYNKWQPFFRCLKNGL---H--------GSKILVTTRN  329 (352)
Q Consensus       264 ~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~---~--------gs~IivTTR~  329 (352)
                      -........ .       ....+-....=.|+||++..........|...+..+.   .        ..+||.||..
T Consensus       398 g~~~~~~~~-~-------~~g~~~~a~~GtL~ldei~~l~~~~Q~~Ll~~l~~~~~~~~~~~~~~~~~~riI~~t~~  466 (638)
T PRK11388        398 GSDRTDSEN-G-------RLSKFELAHGGTLFLEKVEYLSPELQSALLQVLKTGVITRLDSRRLIPVDVRVIATTTA  466 (638)
T ss_pred             CCCCcCccC-C-------CCCceeECCCCEEEEcChhhCCHHHHHHHHHHHhcCcEEeCCCCceEEeeEEEEEeccC
Confidence            211100000 0       0000001223468999998776566677777775431   1        2467776654

>CHL00195 ycf46 Ycf46; Provisional

Probab=95.62  E-value=0.04  Score=53.41  Aligned_cols=25  Identities=32%  Similarity=0.424  Sum_probs=21.9

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .++-|.++|++|+|||.+|+.+.+.
T Consensus       258 ~pkGILL~GPpGTGKTllAkaiA~e  282 (489)
T CHL00195        258 TPRGLLLVGIQGTGKSLTAKAIAND  282 (489)
T ss_pred             CCceEEEECCCCCcHHHHHHHHHHH
Confidence            3566889999999999999999884

>cd00544 CobU Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU)

Probab=95.62  E-value=0.057  Score=44.63  Aligned_cols=79  Identities=16%  Similarity=0.232  Sum_probs=44.3

Q ss_pred             EEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCcccHHHHHHHHHHhcCC--ce
Q 036619          214 ISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSASGLNEFQSLMSRIQSSIKG--KK  291 (352)
Q Consensus       214 i~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~--kr  291 (352)
                      +.|.|.+|+|||++|.++...     .....+++.-...++.+ ....|.......+...... +....|.+.+..  +.
T Consensus         2 ~li~G~~~sGKS~~a~~~~~~-----~~~~~~y~at~~~~d~e-m~~rI~~H~~~R~~~w~t~-E~~~~l~~~l~~~~~~   74 (169)
T cd00544           2 ILVTGGARSGKSRFAERLAAE-----LGGPVTYIATAEAFDDE-MAERIARHRKRRPAHWRTI-ETPRDLVSALKELDPG   74 (169)
T ss_pred             EEEECCCCCCHHHHHHHHHHh-----cCCCeEEEEccCcCCHH-HHHHHHHHHHhCCCCceEe-ecHHHHHHHHHhcCCC
Confidence            578999999999999877642     23467777777777653 3344433322222221111 112233333311  23


Q ss_pred             EEEEecCC
Q 036619          292 NFLVLDDV  299 (352)
Q Consensus       292 ~LlVlDdv  299 (352)
                      -.+++|.+
T Consensus        75 ~~VLIDcl   82 (169)
T cd00544          75 DVVLIDCL   82 (169)
T ss_pred             CEEEEEcH
Confidence            37999987

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.

>cd01132 F1_ATPase_alpha F1 ATP synthase alpha, central domain

Probab=95.62  E-value=0.059  Score=47.91  Aligned_cols=83  Identities=18%  Similarity=0.211  Sum_probs=47.5

Q ss_pred             eEEEEEEecCCCcHHHHH-HHHHhhhhhhccCCeE-EEEEeCCCC-CHHHHHHHHHHHhCCC-------CCCcccH----
Q 036619          211 LQVISLVGLGGIGKTTLA-QLAYNNDEVKRNFEKV-IWVCVSDTF-DQIRIAKAIIEGLGKS-------ASGLNEF----  276 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa-~~v~~~~~~~~~F~~~-~wv~vs~~~-~~~~~~~~i~~~l~~~-------~~~~~~~----  276 (352)
                      -.-++|+|..|+|||+|| ..+.+..    +-+.+ +++-+.+.. .+..+.+++.+.-...       ..+....    
T Consensus        69 GQr~~Ifg~~g~GKt~L~l~~i~~~~----~~~v~~V~~~iGer~~ev~e~~~~~~~~~~~~~tvvv~~t~d~~~~~r~~  144 (274)
T cd01132          69 GQRELIIGDRQTGKTAIAIDTIINQK----GKKVYCIYVAIGQKASTVAQVVKTLEEHGAMEYTIVVAATASDPAPLQYL  144 (274)
T ss_pred             CCEEEeeCCCCCCccHHHHHHHHHhc----CCCeEEEEEecccchHHHHHHHHHHHhcCccceeEEEEeCCCCchhHHHH
Confidence            356889999999999996 6666531    23334 555565553 4455555555432111       0011111    


Q ss_pred             -----HHHHHHHHHhcCCceEEEEecCC
Q 036619          277 -----QSLMSRIQSSIKGKKNFLVLDDV  299 (352)
Q Consensus       277 -----~~~~~~l~~~l~~kr~LlVlDdv  299 (352)
                           -.+.+.++.  +++..||++||+
T Consensus       145 a~~~a~aiAE~fr~--~G~~Vlvl~Dsl  170 (274)
T cd01132         145 APYTGCAMGEYFMD--NGKHALIIYDDL  170 (274)
T ss_pred             HHHHHHHHHHHHHH--CCCCEEEEEcCh
Confidence                 122333333  689999999999

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.

>cd01136 ATPase_flagellum-secretory_path_III Flagellum-specific ATPase/type III secretory pathway virulence-related protein

Probab=95.61  E-value=0.09  Score=48.16  Aligned_cols=85  Identities=15%  Similarity=0.177  Sum_probs=48.1

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeC-CCCCHHHHHHHHHHHhCCC-------CCCccc-----HH
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVS-DTFDQIRIAKAIIEGLGKS-------ASGLNE-----FQ  277 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs-~~~~~~~~~~~i~~~l~~~-------~~~~~~-----~~  277 (352)
                      -..++|+|..|.|||||.+.+.....    -+.....-+. ..-++..+....+..-+..       ..+...     ..
T Consensus        69 Gqri~I~G~sG~GKTtLl~~Ia~~~~----~~~~vi~~iGer~~ev~~~~~~~~~~~~l~rtvvv~~t~d~~~~~r~~~~  144 (326)
T cd01136          69 GQRLGIFAGSGVGKSTLLGMIARGTT----ADVNVIALIGERGREVREFIEKDLGEEGLKRSVVVVATSDESPLLRVKAA  144 (326)
T ss_pred             CcEEEEECCCCCChHHHHHHHhCCCC----CCEEEEEEEecCCccHHHHHHHHHhcCccceEEEEEcCCCCCHHHHHHHH
Confidence            35789999999999999999887422    1233333333 2334555555554432211       011111     11


Q ss_pred             HHHHHHHHhc--CCceEEEEecCC
Q 036619          278 SLMSRIQSSI--KGKKNFLVLDDV  299 (352)
Q Consensus       278 ~~~~~l~~~l--~~kr~LlVlDdv  299 (352)
                      ...-.+.+++  ++|..||++||+
T Consensus       145 ~~a~~~AEyfr~~g~~Vll~~Dsl  168 (326)
T cd01136         145 YTATAIAEYFRDQGKDVLLLMDSL  168 (326)
T ss_pred             HHHHHHHHHHHHcCCCeEEEeccc
Confidence            1222233443  689999999997

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.

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

Probab=95.60  E-value=0.0088  Score=48.80  Aligned_cols=20  Identities=40%  Similarity=0.712  Sum_probs=18.3

Q ss_pred             EEEEEecCCCcHHHHHHHHH
Q 036619          213 VISLVGLGGIGKTTLAQLAY  232 (352)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~  232 (352)
                      .|+|.|.+|+||||+++.+.
T Consensus         2 ~I~ITGTPGvGKTT~~~~L~   21 (180)
T COG1936           2 LIAITGTPGVGKTTVCKLLR   21 (180)
T ss_pred             eEEEeCCCCCchHHHHHHHH
Confidence            58899999999999998886

>TIGR02655 circ_KaiC circadian clock protein KaiC

Probab=95.59  E-value=0.14  Score=49.94  Aligned_cols=87  Identities=20%  Similarity=0.226  Sum_probs=54.4

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCCC---------------CCc
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSA---------------SGL  273 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~---------------~~~  273 (352)
                      ..-+++.|.|++|+|||||+.++.... .+ .-..+++++...  +...+...+ +.++...               +..
T Consensus       261 ~~gs~~li~G~~G~GKt~l~~~f~~~~-~~-~ge~~~y~s~eE--s~~~i~~~~-~~lg~~~~~~~~~g~l~~~~~~p~~  335 (484)
T TIGR02655       261 FKDSIILATGATGTGKTLLVSKFLENA-CA-NKERAILFAYEE--SRAQLLRNA-YSWGIDFEEMEQQGLLKIICAYPES  335 (484)
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHHHHH-HH-CCCeEEEEEeeC--CHHHHHHHH-HHcCCChHHHhhCCcEEEEEccccc
Confidence            456889999999999999997776542 22 234567666554  444555443 3443221               112


Q ss_pred             ccHHHHHHHHHHhcCC-ceEEEEecCCC
Q 036619          274 NEFQSLMSRIQSSIKG-KKNFLVLDDVW  300 (352)
Q Consensus       274 ~~~~~~~~~l~~~l~~-kr~LlVlDdvw  300 (352)
                      ...++....+.+.+.. +.-++|+|.+.
T Consensus       336 ~~~~~~~~~i~~~i~~~~~~~vvIDsi~  363 (484)
T TIGR02655       336 AGLEDHLQIIKSEIADFKPARIAIDSLS  363 (484)
T ss_pred             CChHHHHHHHHHHHHHcCCCEEEEcCHH
Confidence            2345666677766643 55689999984

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.

>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional

Probab=95.59  E-value=0.062  Score=48.19  Aligned_cols=87  Identities=21%  Similarity=0.173  Sum_probs=47.7

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCCC----C---CcccHHHHHH
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSA----S---GLNEFQSLMS  281 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~----~---~~~~~~~~~~  281 (352)
                      .+..++.|+|.+|+|||||...+.+.  ....+. .+.+. .+..+..+  ...++..+...    .   --.+...+..
T Consensus       102 ~~~~~v~l~G~pGsGKTTLl~~l~~~--l~~~~~-~~VI~-gD~~t~~D--a~rI~~~g~pvvqi~tG~~Chl~a~mv~~  175 (290)
T PRK10463        102 RKQLVLNLVSSPGSGKTTLLTETLMR--LKDSVP-CAVIE-GDQQTVND--AARIRATGTPAIQVNTGKGCHLDAQMIAD  175 (290)
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHHH--hccCCC-EEEEC-CCcCcHHH--HHHHHhcCCcEEEecCCCCCcCcHHHHHH
Confidence            46899999999999999999998874  333332 22222 11112211  12233333221    1   0122344455


Q ss_pred             HHHHhcCCceEEEEecCCCC
Q 036619          282 RIQSSIKGKKNFLVLDDVWD  301 (352)
Q Consensus       282 ~l~~~l~~kr~LlVlDdvw~  301 (352)
                      .+..+....-=+||++++.+
T Consensus       176 Al~~L~~~~~d~liIEnvGn  195 (290)
T PRK10463        176 AAPRLPLDDNGILFIENVGN  195 (290)
T ss_pred             HHHHHhhcCCcEEEEECCCC
Confidence            55555444446788999864

>PRK08927 fliI flagellum-specific ATP synthase; Validated

Probab=95.59  E-value=0.067  Score=50.90  Aligned_cols=85  Identities=16%  Similarity=0.185  Sum_probs=49.7

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCC-HHHHHHHHHHHhCCC-------CCCcccH-----H
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFD-QIRIAKAIIEGLGKS-------ASGLNEF-----Q  277 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~-~~~~~~~i~~~l~~~-------~~~~~~~-----~  277 (352)
                      -..++|+|..|+|||||++.+++...    .+.++.+-+..... +..+..+.+..-+..       ..+....     .
T Consensus       158 Gqri~I~G~sG~GKTtLL~~I~~~~~----~d~~v~~~iGER~rEv~ef~~~~l~~~~l~rsvvv~atsd~~~~~r~~a~  233 (442)
T PRK08927        158 GQRMGIFAGSGVGKSVLLSMLARNAD----ADVSVIGLIGERGREVQEFLQDDLGPEGLARSVVVVATSDEPALMRRQAA  233 (442)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhccC----CCEEEEEEEecCcHHHHHHHHHHhhccCceeEEEEEECCCCCHHHHHHHH
Confidence            46789999999999999999987421    23455555555443 334444444322111       0011111     1


Q ss_pred             HHHHHHHHhc--CCceEEEEecCC
Q 036619          278 SLMSRIQSSI--KGKKNFLVLDDV  299 (352)
Q Consensus       278 ~~~~~l~~~l--~~kr~LlVlDdv  299 (352)
                      ...-.+.+++  +++..||++||+
T Consensus       234 ~~a~tiAEyfrd~G~~Vll~~Dsl  257 (442)
T PRK08927        234 YLTLAIAEYFRDQGKDVLCLMDSV  257 (442)
T ss_pred             HHHHHHHHHHHHCCCcEEEEEeCc
Confidence            1223344444  689999999999

>PRK15115 response regulator GlrR; Provisional

Probab=95.59  E-value=0.053  Score=52.24  Aligned_cols=133  Identities=18%  Similarity=0.134  Sum_probs=66.6

Q ss_pred             ccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHH
Q 036619          185 EVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIE  264 (352)
Q Consensus       185 ~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~  264 (352)
                      .++|....+.++.+....-.    ..-..+.|.|.+|+|||+||+.+.+... + .-..-+.+++..- + ...+...  
T Consensus       135 ~lig~s~~~~~~~~~~~~~a----~~~~~vli~Ge~GtGk~~lA~~ih~~s~-r-~~~~f~~i~c~~~-~-~~~~~~~--  204 (444)
T PRK15115        135 AIVTRSPLMLRLLEQARMVA----QSDVSVLINGQSGTGKEILAQAIHNASP-R-ASKPFIAINCGAL-P-EQLLESE--  204 (444)
T ss_pred             cccccCHHHHHHHHHHHhhc----cCCCeEEEEcCCcchHHHHHHHHHHhcC-C-CCCCeEEEeCCCC-C-HHHHHHH--
Confidence            46776666666665543322    1123456999999999999999987421 1 1112223333321 1 2222221  


Q ss_pred             HhCCCCCCc-ccHHHHHHHHHHhcCCceEEEEecCCCCCCccChhHHHHhhccCC-----------CCcEEEEecCCh
Q 036619          265 GLGKSASGL-NEFQSLMSRIQSSIKGKKNFLVLDDVWDGDYNKWQPFFRCLKNGL-----------HGSKILVTTRNE  330 (352)
Q Consensus       265 ~l~~~~~~~-~~~~~~~~~l~~~l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~-----------~gs~IivTTR~~  330 (352)
                       +.+...+. .....  ...........-.|+||++..........|...+..+.           ...+||.||..+
T Consensus       205 -lfg~~~~~~~~~~~--~~~g~~~~a~~gtl~l~~i~~l~~~~q~~L~~~l~~~~~~~~g~~~~~~~~~rii~~~~~~  279 (444)
T PRK15115        205 -LFGHARGAFTGAVS--NREGLFQAAEGGTLFLDEIGDMPAPLQVKLLRVLQERKVRPLGSNRDIDIDVRIISATHRD  279 (444)
T ss_pred             -hcCCCcCCCCCCcc--CCCCcEEECCCCEEEEEccccCCHHHHHHHHHHHhhCCEEeCCCCceeeeeEEEEEeCCCC
Confidence             11111000 00000  00000011223479999998766556677777776432           134788887654

>COG0194 Gmk Guanylate kinase [Nucleotide transport and metabolism]

Probab=95.56  E-value=0.016  Score=47.91  Aligned_cols=24  Identities=33%  Similarity=0.505  Sum_probs=21.8

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..++.|.|+.|+|||||++.++.+
T Consensus         4 G~l~vlsgPSG~GKsTl~k~L~~~   27 (191)
T COG0194           4 GLLIVLSGPSGVGKSTLVKALLED   27 (191)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhh
Confidence            467889999999999999999985

>PRK13947 shikimate kinase; Provisional

Probab=95.56  E-value=0.01  Score=49.08  Aligned_cols=22  Identities=36%  Similarity=0.520  Sum_probs=19.7

Q ss_pred             EEEEEecCCCcHHHHHHHHHhh
Q 036619          213 VISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .|.|+|++|+||||+|+.+.+.
T Consensus         3 ~I~l~G~~GsGKst~a~~La~~   24 (171)
T PRK13947          3 NIVLIGFMGTGKTTVGKRVATT   24 (171)
T ss_pred             eEEEEcCCCCCHHHHHHHHHHH
Confidence            4789999999999999999874

>COG0541 Ffh Signal recognition particle GTPase [Intracellular trafficking and secretion]

Probab=95.55  E-value=0.19  Score=47.18  Aligned_cols=73  Identities=34%  Similarity=0.352  Sum_probs=43.7

Q ss_pred             HHHHHHHHcCcccc---CCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCC--HHHHHHHHHHHhC
Q 036619          193 KSELFSKLLCESSE---QQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFD--QIRIAKAIIEGLG  267 (352)
Q Consensus       193 ~~~l~~~L~~~~~~---~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~--~~~~~~~i~~~l~  267 (352)
                      .++|++.|-.....   ....+.||-.+|.-|.||||.+-++.+..  +. .....-+...+.+.  .-+-++.+.++++
T Consensus        79 ~eELv~llG~~~~~~~l~~~~P~vImmvGLQGsGKTTt~~KLA~~l--kk-~~~kvllVaaD~~RpAA~eQL~~La~q~~  155 (451)
T COG0541          79 YEELVKLLGGENSELNLAKKPPTVILMVGLQGSGKTTTAGKLAKYL--KK-KGKKVLLVAADTYRPAAIEQLKQLAEQVG  155 (451)
T ss_pred             HHHHHHHhCCCCcccccCCCCCeEEEEEeccCCChHhHHHHHHHHH--HH-cCCceEEEecccCChHHHHHHHHHHHHcC
Confidence            34556655431111   12457999999999999999997777642  33 33344444444433  3355666777665


Q ss_pred             C
Q 036619          268 K  268 (352)
Q Consensus       268 ~  268 (352)
                      .
T Consensus       156 v  156 (451)
T COG0541         156 V  156 (451)
T ss_pred             C
Confidence            4

>COG2401 ABC-type ATPase fused to a predicted acetyltransferase domain [General function prediction only]

Probab=95.55  E-value=0.022  Score=52.90  Aligned_cols=158  Identities=16%  Similarity=0.210  Sum_probs=83.7

Q ss_pred             CccccccchHHHHHHHHcCccc-----------cCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhcc--CC---eEE--
Q 036619          184 GEVCGRVDEKSELFSKLLCESS-----------EQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRN--FE---KVI--  245 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~-----------~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~--F~---~~~--  245 (352)
                      -+..|-..+...|.+.+-....           -....-.++.|+|..|+|||||.+.+.........  |.   ..+  
T Consensus       371 ld~~~lp~e~~~IleSFGv~~r~ieryvlr~vNL~ikpGdvvaVvGqSGaGKttllRmi~G~~~~~~ee~y~p~sg~v~v  450 (593)
T COG2401         371 LDIKGLPNEFQDILESFGVRQRVIERYVLRNLNLEIKPGDVVAVVGQSGAGKTTLLRMILGAQKGRGEEKYRPDSGKVEV  450 (593)
T ss_pred             eecccCChHHHHHHHHhcchheeeeeeeeeceeeEecCCCeEEEEecCCCCcchHHHHHHHHhhcccccccCCCCCceec
Confidence            3455666666666665532211           01233468899999999999999998864222111  10   011  


Q ss_pred             -------EEEe--CCCCCHHHHHHHHHHHhCC-------------CCC--------CcccHHHHHHHHHHhcCCceEEEE
Q 036619          246 -------WVCV--SDTFDQIRIAKAIIEGLGK-------------SAS--------GLNEFQSLMSRIQSSIKGKKNFLV  295 (352)
Q Consensus       246 -------wv~v--s~~~~~~~~~~~i~~~l~~-------------~~~--------~~~~~~~~~~~l~~~l~~kr~LlV  295 (352)
                             -+.-  ...++-..++.++.+..+.             ...        ...+.+.-..+|...+.++.-+++
T Consensus       451 p~nt~~a~iPge~Ep~f~~~tilehl~s~tGD~~~AveILnraGlsDAvlyRr~f~ELStGQKeR~KLAkllaerpn~~~  530 (593)
T COG2401         451 PKNTVSALIPGEYEPEFGEVTILEHLRSKTGDLNAAVEILNRAGLSDAVLYRRKFSELSTGQKERAKLAKLLAERPNVLL  530 (593)
T ss_pred             cccchhhccCcccccccCchhHHHHHhhccCchhHHHHHHHhhccchhhhhhccHhhcCcchHHHHHHHHHHhcCCCcEE
Confidence                   1111  1122322344433332222             110        112223334667788888888999


Q ss_pred             ecCCCCCCc-cChhHHHHhhccC--CCCcEEEEecCChHHHHHhCCCCe
Q 036619          296 LDDVWDGDY-NKWQPFFRCLKNG--LHGSKILVTTRNESVARMMGSTDI  341 (352)
Q Consensus       296 lDdvw~~~~-~~~~~l~~~l~~~--~~gs~IivTTR~~~va~~~~~~~~  341 (352)
                      .|.....-+ -.-..+..-+...  ..|+.+++.|+++++-+.+.+...
T Consensus       531 iDEF~AhLD~~TA~rVArkiselaRe~giTlivvThrpEv~~AL~PD~l  579 (593)
T COG2401         531 IDEFAAHLDELTAVRVARKISELAREAGITLIVVTHRPEVGNALRPDTL  579 (593)
T ss_pred             hhhhhhhcCHHHHHHHHHHHHHHHHHhCCeEEEEecCHHHHhccCCcee
Confidence            998754311 1111222223221  258889999999999988766443

>PRK14530 adenylate kinase; Provisional

Probab=95.55  E-value=0.01  Score=51.18  Aligned_cols=22  Identities=32%  Similarity=0.329  Sum_probs=19.9

Q ss_pred             EEEEEecCCCcHHHHHHHHHhh
Q 036619          213 VISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .|.|+|++|+||||+|+.+...
T Consensus         5 ~I~i~G~pGsGKsT~~~~La~~   26 (215)
T PRK14530          5 RILLLGAPGAGKGTQSSNLAEE   26 (215)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            5889999999999999999864

>PRK14264 phosphate ABC transporter ATP-binding protein; Provisional

Probab=95.54  E-value=0.13  Score=46.84  Aligned_cols=24  Identities=29%  Similarity=0.410  Sum_probs=21.3

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      -.+++|+|..|.|||||.+.++..
T Consensus        71 Ge~~~IvG~nGsGKSTLl~~L~Gl   94 (305)
T PRK14264         71 KSVTALIGPSGCGKSTFLRCLNRM   94 (305)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcc
Confidence            468999999999999999999753

>TIGR00041 DTMP_kinase thymidylate kinase

Probab=95.53  E-value=0.11  Score=43.90  Aligned_cols=24  Identities=38%  Similarity=0.405  Sum_probs=21.5

Q ss_pred             EEEEEEecCCCcHHHHHHHHHhhh
Q 036619          212 QVISLVGLGGIGKTTLAQLAYNND  235 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~  235 (352)
                      ..|+|.|..|+||||+++.+.+..
T Consensus         4 ~~IvieG~~GsGKsT~~~~L~~~l   27 (195)
T TIGR00041         4 MFIVIEGIDGAGKTTQANLLKKLL   27 (195)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHH
Confidence            579999999999999999998753

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.

>PRK15453 phosphoribulokinase; Provisional

Probab=95.53  E-value=0.09  Score=46.89  Aligned_cols=78  Identities=18%  Similarity=0.170  Sum_probs=43.8

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCC-eEEEEEeCCCC--CHHHHHHHHH--HHhCC--C--CCCcccHHHH
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFE-KVIWVCVSDTF--DQIRIAKAII--EGLGK--S--ASGLNEFQSL  279 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~-~~~wv~vs~~~--~~~~~~~~i~--~~l~~--~--~~~~~~~~~~  279 (352)
                      .+..+|+|.|.+|+||||+++.+.+.  .. +.. ..+.++...-.  +....-..+.  +.-+.  .  .+...+.+.+
T Consensus         3 ~k~piI~ItG~SGsGKTTva~~l~~i--f~-~~~~~~~vi~~D~yh~ydr~~~~~~~~~~~r~g~nfdhf~PdAnd~dlL   79 (290)
T PRK15453          3 AKHPIIAVTGSSGAGTTTVKRAFEKI--FR-RENINAAVVEGDSFHRYTRPEMKAAIAKARAAGRHFSHFGPEANLFDEL   79 (290)
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHH--Hh-hcCCCeEEEecccccccChhhHhhhhHHHHhcCCCCCCCCCCcccHHHH
Confidence            45689999999999999999988852  21 112 23444433322  3222222111  11111  1  2455667778


Q ss_pred             HHHHHHhcCC
Q 036619          280 MSRIQSSIKG  289 (352)
Q Consensus       280 ~~~l~~~l~~  289 (352)
                      .+.++.+.++
T Consensus        80 ~~~l~~l~~~   89 (290)
T PRK15453         80 EQLFREYGET   89 (290)
T ss_pred             HHHHHHHhcC
Confidence            8888777653

>cd00046 DEXDc DEAD-like helicases superfamily

Probab=95.52  E-value=0.076  Score=41.34  Aligned_cols=37  Identities=22%  Similarity=0.046  Sum_probs=25.7

Q ss_pred             EEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEe
Q 036619          213 VISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCV  249 (352)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~v  249 (352)
                      .+.|.|..|.|||+.+...............++|++-
T Consensus         2 ~~~i~~~~G~GKT~~~~~~~~~~~~~~~~~~~lv~~p   38 (144)
T cd00046           2 DVLLAAPTGSGKTLAALLPILELLDSLKGGQVLVLAP   38 (144)
T ss_pred             CEEEECCCCCchhHHHHHHHHHHHhcccCCCEEEEcC
Confidence            3678999999999999777665333334456666643

A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.

>COG1428 Deoxynucleoside kinases [Nucleotide transport and metabolism]

Probab=95.52  E-value=0.011  Score=50.01  Aligned_cols=24  Identities=42%  Similarity=0.504  Sum_probs=22.0

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..+|+|-||=|+||||||+.+.++
T Consensus         4 ~~~IvI~G~IG~GKSTLa~~La~~   27 (216)
T COG1428           4 AMVIVIEGMIGAGKSTLAQALAEH   27 (216)
T ss_pred             ccEEEEecccccCHHHHHHHHHHH
Confidence            478999999999999999999885

>PRK13657 cyclic beta-1,2-glucan ABC transporter; Provisional

Probab=95.52  E-value=0.16  Score=50.88  Aligned_cols=24  Identities=38%  Similarity=0.481  Sum_probs=21.0

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      -..++|+|..|.|||||++.+..-
T Consensus       361 G~~v~IvG~sGsGKSTLl~lL~gl  384 (588)
T PRK13657        361 GQTVAIVGPTGAGKSTLINLLQRV  384 (588)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcC
Confidence            467999999999999999988753

>PRK10078 ribose 1,5-bisphosphokinase; Provisional

Probab=95.51  E-value=0.011  Score=49.67  Aligned_cols=23  Identities=30%  Similarity=0.433  Sum_probs=20.5

Q ss_pred             EEEEEEecCCCcHHHHHHHHHhh
Q 036619          212 QVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .++.|+|+.|+|||||++.+...
T Consensus         3 ~~i~l~G~sGsGKsTl~~~l~~~   25 (186)
T PRK10078          3 KLIWLMGPSGSGKDSLLAALRQR   25 (186)
T ss_pred             cEEEEECCCCCCHHHHHHHHhcc
Confidence            36889999999999999999764

>COG2274 SunT ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]

Probab=95.51  E-value=0.26  Score=50.15  Aligned_cols=23  Identities=35%  Similarity=0.536  Sum_probs=20.7

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYN  233 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~  233 (352)
                      -..++|+|..|+|||||++.+..
T Consensus       499 Ge~vaIvG~SGsGKSTL~KLL~g  521 (709)
T COG2274         499 GEKVAIVGRSGSGKSTLLKLLLG  521 (709)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhc
Confidence            46899999999999999998875

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

Probab=95.51  E-value=0.037  Score=52.08  Aligned_cols=51  Identities=22%  Similarity=0.233  Sum_probs=36.9

Q ss_pred             CccccccchHHHHHHHHcCc--------cccCCCCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          184 GEVCGRVDEKSELFSKLLCE--------SSEQQNGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~--------~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..++|.++.+..+...+...        ..........+.++|++|+|||+||+.+...
T Consensus        15 ~~IiGQe~AkkalavAl~~~~~r~~l~~~~~~e~~~~~ILliGp~G~GKT~LAr~LAk~   73 (443)
T PRK05201         15 KYIIGQDDAKRAVAIALRNRWRRMQLPEELRDEVTPKNILMIGPTGVGKTEIARRLAKL   73 (443)
T ss_pred             cccCCHHHHHHHHHHHHHHHHHHhcCCcccccccCCceEEEECCCCCCHHHHHHHHHHH
Confidence            46889888888887777431        1000112467899999999999999999874

>COG1131 CcmA ABC-type multidrug transport system, ATPase component [Defense mechanisms]

Probab=95.50  E-value=0.25  Score=44.75  Aligned_cols=24  Identities=33%  Similarity=0.473  Sum_probs=21.8

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      -.++++.|+.|.|||||.+.+..-
T Consensus        31 Gei~gllG~NGAGKTTllk~l~gl   54 (293)
T COG1131          31 GEIFGLLGPNGAGKTTLLKILAGL   54 (293)
T ss_pred             CeEEEEECCCCCCHHHHHHHHhCC
Confidence            469999999999999999999874

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

Probab=95.49  E-value=0.016  Score=48.58  Aligned_cols=37  Identities=32%  Similarity=0.417  Sum_probs=27.7

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEe
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCV  249 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~v  249 (352)
                      .+++.|+|+.|+|||||++.+...  ....|...++.+-
T Consensus         2 ~r~ivl~Gpsg~GK~~l~~~L~~~--~~~~~~~~v~~TT   38 (183)
T PF00625_consen    2 RRPIVLVGPSGSGKSTLAKRLIQE--FPDKFGRVVSHTT   38 (183)
T ss_dssp             SSEEEEESSTTSSHHHHHHHHHHH--STTTEEEEEEEES
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHh--cccccccceeecc
Confidence            367889999999999999999873  3455654444443

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 ....

>cd00071 GMPK Guanosine monophosphate kinase (GMPK, EC 2

Probab=95.49  E-value=0.01  Score=47.24  Aligned_cols=21  Identities=38%  Similarity=0.586  Sum_probs=19.2

Q ss_pred             EEEEecCCCcHHHHHHHHHhh
Q 036619          214 ISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       214 i~I~G~~GiGKTtLa~~v~~~  234 (352)
                      +.|+|+.|+|||||++.+...
T Consensus         2 i~i~GpsGsGKstl~~~L~~~   22 (137)
T cd00071           2 IVLSGPSGVGKSTLLKRLLEE   22 (137)
T ss_pred             EEEECCCCCCHHHHHHHHHhc
Confidence            689999999999999999874

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.

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

Probab=95.48  E-value=0.011  Score=47.70  Aligned_cols=21  Identities=43%  Similarity=0.659  Sum_probs=19.0

Q ss_pred             EEEEecCCCcHHHHHHHHHhh
Q 036619          214 ISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       214 i~I~G~~GiGKTtLa~~v~~~  234 (352)
                      |.|+|++|+||||+|+.+...
T Consensus         2 i~l~G~~GsGKstla~~la~~   22 (154)
T cd00464           2 IVLIGMMGAGKTTVGRLLAKA   22 (154)
T ss_pred             EEEEcCCCCCHHHHHHHHHHH
Confidence            679999999999999999864

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.

>PRK13409 putative ATPase RIL; Provisional

Probab=95.48  E-value=0.16  Score=50.74  Aligned_cols=125  Identities=18%  Similarity=0.177  Sum_probs=65.0

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhhhhhh-cc--CCe-EEEEEeCCC------CCHHHHH-------------HHHHHHhC
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNNDEVK-RN--FEK-VIWVCVSDT------FDQIRIA-------------KAIIEGLG  267 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~-~~--F~~-~~wv~vs~~------~~~~~~~-------------~~i~~~l~  267 (352)
                      -.+++|+|+.|+|||||++.+....... ..  |+. +.+  +.+.      .++.+.+             .++++.++
T Consensus       365 Geiv~l~G~NGsGKSTLlk~L~Gl~~p~~G~I~~~~~i~y--~~Q~~~~~~~~tv~e~l~~~~~~~~~~~~~~~~L~~l~  442 (590)
T PRK13409        365 GEVIGIVGPNGIGKTTFAKLLAGVLKPDEGEVDPELKISY--KPQYIKPDYDGTVEDLLRSITDDLGSSYYKSEIIKPLQ  442 (590)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCCCCceEEEEeeeEEE--ecccccCCCCCcHHHHHHHHhhhcChHHHHHHHHHHCC
Confidence            3589999999999999999998642111 10  111 111  2222      1222221             22333333


Q ss_pred             CCC------CCcccHHHHHHHHHHhcCCceEEEEecCCCCC-CccChhHHHHhhccC--CCCcEEEEecCChHHHHHhC
Q 036619          268 KSA------SGLNEFQSLMSRIQSSIKGKKNFLVLDDVWDG-DYNKWQPFFRCLKNG--LHGSKILVTTRNESVARMMG  337 (352)
Q Consensus       268 ~~~------~~~~~~~~~~~~l~~~l~~kr~LlVlDdvw~~-~~~~~~~l~~~l~~~--~~gs~IivTTR~~~va~~~~  337 (352)
                      ...      ...+.-+.-.-.|...|....-+++||.--.. |...-..+...+..-  ..|..||++|.+...+..++
T Consensus       443 l~~~~~~~~~~LSGGe~QRvaiAraL~~~p~llLLDEPt~~LD~~~~~~l~~~l~~l~~~~g~tviivsHD~~~~~~~a  521 (590)
T PRK13409        443 LERLLDKNVKDLSGGELQRVAIAACLSRDADLYLLDEPSAHLDVEQRLAVAKAIRRIAEEREATALVVDHDIYMIDYIS  521 (590)
T ss_pred             CHHHHhCCcccCCHHHHHHHHHHHHHhcCCCEEEEeCCccCCCHHHHHHHHHHHHHHHHhCCCEEEEEeCCHHHHHHhC
Confidence            210      01122222233355566677889999986432 223333444444432  23556888998877665543

>PRK14527 adenylate kinase; Provisional

Probab=95.48  E-value=0.013  Score=49.56  Aligned_cols=25  Identities=28%  Similarity=0.323  Sum_probs=22.3

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ...+|.|+|++|+||||+|+.+.+.
T Consensus         5 ~~~~i~i~G~pGsGKsT~a~~La~~   29 (191)
T PRK14527          5 KNKVVIFLGPPGAGKGTQAERLAQE   29 (191)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHH
Confidence            4678999999999999999999864

>PF06414 Zeta_toxin: Zeta toxin; InterPro: IPR010488 This entry represents a domain originally identified in bacterial zeta toxin proteins, where it comprises the whole protein []

Probab=95.47  E-value=0.034  Score=47.33  Aligned_cols=120  Identities=13%  Similarity=0.093  Sum_probs=54.6

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCC--CcccHHHHHHHHHHh
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSAS--GLNEFQSLMSRIQSS  286 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~--~~~~~~~~~~~l~~~  286 (352)
                      ..+.++.+.|.+|.||||++..+.....    ....+.|+...--....-...+...-.....  .......+...+.+.
T Consensus        13 ~~P~~~i~aG~~GsGKSt~~~~~~~~~~----~~~~v~i~~D~~r~~~p~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~   88 (199)
T PF06414_consen   13 EKPTLIIIAGQPGSGKSTLARQLLEEFG----GGGIVVIDADEFRQFHPDYDELLKADPDEASELTQKEASRLAEKLIEY   88 (199)
T ss_dssp             SS-EEEEEES-TTSTTHHHHHHHHHHT-----TT-SEEE-GGGGGGGSTTHHHHHHHHCCCTHHHHHHHHHHHHHHHHHH
T ss_pred             cCCEEEEEeCCCCCCHHHHHHHhhhhcc----CCCeEEEehHHHHHhccchhhhhhhhhhhhHHHHHHHHHHHHHHHHHH
Confidence            5688999999999999999998876421    2345555433211100111112221111000  011234456666666


Q ss_pred             cCCceEEEEecCCCCCCccChhHHHHhhccCCCCcEEEEecCChHHH
Q 036619          287 IKGKKNFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKILVTTRNESVA  333 (352)
Q Consensus       287 l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTTR~~~va  333 (352)
                      .-.+++=||+|..-.. .+....+...+...+-...|++..-+++++
T Consensus        89 a~~~~~nii~E~tl~~-~~~~~~~~~~~k~~GY~v~l~~v~~~~e~s  134 (199)
T PF06414_consen   89 AIENRYNIIFEGTLSN-PSKLRKLIREAKAAGYKVELYYVAVPPELS  134 (199)
T ss_dssp             HHHCT--EEEE--TTS-SHHHHHHHHHHHCTT-EEEEEEE---HHHH
T ss_pred             HHHcCCCEEEecCCCC-hhHHHHHHHHHHcCCceEEEEEEECCHHHH
Confidence            6677888888987443 123333556666543333343333344443

It has subsequently been found in a number of other proteins, such as polynucleotide kinase and 2',3'-cyclic-nucleotide 3'-phosphodiesterase. It appears to function as a kinase domain [, ].; GO: 0005524 ATP binding, 0016301 kinase activity; PDB: 2P5T_H 1GVN_B 3Q8X_D.

>TIGR02524 dot_icm_DotB Dot/Icm secretion system ATPase DotB

Probab=95.46  E-value=0.049  Score=50.76  Aligned_cols=109  Identities=16%  Similarity=0.244  Sum_probs=56.8

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhhhhhhccCC---eEEEEEeCCCC--CHHHHHH--HHHHHhCCCCCCcccHHHHHHHH
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNNDEVKRNFE---KVIWVCVSDTF--DQIRIAK--AIIEGLGKSASGLNEFQSLMSRI  283 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~---~~~wv~vs~~~--~~~~~~~--~i~~~l~~~~~~~~~~~~~~~~l  283 (352)
                      -..+.|+|+.|+||||+++.+.+.  +....+   .++.  +.++.  ....+..  ..+.+   .. ...+.......+
T Consensus       134 ~glilI~GpTGSGKTTtL~aLl~~--i~~~~~~~~~Ivt--~EdpiE~~~~~~~~~~~~v~Q---~~-v~~~~~~~~~~l  205 (358)
T TIGR02524       134 EGIVFITGATGSGKSTLLAAIIRE--LAEAPDSHRKILT--YEAPIEFVYDEIETISASVCQ---SE-IPRHLNNFAAGV  205 (358)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHH--HhhcCCCCcEEEE--eCCCceEeccccccccceeee---ee-ccccccCHHHHH
Confidence            478999999999999999888763  221111   2222  22222  1111100  00001   00 011122345667


Q ss_pred             HHhcCCceEEEEecCCCCCCccChhHHHHhhccCCCCcEEEEecCChHH
Q 036619          284 QSSIKGKKNFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKILVTTRNESV  332 (352)
Q Consensus       284 ~~~l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTTR~~~v  332 (352)
                      +..|......|++..+.+.     +.+..++.....|..|+-|-...++
T Consensus       206 ~~aLR~~Pd~i~vGEiRd~-----et~~~al~aa~tGh~v~tTlHa~~~  249 (358)
T TIGR02524       206 RNALRRKPHAILVGEARDA-----ETISAALEAALTGHPVYTTLHSSGV  249 (358)
T ss_pred             HHHhccCCCEEeeeeeCCH-----HHHHHHHHHHHcCCcEEEeeccCCH
Confidence            7788888889999988443     3333344433346555555555443

Members of this protein family are the DotB component of Dot/Icm secretion systems, as found in obligate intracellular pathogens Legionella pneumophila and Coxiella burnetii. While this system resembles type IV secretion systems and has been called a form of type IV, the liturature now seems to favor calling this the Dot/Icm system. This family is most closely related to TraJ proteins of plasmid transfer, rather than to proteins of other type IV secretion systems.

>TIGR00416 sms DNA repair protein RadA

Probab=95.46  E-value=0.1  Score=50.29  Aligned_cols=85  Identities=21%  Similarity=0.216  Sum_probs=49.3

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCC-----CcccHHHHHHHH
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSAS-----GLNEFQSLMSRI  283 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~-----~~~~~~~~~~~l  283 (352)
                      ..-.++.|.|.+|+|||||+.++.... ... -..++|++....  ...+.. -+..++....     ...+.+.+...+
T Consensus        92 ~~GsvilI~G~pGsGKTTL~lq~a~~~-a~~-g~kvlYvs~EEs--~~qi~~-ra~rlg~~~~~l~~~~e~~~~~I~~~i  166 (454)
T TIGR00416        92 VPGSLILIGGDPGIGKSTLLLQVACQL-AKN-QMKVLYVSGEES--LQQIKM-RAIRLGLPEPNLYVLSETNWEQICANI  166 (454)
T ss_pred             cCCeEEEEEcCCCCCHHHHHHHHHHHH-Hhc-CCcEEEEECcCC--HHHHHH-HHHHcCCChHHeEEcCCCCHHHHHHHH
Confidence            446789999999999999998876542 222 235777776543  333322 1233332211     123445444444


Q ss_pred             HHhcCCceEEEEecCCCC
Q 036619          284 QSSIKGKKNFLVLDDVWD  301 (352)
Q Consensus       284 ~~~l~~kr~LlVlDdvw~  301 (352)
                      .+   .+.-++|+|.+..
T Consensus       167 ~~---~~~~~vVIDSIq~  181 (454)
T TIGR00416       167 EE---ENPQACVIDSIQT  181 (454)
T ss_pred             Hh---cCCcEEEEecchh
Confidence            33   3455899999854

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)).

>PRK15439 autoinducer 2 ABC transporter ATP-binding protein LsrA; Provisional

Probab=95.46  E-value=0.2  Score=49.30  Aligned_cols=24  Identities=33%  Similarity=0.415  Sum_probs=21.3

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      -.+++|+|+.|+|||||.+.++.-
T Consensus        37 Ge~~~liG~NGsGKSTLl~~l~Gl   60 (510)
T PRK15439         37 GEVHALLGGNGAGKSTLMKIIAGI   60 (510)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            468999999999999999999763

>TIGR02857 CydD thiol reductant ABC exporter, CydD subunit

Probab=95.45  E-value=0.23  Score=48.99  Aligned_cols=25  Identities=36%  Similarity=0.444  Sum_probs=21.7

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      +-..++|+|+.|.|||||++.+..-
T Consensus       347 ~G~~~~ivG~sGsGKSTL~~ll~g~  371 (529)
T TIGR02857       347 PGERVALVGPSGAGKSTLLNLLLGF  371 (529)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcC
Confidence            3568999999999999999988763

Unfortunately, the gene symbol nomenclature adopted based on this operon in B. subtilis assigns cydC to the third gene in the operon where this gene is actually homologous to the E. coli cydD gene. We have chosen to name all homologs in this family in accordance with the precedence of publication of the E. coli name, CydD

>TIGR03375 type_I_sec_LssB type I secretion system ATPase, LssB family

Probab=95.45  E-value=0.16  Score=51.89  Aligned_cols=24  Identities=29%  Similarity=0.400  Sum_probs=21.1

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      -..++|+|..|.|||||++.+..-
T Consensus       491 G~~iaIvG~sGsGKSTLlklL~gl  514 (694)
T TIGR03375       491 GEKVAIIGRIGSGKSTLLKLLLGL  514 (694)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcC
Confidence            467999999999999999988753

Type I protein secretion is a system in some Gram-negative bacteria to export proteins (often proteases) across both inner and outer membranes to the extracellular medium. This is one of three proteins of the type I secretion apparatus. Targeted proteins are not cleaved at the N-terminus, but rather carry signals located toward the extreme C-terminus to direct type I secretion. This model is related to models TIGR01842 and TIGR01846, and to bacteriocin ABC transporters that cleave their substrates during export.

>TIGR00176 mobB molybdopterin-guanine dinucleotide biosynthesis protein MobB

Probab=95.45  E-value=0.021  Score=46.56  Aligned_cols=36  Identities=25%  Similarity=0.257  Sum_probs=26.1

Q ss_pred             EEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEe
Q 036619          213 VISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCV  249 (352)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~v  249 (352)
                      |++|+|+.|+|||||+..+...-+ ...+...+.-+.
T Consensus         1 vi~i~G~~gsGKTtl~~~l~~~l~-~~G~~V~viK~~   36 (155)
T TIGR00176         1 VLQIVGPKNSGKTTLIERLVKALK-ARGYRVATIKHD   36 (155)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHHH-hcCCeEEEEecc
Confidence            578999999999999999988432 234555554443

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.

>TIGR01069 mutS2 MutS2 family protein

Probab=95.44  E-value=0.027  Score=57.83  Aligned_cols=120  Identities=16%  Similarity=0.230  Sum_probs=60.0

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCC---Ccc----cHHHHHHHH
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSAS---GLN----EFQSLMSRI  283 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~---~~~----~~~~~~~~l  283 (352)
                      ..++.|+|+.|.|||||.+.+....-..   ...++|.+..... ...+.++...++....   ...    .+..+...+
T Consensus       322 ~~~liItGpNg~GKSTlLK~i~~~~l~a---q~G~~Vpa~~~~~-~~~~d~i~~~i~~~~si~~~LStfS~~m~~~~~il  397 (771)
T TIGR01069       322 KRVLAITGPNTGGKTVTLKTLGLLALMF---QSGIPIPANEHSE-IPYFEEIFADIGDEQSIEQNLSTFSGHMKNISAIL  397 (771)
T ss_pred             ceEEEEECCCCCCchHHHHHHHHHHHHH---HhCCCccCCcccc-ccchhheeeecChHhHHhhhhhHHHHHHHHHHHHH
Confidence            4789999999999999999887541111   1111222221100 0111222211111100   011    122222222


Q ss_pred             HHhcCCceEEEEecCCCCC-CccChhHHH-Hhhcc-CCCCcEEEEecCChHHHHHh
Q 036619          284 QSSIKGKKNFLVLDDVWDG-DYNKWQPFF-RCLKN-GLHGSKILVTTRNESVARMM  336 (352)
Q Consensus       284 ~~~l~~kr~LlVlDdvw~~-~~~~~~~l~-~~l~~-~~~gs~IivTTR~~~va~~~  336 (352)
                      ...  ..+-|++||..-.. +......+. ..+.. ...|+.+|+||...++....
T Consensus       398 ~~~--~~~sLvLlDE~g~GtD~~eg~ala~aiLe~l~~~g~~viitTH~~eL~~~~  451 (771)
T TIGR01069       398 SKT--TENSLVLFDELGAGTDPDEGSALAISILEYLLKQNAQVLITTHYKELKALM  451 (771)
T ss_pred             Hhc--CCCcEEEecCCCCCCCHHHHHHHHHHHHHHHHhcCCEEEEECChHHHHHHh
Confidence            222  57899999998653 222333332 22221 12478899999999886643

Function of MutS2 is unknown. It should not be considered a DNA mismatch repair protein. It is likely a DNA mismatch binding protein of unknown cellular function.

>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=95.43  E-value=0.024  Score=46.24  Aligned_cols=36  Identities=28%  Similarity=0.386  Sum_probs=29.5

Q ss_pred             cchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          190 VDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       190 ~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .+.+++|.++|.        + +++.++|..|+|||||...+...
T Consensus        23 ~~g~~~l~~~l~--------~-k~~vl~G~SGvGKSSLiN~L~~~   58 (161)
T PF03193_consen   23 GEGIEELKELLK--------G-KTSVLLGQSGVGKSSLINALLPE   58 (161)
T ss_dssp             TTTHHHHHHHHT--------T-SEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CcCHHHHHHHhc--------C-CEEEEECCCCCCHHHHHHHHHhh
Confidence            356777888773        3 67889999999999999999875

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.

>PLN02348 phosphoribulokinase

Probab=95.41  E-value=0.2  Score=46.81  Aligned_cols=26  Identities=31%  Similarity=0.390  Sum_probs=23.3

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ...-+|+|.|.+|+||||||+.+.+.
T Consensus        47 ~~p~IIGIaG~SGSGKSTfA~~L~~~   72 (395)
T PLN02348         47 DGTVVIGLAADSGCGKSTFMRRLTSV   72 (395)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            45789999999999999999999874

>TIGR02868 CydC thiol reductant ABC exporter, CydC subunit

Probab=95.40  E-value=0.14  Score=50.57  Aligned_cols=25  Identities=28%  Similarity=0.347  Sum_probs=21.8

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      +-..++|+|+.|.|||||++.+..-
T Consensus       360 ~G~~vaIvG~SGsGKSTLl~lL~g~  384 (529)
T TIGR02868       360 PGERVAILGPSGSGKSTLLMLLTGL  384 (529)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcC
Confidence            4578999999999999999999753

The gene pair cydCD encodes an ABC-family transporter in which each gene contains an N-terminal membrane-spanning domain (pfam00664) and a C-terminal ATP-binding domain (pfam00005). In E. coli these genes were discovered as mutants which caused the terminal heme-copper oxidase complex cytochrome bd to fail to assemble. Recent work has shown that the transporter is involved in export of redox-active thiol compounds such as cysteine and glutathione. The linkage to assembly of the cytochrome bd complex is further supported by the conserved operon structure found outside the gammaproteobacteria (cydABCD) containing both the transporter and oxidase genes components. The genes used as the seed members for this model are all either found in the gammproteobacterial context or the CydABCD context. All members of this family scoring above trusted at the time of its creation were from genomes which encode a cytochrome bd complex.

>PRK05800 cobU adenosylcobinamide kinase/adenosylcobinamide-phosphate guanylyltransferase; Validated

Probab=95.39  E-value=0.075  Score=43.98  Aligned_cols=80  Identities=15%  Similarity=0.237  Sum_probs=43.0

Q ss_pred             EEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCccc---HHHHHHHHHHhcCC
Q 036619          213 VISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSASGLNE---FQSLMSRIQSSIKG  289 (352)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~---~~~~~~~l~~~l~~  289 (352)
                      ++.|.|.+|+||||+|..+....  .   ...+++.....++. +....|.......+.....   ...+...+.....+
T Consensus         3 ~ili~G~~~sGKS~~a~~l~~~~--~---~~~~~iat~~~~~~-e~~~ri~~h~~~R~~~w~t~E~~~~l~~~i~~~~~~   76 (170)
T PRK05800          3 LILVTGGARSGKSRFAERLAAQS--G---LQVLYIATAQPFDD-EMAARIAHHRQRRPAHWQTVEEPLDLAELLRADAAP   76 (170)
T ss_pred             EEEEECCCCccHHHHHHHHHHHc--C---CCcEeCcCCCCChH-HHHHHHHHHHhcCCCCCeEecccccHHHHHHhhcCC
Confidence            57899999999999998887531  1   12334443333333 3444444443322222211   12344444443333


Q ss_pred             ceEEEEecCC
Q 036619          290 KKNFLVLDDV  299 (352)
Q Consensus       290 kr~LlVlDdv  299 (352)
                      . -++++|.+
T Consensus        77 ~-~~VlID~L   85 (170)
T PRK05800         77 G-RCVLVDCL   85 (170)
T ss_pred             C-CEEEehhH
Confidence            2 27889987

>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=95.38  E-value=0.013  Score=48.40  Aligned_cols=22  Identities=36%  Similarity=0.465  Sum_probs=18.6

Q ss_pred             EEEEecCCCcHHHHHHHHHhhh
Q 036619          214 ISLVGLGGIGKTTLAQLAYNND  235 (352)
Q Consensus       214 i~I~G~~GiGKTtLa~~v~~~~  235 (352)
                      |.|.|.+|+|||||++.+++..
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            6799999999999999998753

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.

>TIGR03305 alt_F1F0_F1_bet alternate F1F0 ATPase, F1 subunit beta

Probab=95.38  E-value=0.088  Score=50.23  Aligned_cols=88  Identities=14%  Similarity=0.125  Sum_probs=54.4

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCC-HHHHHHHHHHHhCCC-------CCCccc-----HH
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFD-QIRIAKAIIEGLGKS-------ASGLNE-----FQ  277 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~-~~~~~~~i~~~l~~~-------~~~~~~-----~~  277 (352)
                      -.-++|.|.+|+|||+|+..+..+.. +.+-+.++++-+..... +..+++++...-...       ..+...     .-
T Consensus       138 GQr~~Ifg~~G~GKt~l~~~~~~~~~-~~~~~v~V~~~iGeR~rEv~e~~~~~~~~~~l~rtvvv~~ts~~~~~~r~~~~  216 (449)
T TIGR03305       138 GGKAGLFGGAGVGKTVLLTEMIHNMV-GQHQGVSIFCGIGERCREGEELYREMKEAGVLDNTVMVFGQMNEPPGARFRVG  216 (449)
T ss_pred             CCEEEeecCCCCChhHHHHHHHHHHH-hcCCCEEEEEEeccCcHHHHHHHHHHhhccccceEEEEEeCCCCCHHHHHHHH
Confidence            35688999999999999988876532 33446888888766553 445555554431111       011111     11


Q ss_pred             HHHHHHHHhc---CCceEEEEecCC
Q 036619          278 SLMSRIQSSI---KGKKNFLVLDDV  299 (352)
Q Consensus       278 ~~~~~l~~~l---~~kr~LlVlDdv  299 (352)
                      ...-.+.+++   +++..||++||+
T Consensus       217 ~~a~tiAEyfrd~~G~~VLl~~Dsl  241 (449)
T TIGR03305       217 HTALTMAEYFRDDEKQDVLLLIDNI  241 (449)
T ss_pred             HHHHHHHHHHHHhcCCceEEEecCh
Confidence            2233455555   468999999999

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.

>TIGR00073 hypB hydrogenase accessory protein HypB

Probab=95.37  E-value=0.016  Score=49.71  Aligned_cols=26  Identities=38%  Similarity=0.567  Sum_probs=23.4

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      +++++|+++|..|+|||||..++...
T Consensus        20 ~~~~~i~~~G~~gsGKTTli~~l~~~   45 (207)
T TIGR00073        20 HGLVVLNFMSSPGSGKTTLIEKLIDN   45 (207)
T ss_pred             cCcEEEEEECCCCCCHHHHHHHHHHH
Confidence            46999999999999999999888764

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

>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=95.37  E-value=0.051  Score=45.80  Aligned_cols=23  Identities=39%  Similarity=0.523  Sum_probs=20.7

Q ss_pred             EEEEEecCCCcHHHHHHHHHhhh
Q 036619          213 VISLVGLGGIGKTTLAQLAYNND  235 (352)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~~  235 (352)
                      +|.|.|+.|+||||+++.+.+..
T Consensus         2 ~I~ieG~~GsGKtT~~~~L~~~l   24 (200)
T cd01672           2 FIVFEGIDGAGKTTLIELLAERL   24 (200)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            68899999999999999998753

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

>TIGR01313 therm_gnt_kin carbohydrate kinase, thermoresistant glucokinase family

Probab=95.37  E-value=0.011  Score=48.56  Aligned_cols=21  Identities=33%  Similarity=0.563  Sum_probs=18.5

Q ss_pred             EEEEecCCCcHHHHHHHHHhh
Q 036619          214 ISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       214 i~I~G~~GiGKTtLa~~v~~~  234 (352)
                      |.|+|++|+||||+|+.+...
T Consensus         1 i~l~G~~GsGKSTla~~l~~~   21 (163)
T TIGR01313         1 FVLMGVAGSGKSTIASALAHR   21 (163)
T ss_pred             CEEECCCCCCHHHHHHHHHHh
Confidence            468999999999999998874

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.

>PRK11650 ugpC glycerol-3-phosphate transporter ATP-binding subunit; Provisional

Probab=95.37  E-value=0.13  Score=48.03  Aligned_cols=24  Identities=38%  Similarity=0.476  Sum_probs=21.3

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      -.+++|+|+.|.|||||.+.+..-
T Consensus        30 Ge~~~llG~sGsGKSTLLr~iaGl   53 (356)
T PRK11650         30 GEFIVLVGPSGCGKSTLLRMVAGL   53 (356)
T ss_pred             CCEEEEECCCCCcHHHHHHHHHCC
Confidence            358999999999999999999864

>PRK11160 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed

Probab=95.36  E-value=0.18  Score=50.27  Aligned_cols=25  Identities=36%  Similarity=0.469  Sum_probs=21.8

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .-..++|+|+.|.|||||++.+...
T Consensus       365 ~G~~~aivG~sGsGKSTL~~ll~g~  389 (574)
T PRK11160        365 AGEKVALLGRTGCGKSTLLQLLTRA  389 (574)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcC
Confidence            3468999999999999999999764

>PRK13975 thymidylate kinase; Provisional

Probab=95.35  E-value=0.015  Score=49.27  Aligned_cols=23  Identities=39%  Similarity=0.557  Sum_probs=21.1

Q ss_pred             EEEEEEecCCCcHHHHHHHHHhh
Q 036619          212 QVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..|.|.|+.|+||||+++.+...
T Consensus         3 ~~I~ieG~~GsGKtT~~~~L~~~   25 (196)
T PRK13975          3 KFIVFEGIDGSGKTTQAKLLAEK   25 (196)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            57899999999999999999974

>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=95.35  E-value=0.058  Score=47.69  Aligned_cols=77  Identities=22%  Similarity=0.152  Sum_probs=42.6

Q ss_pred             EEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCC--HHHHHHHHHHHh----CCC--CCCcccHHHHHHHHH
Q 036619          213 VISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFD--QIRIAKAIIEGL----GKS--ASGLNEFQSLMSRIQ  284 (352)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~--~~~~~~~i~~~l----~~~--~~~~~~~~~~~~~l~  284 (352)
                      +|+|.|..|+||||+++.+...-  ...=...+.++...-..  -...-..+....    .-.  .+...+.+.+.+.++
T Consensus         1 IIgItG~SGSGKTTv~~~l~~~l--~~~g~~v~vI~~D~yyr~~r~~~~~~~~~a~~~~~nfdHf~PeAnd~dlL~~~l~   78 (277)
T cd02029           1 VIAVTGSSGAGTTTVKRAFEHIF--AREGIHPAVVEGDSFHRYERMEMKMAIAEALDAGRNFSHFGPEANLFDLLEELFR   78 (277)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHH--HhcCCceEEEeccccccCCchhHHHHHHHHhhcCCCCCCCCcccccHHHHHHHHH
Confidence            58999999999999999888632  21111234444333222  122222222221    111  245566777777887


Q ss_pred             HhcCCce
Q 036619          285 SSIKGKK  291 (352)
Q Consensus       285 ~~l~~kr  291 (352)
                      .+.+++.
T Consensus        79 ~L~~g~~   85 (277)
T cd02029          79 TYGETGR   85 (277)
T ss_pred             HHHcCCC
Confidence            7776543

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.

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

Probab=95.35  E-value=0.016  Score=46.95  Aligned_cols=24  Identities=33%  Similarity=0.666  Sum_probs=21.3

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .+++.|+|.+|+||||+.+.+...
T Consensus         4 ~kvvvitGVpGvGKTTVl~~~~~~   27 (189)
T COG2019           4 RKVVVITGVPGVGKTTVLKIALKE   27 (189)
T ss_pred             ceEEEEEcCCCCChHHHHHHHHHH
Confidence            689999999999999999887763

>PRK12339 2-phosphoglycerate kinase; Provisional

Probab=95.33  E-value=0.017  Score=49.10  Aligned_cols=24  Identities=21%  Similarity=0.393  Sum_probs=21.7

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..++.|.|.+|+||||+|+.+...
T Consensus         3 ~~~i~i~G~~G~GKst~a~~l~~~   26 (197)
T PRK12339          3 STIHFIGGIPGVGKTSISGYIARH   26 (197)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHh
Confidence            468999999999999999999874

>PRK14737 gmk guanylate kinase; Provisional

Probab=95.33  E-value=0.016  Score=48.72  Aligned_cols=25  Identities=20%  Similarity=0.336  Sum_probs=22.3

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ...+|.|+|++|+|||||++.+...
T Consensus         3 ~~~~ivl~GpsG~GK~tl~~~l~~~   27 (186)
T PRK14737          3 SPKLFIISSVAGGGKSTIIQALLEE   27 (186)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHhc
Confidence            4678999999999999999999874

>CHL00081 chlI Mg-protoporyphyrin IX chelatase

Probab=95.30  E-value=0.017  Score=53.35  Aligned_cols=45  Identities=18%  Similarity=0.267  Sum_probs=36.7

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      +.++|.++.+..|+..+.++.      +.-+.|.|..|+||||+|+.+++-
T Consensus        17 ~~ivGq~~~k~al~~~~~~p~------~~~vli~G~~GtGKs~~ar~~~~~   61 (350)
T CHL00081         17 TAIVGQEEMKLALILNVIDPK------IGGVMIMGDRGTGKSTTIRALVDL   61 (350)
T ss_pred             HHHhChHHHHHHHHHhccCCC------CCeEEEEcCCCCCHHHHHHHHHHH
Confidence            578999988888887776643      455669999999999999999764

>PLN02796 D-glycerate 3-kinase

Probab=95.30  E-value=0.13  Score=47.37  Aligned_cols=26  Identities=31%  Similarity=0.161  Sum_probs=23.1

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..+-+|+|.|..|+|||||++.+...
T Consensus        98 ~~pliIGI~G~sGSGKSTLa~~L~~l  123 (347)
T PLN02796         98 IPPLVIGISAPQGCGKTTLVFALVYL  123 (347)
T ss_pred             CCCEEEEEECCCCCcHHHHHHHHHHH
Confidence            45789999999999999999999864

>TIGR02329 propionate_PrpR propionate catabolism operon regulatory protein PrpR

Probab=95.30  E-value=0.053  Score=53.19  Aligned_cols=133  Identities=14%  Similarity=0.139  Sum_probs=70.9

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhh-hhhccCCeEEEEEeCCCCCHHHHHHHH
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNND-EVKRNFEKVIWVCVSDTFDQIRIAKAI  262 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~-~~~~~F~~~~wv~vs~~~~~~~~~~~i  262 (352)
                      ..++|....+.++.+.+..-.    ....-|.|.|..|+||+.+|+.+++.- +-...|   +-|++..-.  ...+.. 
T Consensus       212 ~~iiG~S~~m~~~~~~i~~~A----~~~~pVLI~GE~GTGKe~lA~~IH~~S~r~~~pf---v~inC~~l~--e~lles-  281 (526)
T TIGR02329       212 DDLLGASAPMEQVRALVRLYA----RSDATVLILGESGTGKELVAQAIHQLSGRRDFPF---VAINCGAIA--ESLLEA-  281 (526)
T ss_pred             hheeeCCHHHHHHHHHHHHHh----CCCCcEEEECCCCcCHHHHHHHHHHhcCcCCCCE---EEeccccCC--hhHHHH-
Confidence            358999888888888775433    223456799999999999999999742 112222   233433322  222222 


Q ss_pred             HHHhCCCCCCc-ccHHHHHHHHHHhc-CCceEEEEecCCCCCCccChhHHHHhhccCC---C--------CcEEEEecCC
Q 036619          263 IEGLGKSASGL-NEFQSLMSRIQSSI-KGKKNFLVLDDVWDGDYNKWQPFFRCLKNGL---H--------GSKILVTTRN  329 (352)
Q Consensus       263 ~~~l~~~~~~~-~~~~~~~~~l~~~l-~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~---~--------gs~IivTTR~  329 (352)
                        .+.+...+. ..... ... ..++ ....=.|+||++..........|...+..+.   -        ..|||.||..
T Consensus       282 --eLFG~~~gaftga~~-~~~-~Gl~e~A~gGTLfLdeI~~Lp~~~Q~~Ll~~L~~~~~~r~g~~~~~~~dvRiIaat~~  357 (526)
T TIGR02329       282 --ELFGYEEGAFTGARR-GGR-TGLIEAAHRGTLFLDEIGEMPLPLQTRLLRVLEEREVVRVGGTEPVPVDVRVVAATHC  357 (526)
T ss_pred             --HhcCCcccccccccc-ccc-ccchhhcCCceEEecChHhCCHHHHHHHHHHHhcCcEEecCCCceeeecceEEeccCC
Confidence              222211100 00000 000 0000 1233458999998766555667777775431   1        2378887754


Q ss_pred             h
Q 036619          330 E  330 (352)
Q Consensus       330 ~  330 (352)
                      .
T Consensus       358 ~  358 (526)
T TIGR02329       358 A  358 (526)
T ss_pred             C
Confidence            3

At least five distinct pathways exists for the catabolism of propionate by way of propionyl-CoA. Members of this family represent the transcriptional regulatory protein PrpR, whose gene is found in most cases divergently transcribed from an operon for the methylcitric acid cycle of propionate catabolism. 2-methylcitric acid, a catabolite by this pathway, is a coactivator of PrpR.

>PRK05057 aroK shikimate kinase I; Reviewed

Probab=95.29  E-value=0.015  Score=48.28  Aligned_cols=23  Identities=35%  Similarity=0.429  Sum_probs=20.6

Q ss_pred             EEEEEEecCCCcHHHHHHHHHhh
Q 036619          212 QVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..|.|+|+.|+|||||++.+...
T Consensus         5 ~~I~liG~~GaGKStl~~~La~~   27 (172)
T PRK05057          5 RNIFLVGPMGAGKSTIGRQLAQQ   27 (172)
T ss_pred             CEEEEECCCCcCHHHHHHHHHHH
Confidence            46889999999999999999874

>PRK09099 type III secretion system ATPase; Provisional

Probab=95.29  E-value=0.072  Score=50.83  Aligned_cols=86  Identities=17%  Similarity=0.220  Sum_probs=49.1

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCC-------CCCcccH-----HH
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKS-------ASGLNEF-----QS  278 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~-------~~~~~~~-----~~  278 (352)
                      -..++|+|..|+|||||.+.+......   -..+++..-.....+..+.+.+...-...       ..+....     ..
T Consensus       163 Gq~~~I~G~sG~GKTtLl~~ia~~~~~---d~~vi~~iGer~~ev~ef~~~~~~~~~l~rtvvv~~tsd~p~~~r~~a~~  239 (441)
T PRK09099        163 GQRMGIFAPAGVGKSTLMGMFARGTQC---DVNVIALIGERGREVREFIELILGEDGMARSVVVCATSDRSSIERAKAAY  239 (441)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCCC---CeEEEEEEccChHHHHHHHHHHhhcCCcceEEEEEECCCCCHHHHHHHHH
Confidence            468899999999999999999864321   12344433334444555555554432111       0011111     11


Q ss_pred             HHHHHHHhc--CCceEEEEecCC
Q 036619          279 LMSRIQSSI--KGKKNFLVLDDV  299 (352)
Q Consensus       279 ~~~~l~~~l--~~kr~LlVlDdv  299 (352)
                      ..-.+.+++  +++..||++||+
T Consensus       240 ~a~tiAEyfrd~G~~VLl~~Dsl  262 (441)
T PRK09099        240 VATAIAEYFRDRGLRVLLMMDSL  262 (441)
T ss_pred             HHHHHHHHHHHcCCCEEEeccch
Confidence            222344444  589999999998

>PRK15424 propionate catabolism operon regulatory protein PrpR; Provisional

Probab=95.27  E-value=0.049  Score=53.44  Aligned_cols=47  Identities=19%  Similarity=0.282  Sum_probs=36.7

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..++|....+.++.+.+..-.    ..-.-|.|.|..|+||+++|+.+++.
T Consensus       219 ~~iiG~S~~m~~~~~~i~~~A----~s~~pVLI~GE~GTGKe~~A~~IH~~  265 (538)
T PRK15424        219 GDLLGQSPQMEQVRQTILLYA----RSSAAVLIQGETGTGKELAAQAIHRE  265 (538)
T ss_pred             hheeeCCHHHHHHHHHHHHHh----CCCCcEEEECCCCCCHHHHHHHHHHh
Confidence            358999988888888775433    22345679999999999999999974

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

Probab=95.27  E-value=0.017  Score=50.25  Aligned_cols=52  Identities=21%  Similarity=0.222  Sum_probs=39.7

Q ss_pred             CccccccchHH---HHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhh
Q 036619          184 GEVCGRVDEKS---ELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNND  235 (352)
Q Consensus       184 ~~~~gr~~~~~---~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~  235 (352)
                      .+++|.++.+.   -|++.|.+++.=+.-.++-|..+|++|.|||.+|+.+.+..
T Consensus       121 ddViGqEeAK~kcrli~~yLenPe~Fg~WAPknVLFyGppGTGKTm~Akalane~  175 (368)
T COG1223         121 DDVIGQEEAKRKCRLIMEYLENPERFGDWAPKNVLFYGPPGTGKTMMAKALANEA  175 (368)
T ss_pred             hhhhchHHHHHHHHHHHHHhhChHHhcccCcceeEEECCCCccHHHHHHHHhccc
Confidence            46788876654   35667766554345668899999999999999999999853

>PRK11147 ABC transporter ATPase component; Reviewed

Probab=95.27  E-value=0.26  Score=49.84  Aligned_cols=54  Identities=20%  Similarity=0.284  Sum_probs=32.8

Q ss_pred             HHHHHhcCCceEEEEecCCCCC-CccChhHHHHhhccCCCCcEEEEecCChHHHHHh
Q 036619          281 SRIQSSIKGKKNFLVLDDVWDG-DYNKWQPFFRCLKNGLHGSKILVTTRNESVARMM  336 (352)
Q Consensus       281 ~~l~~~l~~kr~LlVlDdvw~~-~~~~~~~l~~~l~~~~~gs~IivTTR~~~va~~~  336 (352)
                      -.|...|-.+.=+|+||.--+. |...-..|...+... ++ .||++|.+......+
T Consensus       165 v~LAraL~~~P~lLLLDEPt~~LD~~~~~~L~~~L~~~-~~-tvlivsHd~~~l~~~  219 (635)
T PRK11147        165 AALGRALVSNPDVLLLDEPTNHLDIETIEWLEGFLKTF-QG-SIIFISHDRSFIRNM  219 (635)
T ss_pred             HHHHHHHhcCCCEEEEcCCCCccCHHHHHHHHHHHHhC-CC-EEEEEeCCHHHHHHh
Confidence            3344555566779999987543 223334455555543 24 588889888766543

>PRK11176 lipid transporter ATP-binding/permease protein; Provisional

Probab=95.27  E-value=0.21  Score=49.99  Aligned_cols=24  Identities=38%  Similarity=0.502  Sum_probs=21.0

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      -..++|+|..|.|||||++.+..-
T Consensus       369 G~~~aIvG~sGsGKSTLl~ll~gl  392 (582)
T PRK11176        369 GKTVALVGRSGSGKSTIANLLTRF  392 (582)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhc
Confidence            467999999999999999988764

>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=95.27  E-value=0.017  Score=45.74  Aligned_cols=23  Identities=30%  Similarity=0.517  Sum_probs=20.9

Q ss_pred             EEEEEEecCCCcHHHHHHHHHhh
Q 036619          212 QVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .+++|+|..|+|||||.+.+...
T Consensus        12 ~~~~i~G~nGsGKStLl~~l~g~   34 (137)
T PF00005_consen   12 EIVAIVGPNGSGKSTLLKALAGL   34 (137)
T ss_dssp             SEEEEEESTTSSHHHHHHHHTTS
T ss_pred             CEEEEEccCCCccccceeeeccc
Confidence            58899999999999999998864

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 ....

>cd00820 PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis

Probab=95.26  E-value=0.018  Score=43.51  Aligned_cols=22  Identities=36%  Similarity=0.347  Sum_probs=19.8

Q ss_pred             eEEEEEEecCCCcHHHHHHHHH
Q 036619          211 LQVISLVGLGGIGKTTLAQLAY  232 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~  232 (352)
                      -..++|+|+.|.|||||++.+.
T Consensus        15 ge~v~I~GpSGsGKSTLl~~l~   36 (107)
T cd00820          15 KVGVLITGDSGIGKTELALELI   36 (107)
T ss_pred             CEEEEEEcCCCCCHHHHHHHhh
Confidence            3678999999999999999876

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

>PF13245 AAA_19: Part of AAA domain

Probab=95.25  E-value=0.047  Score=38.55  Aligned_cols=22  Identities=27%  Similarity=0.280  Sum_probs=16.5

Q ss_pred             EEEEEEecCCCcHHHHH-HHHHh
Q 036619          212 QVISLVGLGGIGKTTLA-QLAYN  233 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa-~~v~~  233 (352)
                      +++.|.|++|.|||+++ ..+..
T Consensus        11 ~~~vv~g~pGtGKT~~~~~~i~~   33 (76)
T PF13245_consen   11 PLFVVQGPPGTGKTTTLAARIAE   33 (76)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH
Confidence            56778999999999555 44444

>PRK05973 replicative DNA helicase; Provisional

Probab=95.24  E-value=0.15  Score=44.51  Aligned_cols=114  Identities=17%  Similarity=0.143  Sum_probs=59.0

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCC-----------CcccHHH
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSAS-----------GLNEFQS  278 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~-----------~~~~~~~  278 (352)
                      .-.++.|.|.+|+|||+|+.++.... .++ -..+++++...+  ...+...+.. ++....           +....+.
T Consensus        63 ~Gsl~LIaG~PG~GKT~lalqfa~~~-a~~-Ge~vlyfSlEes--~~~i~~R~~s-~g~d~~~~~~~~~~d~~d~~~~~~  137 (237)
T PRK05973         63 PGDLVLLGARPGHGKTLLGLELAVEA-MKS-GRTGVFFTLEYT--EQDVRDRLRA-LGADRAQFADLFEFDTSDAICADY  137 (237)
T ss_pred             CCCEEEEEeCCCCCHHHHHHHHHHHH-Hhc-CCeEEEEEEeCC--HHHHHHHHHH-cCCChHHhccceEeecCCCCCHHH
Confidence            34688899999999999997776542 233 245666666553  3444444332 222110           1112233


Q ss_pred             HHHHHHHhcCCceEEEEecCCCCC----CccChhHHHHhhcc--CCCCcEEEEecCCh
Q 036619          279 LMSRIQSSIKGKKNFLVLDDVWDG----DYNKWQPFFRCLKN--GLHGSKILVTTRNE  330 (352)
Q Consensus       279 ~~~~l~~~l~~kr~LlVlDdvw~~----~~~~~~~l~~~l~~--~~~gs~IivTTR~~  330 (352)
                      +...+..  ..+.=++|+|-+...    +......+...|..  ...|.-||+|+...
T Consensus       138 ii~~l~~--~~~~~lVVIDsLq~l~~~~~~~el~~~~~~Lk~~Ak~~gitvIl~sQl~  193 (237)
T PRK05973        138 IIARLAS--APRGTLVVIDYLQLLDQRREKPDLSVQVRALKSFARERGLIIVFISQID  193 (237)
T ss_pred             HHHHHHH--hhCCCEEEEEcHHHHhhcccchhHHHHHHHHHHHHHhCCCeEEEEecCc
Confidence            3333332  123459999998532    11122221111211  23477788888654

>PRK11174 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed

Probab=95.23  E-value=0.23  Score=49.69  Aligned_cols=25  Identities=40%  Similarity=0.428  Sum_probs=21.7

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      +-..++|+|..|.|||||++.+..-
T Consensus       375 ~G~~vaIvG~SGsGKSTL~~lL~g~  399 (588)
T PRK11174        375 AGQRIALVGPSGAGKTSLLNALLGF  399 (588)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcC
Confidence            3478999999999999999988764

>TIGR01192 chvA glucan exporter ATP-binding protein

Probab=95.23  E-value=0.25  Score=49.45  Aligned_cols=25  Identities=40%  Similarity=0.482  Sum_probs=21.5

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .-..++|+|+.|.|||||++.+..-
T Consensus       360 ~G~~~~ivG~sGsGKSTL~~ll~g~  384 (585)
T TIGR01192       360 AGQTVAIVGPTGAGKTTLINLLQRV  384 (585)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHccC
Confidence            3578999999999999999988653

This model describes glucan exporter ATP binding protein in bacteria. It belongs to the larger ABC transporter superfamily with the characteristic ATP binding motif. The In general, this protein is in some ways implicated in osmoregulation and suggested to participate in the export of glucan from the cytoplasm to periplasm. The cyclic beta-1,2-glucan in the bactrerial periplasmic space is suggested to confer the property of high osmolority. It has also been demonstrated that mutants in this loci have lost functions of virulence and motility. It is unclear as to how virulence and osmoadaptaion are related.

>TIGR02768 TraA_Ti Ti-type conjugative transfer relaxase TraA

Probab=95.22  E-value=0.13  Score=52.73  Aligned_cols=104  Identities=15%  Similarity=0.133  Sum_probs=51.3

Q ss_pred             EEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCcccHHHHHHHHHHhc--CC
Q 036619          212 QVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSASGLNEFQSLMSRIQSSI--KG  289 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l--~~  289 (352)
                      +++.|.|.+|.||||+++.+..-.  ... ...+.......-.. .   .+-+..+.   ....+..+...+....  -.
T Consensus       369 ~~~il~G~aGTGKTtll~~i~~~~--~~~-g~~V~~~ApTg~Aa-~---~L~~~~g~---~a~Ti~~~~~~~~~~~~~~~  438 (744)
T TIGR02768       369 DIAVVVGRAGTGKSTMLKAAREAW--EAA-GYRVIGAALSGKAA-E---GLQAESGI---ESRTLASLEYAWANGRDLLS  438 (744)
T ss_pred             CEEEEEecCCCCHHHHHHHHHHHH--HhC-CCeEEEEeCcHHHH-H---HHHhccCC---ceeeHHHHHhhhccCcccCC
Confidence            477899999999999999987632  221 22333333322111 1   11111221   1122222211111100  12


Q ss_pred             ceEEEEecCCCCCCccChhHHHHhhccCCCCcEEEEec
Q 036619          290 KKNFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKILVTT  327 (352)
Q Consensus       290 kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTT  327 (352)
                      +.-|||+|++.-.+......|....  ...|++||+.=
T Consensus       439 ~~~llIvDEasMv~~~~~~~Ll~~~--~~~~~kliLVG  474 (744)
T TIGR02768       439 DKDVLVIDEAGMVGSRQMARVLKEA--EEAGAKVVLVG  474 (744)
T ss_pred             CCcEEEEECcccCCHHHHHHHHHHH--HhcCCEEEEEC
Confidence            4569999998655433334443322  23478888765

This protein contains domains distinctive of a single strand exonuclease (N-terminus, MobA/MobL, pfam03389) as well as a helicase domain (central region, homologous to the corresponding region of the F-type relaxase TraI, TIGR02760). This protein likely fills the same role as TraI(F), nicking (at the oriT site) and unwinding the coiled plasmid prior to conjugative transfer.

>PRK10923 glnG nitrogen regulation protein NR(I); Provisional

Probab=95.21  E-value=0.06  Score=52.25  Aligned_cols=46  Identities=17%  Similarity=0.240  Sum_probs=34.5

Q ss_pred             ccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          185 EVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       185 ~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .++|....+.++...+....    ..-..+.|.|.+|+|||++|+.++..
T Consensus       139 ~lig~s~~~~~l~~~~~~~~----~~~~~vli~Ge~GtGK~~lA~~ih~~  184 (469)
T PRK10923        139 DIIGEAPAMQDVFRIIGRLS----RSSISVLINGESGTGKELVAHALHRH  184 (469)
T ss_pred             cceecCHHHHHHHHHHHHHh----ccCCeEEEEeCCCCcHHHHHHHHHhc
Confidence            58888877777776664332    22344679999999999999999874

>TIGR02030 BchI-ChlI magnesium chelatase ATPase subunit I

Probab=95.21  E-value=0.025  Score=52.14  Aligned_cols=44  Identities=18%  Similarity=0.268  Sum_probs=35.8

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHh
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYN  233 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~  233 (352)
                      ..++|.+..+..|+-.++++.      ..-+.|.|..|+|||||++.+..
T Consensus         4 ~~ivgq~~~~~al~~~~~~~~------~g~vli~G~~G~gKttl~r~~~~   47 (337)
T TIGR02030         4 TAIVGQDEMKLALLLNVIDPK------IGGVMVMGDRGTGKSTAVRALAA   47 (337)
T ss_pred             cccccHHHHHHHHHHHhcCCC------CCeEEEEcCCCCCHHHHHHHHHH
Confidence            468999998888877777643      44567999999999999999975

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.

>PRK05688 fliI flagellum-specific ATP synthase; Validated

Probab=95.20  E-value=0.099  Score=49.90  Aligned_cols=85  Identities=18%  Similarity=0.235  Sum_probs=48.2

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCC-CHHHHHHHHHHHhCCC-------CCCcccH-----H
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTF-DQIRIAKAIIEGLGKS-------ASGLNEF-----Q  277 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~-~~~~~~~~i~~~l~~~-------~~~~~~~-----~  277 (352)
                      -..++|+|..|+|||||++.+....    ..+.++...+.... .+..+...+...-...       ..+....     .
T Consensus       168 GqrigI~G~sG~GKSTLl~~I~g~~----~~dv~V~g~Ig~rg~ev~~~~~~~~~~~~l~rsvvv~atsd~~p~~r~~a~  243 (451)
T PRK05688        168 GQRLGLFAGTGVGKSVLLGMMTRFT----EADIIVVGLIGERGREVKEFIEHILGEEGLKRSVVVASPADDAPLMRLRAA  243 (451)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCCC----CCCEEEEEEeCcCcHhHHHHHHHHhhcCCccEEEEEEECCCCCHHHHHHHH
Confidence            3578999999999999999888631    22344333343332 3445544444432211       0111111     1


Q ss_pred             HHHHHHHHhc--CCceEEEEecCC
Q 036619          278 SLMSRIQSSI--KGKKNFLVLDDV  299 (352)
Q Consensus       278 ~~~~~l~~~l--~~kr~LlVlDdv  299 (352)
                      ...-.+.+++  ++++.||++||+
T Consensus       244 ~~a~aiAEyfrd~G~~VLl~~Dsl  267 (451)
T PRK05688        244 MYCTRIAEYFRDKGKNVLLLMDSL  267 (451)
T ss_pred             HHHHHHHHHHHHCCCCEEEEecch
Confidence            1222344444  689999999999

>PLN02200 adenylate kinase family protein

Probab=95.20  E-value=0.019  Score=50.19  Aligned_cols=25  Identities=20%  Similarity=0.161  Sum_probs=22.0

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .+.+|.|.|++|+||||+|+.+...
T Consensus        42 ~~~ii~I~G~PGSGKsT~a~~La~~   66 (234)
T PLN02200         42 TPFITFVLGGPGSGKGTQCEKIVET   66 (234)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHH
Confidence            4678999999999999999998863

>TIGR03258 PhnT 2-aminoethylphosphonate ABC transport system, ATP-binding component PhnT

Probab=95.19  E-value=0.16  Score=47.44  Aligned_cols=56  Identities=20%  Similarity=0.141  Sum_probs=33.2

Q ss_pred             HHHHHhcCCceEEEEecCCCCC-CccChhHHHHhhccC--C-CCcEEEEecCChHHHHHh
Q 036619          281 SRIQSSIKGKKNFLVLDDVWDG-DYNKWQPFFRCLKNG--L-HGSKILVTTRNESVARMM  336 (352)
Q Consensus       281 ~~l~~~l~~kr~LlVlDdvw~~-~~~~~~~l~~~l~~~--~-~gs~IivTTR~~~va~~~  336 (352)
                      -.|...|..+.-+|+||.--.. |......+...+..-  . .|..||++|.+.+-+..+
T Consensus       146 vaLARAL~~~P~llLLDEP~s~LD~~~r~~l~~~l~~l~~~~~g~til~vTHd~~ea~~l  205 (362)
T TIGR03258       146 IAIARAIAIEPDVLLLDEPLSALDANIRANMREEIAALHEELPELTILCVTHDQDDALTL  205 (362)
T ss_pred             HHHHHHHhcCCCEEEEcCccccCCHHHHHHHHHHHHHHHHhCCCCEEEEEeCCHHHHHHh
Confidence            3355566677788999986443 323344455544421  2 256688888887765443

This ATP-binding component of an ABC transport system is found in Salmonella and Burkholderia lineages in the vicinity of enzymes for the breakdown of 2-aminoethylphosphonate.

>PRK13765 ATP-dependent protease Lon; Provisional

Probab=95.17  E-value=0.033  Score=55.65  Aligned_cols=74  Identities=15%  Similarity=0.166  Sum_probs=50.2

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHH
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAII  263 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~  263 (352)
                      ..++|.++.++.|...+...        +.+.++|++|+||||+|+.+.+.- ...+|+..+|..-+. .+...+++.+.
T Consensus        31 ~~vigq~~a~~~L~~~~~~~--------~~~l~~G~~G~GKttla~~l~~~l-~~~~~~~~~~~~np~-~~~~~~~~~v~  100 (637)
T PRK13765         31 DQVIGQEHAVEVIKKAAKQR--------RHVMMIGSPGTGKSMLAKAMAELL-PKEELQDILVYPNPE-DPNNPKIRTVP  100 (637)
T ss_pred             HHcCChHHHHHHHHHHHHhC--------CeEEEECCCCCcHHHHHHHHHHHc-ChHhHHHheEeeCCC-cchHHHHHHHH
Confidence            46889888888777666432        358899999999999999988742 233467788866533 34555555555


Q ss_pred             HHhC
Q 036619          264 EGLG  267 (352)
Q Consensus       264 ~~l~  267 (352)
                      ..++
T Consensus       101 ~~~G  104 (637)
T PRK13765        101 AGKG  104 (637)
T ss_pred             HhcC
Confidence            4433

>PRK06793 fliI flagellum-specific ATP synthase; Validated

Probab=95.17  E-value=0.13  Score=48.82  Aligned_cols=123  Identities=18%  Similarity=0.164  Sum_probs=66.0

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCCC-------CCccc-----HHH
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSA-------SGLNE-----FQS  278 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~-------~~~~~-----~~~  278 (352)
                      -..++|+|..|.|||||.+.++.....   ...++...-.....+.+++...+..-+...       .+...     ...
T Consensus       156 Gqri~I~G~sG~GKTtLl~~Ia~~~~~---~~gvI~~iGerg~ev~e~~~~~l~~~gl~~tvvv~~tsd~s~~~r~ra~~  232 (432)
T PRK06793        156 GQKIGIFAGSGVGKSTLLGMIAKNAKA---DINVISLVGERGREVKDFIRKELGEEGMRKSVVVVATSDESHLMQLRAAK  232 (432)
T ss_pred             CcEEEEECCCCCChHHHHHHHhccCCC---CeEEEEeCCCCcccHHHHHHHHhhhcccceeEEEEECCCCCHHHHHHHHH
Confidence            457899999999999999999875321   122332222333566666665554422110       01111     122


Q ss_pred             HHHHHHHhc--CCceEEEEecCCCCCCccChhHHHHhhccCC-CCcEEEEecCChHHHHHhC
Q 036619          279 LMSRIQSSI--KGKKNFLVLDDVWDGDYNKWQPFFRCLKNGL-HGSKILVTTRNESVARMMG  337 (352)
Q Consensus       279 ~~~~l~~~l--~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~-~gs~IivTTR~~~va~~~~  337 (352)
                      ....+.+++  +++..||++||+-..- .....+...+.... .|--..+.|....+....+
T Consensus       233 ~a~~iAEyfr~~G~~VLlilDslTr~a-~A~reisl~~~e~p~~G~~~~~~s~l~~L~ERag  293 (432)
T PRK06793        233 LATSIAEYFRDQGNNVLLMMDSVTRFA-DARRSVDIAVKELPIGGKTLLMESYMKKLLERSG  293 (432)
T ss_pred             HHHHHHHHHHHcCCcEEEEecchHHHH-HHHHHHHHHhcCCCCCCeeeeeeccchhHHHHhc
Confidence            223344444  5899999999994321 12333333321111 2555666666666666544

>TIGR02788 VirB11 P-type DNA transfer ATPase VirB11

Probab=95.15  E-value=0.045  Score=50.00  Aligned_cols=114  Identities=14%  Similarity=0.130  Sum_probs=56.1

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCcccHHHHHHHHHHhcCCc
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSASGLNEFQSLMSRIQSSIKGK  290 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~k  290 (352)
                      -..+.|+|..|.|||||++.+....  .... .++.+.-........  .....-...........-...+.+...|+..
T Consensus       144 ~~~ili~G~tGsGKTTll~al~~~~--~~~~-~iv~ied~~El~~~~--~~~~~l~~~~~~~~~~~~~~~~~l~~~Lr~~  218 (308)
T TIGR02788       144 RKNIIISGGTGSGKTTFLKSLVDEI--PKDE-RIITIEDTREIFLPH--PNYVHLFYSKGGQGLAKVTPKDLLQSCLRMR  218 (308)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHccC--Cccc-cEEEEcCccccCCCC--CCEEEEEecCCCCCcCccCHHHHHHHHhcCC
Confidence            4688999999999999999888632  1111 122221111111000  0000000000000011112344556667777


Q ss_pred             eEEEEecCCCCCCccChhHHHHhhccCCCCcEEEEecCChHHHH
Q 036619          291 KNFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKILVTTRNESVAR  334 (352)
Q Consensus       291 r~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTTR~~~va~  334 (352)
                      .=.|++|.+...  +.|.. ...+..+..|  ++.|+...+.+.
T Consensus       219 pd~ii~gE~r~~--e~~~~-l~a~~~g~~~--~i~T~Ha~~~~~  257 (308)
T TIGR02788       219 PDRIILGELRGD--EAFDF-IRAVNTGHPG--SITTLHAGSPEE  257 (308)
T ss_pred             CCeEEEeccCCH--HHHHH-HHHHhcCCCe--EEEEEeCCCHHH
Confidence            778999999653  44543 3333333222  577777765444

The VirB11 protein is found in the vir locus of Agrobacterium Ti plasmids where it is involved in the type IV secretion system for DNA transfer. VirB11 is believed to be an ATPase. VirB11 is a homolog of the P-like conjugation system TrbB protein and the Flp pilus sytem protein TadA.

>PF13521 AAA_28: AAA domain; PDB: 1LW7_A

Probab=95.15  E-value=0.016  Score=47.58  Aligned_cols=21  Identities=33%  Similarity=0.340  Sum_probs=17.3

Q ss_pred             EEEEecCCCcHHHHHHHHHhh
Q 036619          214 ISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       214 i~I~G~~GiGKTtLa~~v~~~  234 (352)
                      |+|.|..|+|||||++.+...
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            789999999999999999864

>PRK14257 phosphate ABC transporter ATP-binding protein; Provisional

Probab=95.15  E-value=0.2  Score=46.16  Aligned_cols=24  Identities=25%  Similarity=0.361  Sum_probs=21.4

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      -.+++|+|..|.|||||.+.++..
T Consensus       108 Ge~v~IvG~~GsGKSTLl~~L~g~  131 (329)
T PRK14257        108 NKVTAFIGPSGCGKSTFLRNLNQL  131 (329)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcc
Confidence            367999999999999999999864

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

Probab=95.15  E-value=0.035  Score=48.00  Aligned_cols=52  Identities=19%  Similarity=0.095  Sum_probs=32.3

Q ss_pred             EEEEEecCCCcHHHHHHHHHhhhh-----hhccCCeEEEEEeCCCCCHHHHHHHHHH
Q 036619          213 VISLVGLGGIGKTTLAQLAYNNDE-----VKRNFEKVIWVCVSDTFDQIRIAKAIIE  264 (352)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~~~-----~~~~F~~~~wv~vs~~~~~~~~~~~i~~  264 (352)
                      +..|+|++|.||||++..+...-.     ....-+..+-++...+..+..++..+.+
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            788999999999987766655320     1233445555666666667777777666

>PRK11432 fbpC ferric transporter ATP-binding subunit; Provisional

Probab=95.14  E-value=0.17  Score=47.17  Aligned_cols=24  Identities=33%  Similarity=0.473  Sum_probs=21.3

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      -.+++|+|+.|.|||||.+.+..-
T Consensus        32 Ge~~~llGpsGsGKSTLLr~IaGl   55 (351)
T PRK11432         32 GTMVTLLGPSGCGKTTVLRLVAGL   55 (351)
T ss_pred             CCEEEEECCCCCcHHHHHHHHHCC
Confidence            358999999999999999999863

>cd03284 ABC_MutS1 MutS1 homolog in eukaryotes

Probab=95.13  E-value=0.053  Score=46.83  Aligned_cols=22  Identities=23%  Similarity=0.261  Sum_probs=20.0

Q ss_pred             EEEEEEecCCCcHHHHHHHHHh
Q 036619          212 QVISLVGLGGIGKTTLAQLAYN  233 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~  233 (352)
                      .++.|.|+.|.||||+.+.+..
T Consensus        31 ~~~~l~Gpn~sGKstllr~i~~   52 (216)
T cd03284          31 QILLITGPNMAGKSTYLRQVAL   52 (216)
T ss_pred             eEEEEECCCCCChHHHHHHHHH
Confidence            7889999999999999999864

The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal domain with a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding clam

>PF00025 Arf: ADP-ribosylation factor family The prints entry specific to Sar1 proteins The Prosite entry specific to Sar1 proteins; InterPro: IPR006689 Small GTPases form an independent superfamily within the larger class of regulatory GTP hydrolases

Probab=95.13  E-value=0.098  Score=43.46  Aligned_cols=104  Identities=17%  Similarity=0.162  Sum_probs=54.3

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhhhhh----h----------ccCCeEEEEEeCCCCCHHHHHHHHHHHhCCC-----C
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNNDEV----K----------RNFEKVIWVCVSDTFDQIRIAKAIIEGLGKS-----A  270 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~----~----------~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~-----~  270 (352)
                      .-.-|.|+|+.|+|||||...+......    .          ..+...+| .++.......++.........-     .
T Consensus        13 ~~~~ililGl~~sGKTtll~~l~~~~~~~~~pT~g~~~~~i~~~~~~~~~~-d~gG~~~~~~~w~~y~~~~~~iIfVvDs   91 (175)
T PF00025_consen   13 KEIKILILGLDGSGKTTLLNRLKNGEISETIPTIGFNIEEIKYKGYSLTIW-DLGGQESFRPLWKSYFQNADGIIFVVDS   91 (175)
T ss_dssp             SEEEEEEEESTTSSHHHHHHHHHSSSEEEEEEESSEEEEEEEETTEEEEEE-EESSSGGGGGGGGGGHTTESEEEEEEET
T ss_pred             cEEEEEEECCCccchHHHHHHhhhccccccCcccccccceeeeCcEEEEEE-eccccccccccceeeccccceeEEEEec
Confidence            3456689999999999999998864211    0          11222333 3444444444444444332210     1


Q ss_pred             CCcccHHHHHHHHHHhc-----CCceEEEEecCCCCCCccChhHHHHhh
Q 036619          271 SGLNEFQSLMSRIQSSI-----KGKKNFLVLDDVWDGDYNKWQPFFRCL  314 (352)
Q Consensus       271 ~~~~~~~~~~~~l~~~l-----~~kr~LlVlDdvw~~~~~~~~~l~~~l  314 (352)
                      .+...+.+....|.+.+     ++.++||++=-.+..+......+...+
T Consensus        92 sd~~~l~e~~~~L~~ll~~~~~~~~piLIl~NK~D~~~~~~~~~i~~~l  140 (175)
T PF00025_consen   92 SDPERLQEAKEELKELLNDPELKDIPILILANKQDLPDAMSEEEIKEYL  140 (175)
T ss_dssp             TGGGGHHHHHHHHHHHHTSGGGTTSEEEEEEESTTSTTSSTHHHHHHHT
T ss_pred             ccceeecccccchhhhcchhhcccceEEEEeccccccCcchhhHHHhhh
Confidence            12223444455555543     467777776544333333455566554

This superfamily contains proteins that control a vast number of important processes and possess a common, structurally preserved GTP-binding domain [, ]. Sequence comparisons of small G proteins from various species have revealed that they are conserved in primary structures at the level of 30-55% similarity []. Crystallographic analysis of various small G proteins revealed the presence of a 20 kDa catalytic domain that is unique for the whole superfamily [, ]. The domain is built of five alpha helices (A1-A5), six beta-strands (B1-B6) and five polypeptide loops (G1-G5). A structural comparison of the GTP- and GDP-bound form, allows one to distinguish two functional loop regions: switch I and switch II that surround the gamma-phosphate group of the nucleotide. The G1 loop (also called the P-loop) that connects the B1 strand and the A1 helix is responsible for the binding of the phosphate groups. The G3 loop provides residues for Mg(2+) and phosphate binding and is located at the N terminus of the A2 helix. The G1 and G3 loops are sequentially similar to Walker A and Walker B boxes that are found in other nucleotide binding motifs. The G2 loop connects the A1 helix and the B2 strand and contains a conserved Thr residue responsible for Mg(2+) binding. The guanine base is recognised by the G4 and G5 loops. The consensus sequence NKXD of the G4 loop contains Lys and Asp residues directly interacting with the nucleotide. Part of the G5 loop located between B6 and A5 acts as a recognition site for the guanine base []. The small GTPase superfamily can be divided into at least 8 different families, including: Arf small GTPases. GTP-binding proteins involved in protein trafficking by modulating vesicle budding and uncoating within the Golgi apparatus. Ran small GTPases. GTP-binding proteins involved in nucleocytoplasmic transport. Required for the import of proteins into the nucleus and also for RNA export. Rab small GTPases. GTP-binding proteins involved in vesicular traffic. Rho small GTPases. GTP-binding proteins that control cytoskeleton reorganisation. Ras small GTPases. GTP-binding proteins involved in signalling pathways. Sar1 small GTPases. Small GTPase component of the coat protein complex II (COPII) which promotes the formation of transport vesicles from the endoplasmic reticulum (ER). Mitochondrial Rho (Miro). Small GTPase domain found in mitochondrial proteins involved in mitochondrial trafficking. Roc small GTPases domain. Small GTPase domain always found associated with the COR domain. This entry represents a branch of the small GTPase superfamily that includes the ADP ribosylation factor Arf, Arl (Arf-like), Arp (Arf-related proteins) and the remotely related Sar (Secretion-associated and Ras-related) proteins. Arf proteins are major regulators of vesicle biogenesis in intracellular traffic []. They cycle between inactive GDP-bound and active GTP-bound forms that bind selectively to effectors. The classical structural GDP/GTP switch is characterised by conformational changes at the so-called switch 1 and switch 2 regions, which bind tightly to the gamma-phosphate of GTP but poorly or not at all to the GDP nucleotide. Structural studies of Arf1 and Arf6 have revealed that although these proteins feature the switch 1 and 2 conformational changes, they depart from other small GTP-binding proteins in that they use an additional, unique switch to propagate structural information from one side of the protein to the other. The GDP/GTP structural cycles of human Arf1 and Arf6 feature a unique conformational change that affects the beta2-beta3 strands connecting switch 1 and switch 2 (interswitch) and also the amphipathic helical N terminus. In GDP-bound Arf1 and Arf6, the interswitch is retracted and forms a pocket to which the N-terminal helix binds, the latter serving as a molecular hasp to maintain the inactive conformation. In the GTP-bound form of these proteins, the interswitch undergoes a two-residue register shift that pulls switch 1 and switch 2 up, restoring an active conformation that can bind GTP. In this conformation, the interswitch projects out of the protein and extrudes the N-terminal hasp by occluding its binding pocket.; GO: 0005525 GTP binding; PDB: 2H57_B 2W83_B 3N5C_B 2J5X_A 3LVR_E 2BAO_A 3LVQ_E 2A5F_A 3PCR_B 1E0S_A ....

---

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	352
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	2e-51
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	3e-46
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-34
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	3e-07
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	6e-06
3qfl_A	115	MLA10; coiled-coil, (CC) domain, NLRS, nucleotide-	1e-14
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	4e-14

>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 =  179 bits (455), Expect = 2e-51
 Identities = 47/316 (14%), Positives = 94/316 (29%), Gaps = 40/316 (12%)

Query: 51  DAEQRQMKQDKAVTFWLDQLIDASYDMEDVLEEWITETRKLQLDEGGDDDDDDNVGAFVT 110
           DA+ R                D       +++        +  D      +++ V    T
Sbjct: 2   DAKARNCLLQ----HREALEKD--IKTSYIMDH-------MISDGFLTISEEEKVRNEPT 48

Query: 111 FLTKVCFFFPAASNCFGGFKQLSLRHDIAVKIREISEKLDDIARQKDSFKLVENVSN-NV 169
              +                       +    ++++  L D      S    ++VS    
Sbjct: 49  QQQRAAMLIKMILKKDNDSYVSFYNALLHEGYKDLAALLHDGIPVVSSSSGKDSVSGITS 108

Query: 170 KKPERVRTTSLIDEGEV-CGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLA 228
                +    +     V   R    + +  KL     + +     +++ G+ G GK+ LA
Sbjct: 109 YVRTVLCEGGVPQRPVVFVTRKKLVNAIQQKLS----KLKGEPGWVTIHGMAGCGKSVLA 164

Query: 229 QLAYNNDEVKRNF--EKVIWVCVSDTFDQ--IRIAKAIIEGLGKSASGLNEFQSLMSRIQ 284
             A  +  +        V WV V        +   + +   L +  S        +   +
Sbjct: 165 AEAVRDHSLLEGCFPGGVHWVSVGKQDKSGLLMKLQNLCTRLDQDESFSQRLPLNIEEAK 224

Query: 285 SSI------KGKKNFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKILVTTRNESVARMMGS 338
             +      K  ++ L+LDDVWD    K               +IL+TTR++SV   +  
Sbjct: 225 DRLRILMLRKHPRSLLILDDVWDSWVLKA---------FDSQCQILLTTRDKSVTDSVMG 275

Query: 339 TDIIS--IEQLAEEEC 352
              +      L +E+ 
Sbjct: 276 PKYVVPVESSLGKEKG 291

>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 =  164 bits (416), Expect = 3e-46
 Identities = 48/321 (14%), Positives = 96/321 (29%), Gaps = 47/321 (14%)

Query: 48  VLEDAEQRQMKQDKAVTFWLDQLIDASYDMEDVLEEWITETRKLQLDEGGDDDDDDNVGA 107
            L  A  R +  D      L  L   +   ED  E     + +L+            +  
Sbjct: 9   ALSTAHTRLI-HDFEPRDALTYLEGKNIFTEDHSELISKMSTRLER-----------IAN 56

Query: 108 FVTFLTKVCFFFPAASNCFGGFKQLSLRHDIAVKIREISEKLDDIARQKDSF---KLVEN 164
           F+    +         + F         ++    + +  E   D A  +       ++  
Sbjct: 57  FLRIYRRQASELGPLIDFF--------NYNNQSHLADFLEDYIDFAINEPDLLRPVVIAP 108

Query: 165 VSNNVKKPERVRTTSLIDEGEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGK 224
             +      ++   ++  +     R      +  KL             + L G  G GK
Sbjct: 109 QFSRQMLDRKLLLGNVPKQMTCYIREYHVDRVIKKLD---EMCDLDSFFLFLHGRAGSGK 165

Query: 225 TTLAQLAYNNDE--VKRNFEKVIWVCVS-----DTFDQIRIAKAIIEGLG-----KSASG 272
           + +A  A +  +  +  N++ ++W+  S      TFD       +++         S   
Sbjct: 166 SVIASQALSKSDQLIGINYDSIVWLKDSGTAPKSTFDLFTDILLMLKSEDDLLNFPSVEH 225

Query: 273 LNEFQSLMSRIQSSIKGKKNFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKILVTTRNESV 332
           +           + I       V DDV   +  +W              + LVTTR+  +
Sbjct: 226 VTSVVLKRMICNALIDRPNTLFVFDDVVQEETIRW--AQEL------RLRCLVTTRDVEI 277

Query: 333 ARMMGST-DIISIEQLAEEEC 352
           +     T + I +  L  +EC
Sbjct: 278 SNAASQTCEFIEVTSLEIDEC 298

>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 =  133 bits (335), Expect = 2e-34
 Identities = 64/349 (18%), Positives = 122/349 (34%), Gaps = 81/349 (23%)

Query: 31  VEQEVGKLTTNLQAIQAVLEDAEQRQMKQDKAVTFWLDQLIDASYDMEDVLEEWITETRK 90
           ++ E G+     + I +V EDA       +       D       D++D+ +  ++   K
Sbjct: 7   MDFETGEHQYQYKDILSVFEDA----FVDN------FD-----CKDVQDMPKSILS---K 48

Query: 91  LQLDE--GGDDDDDDNVGAFVTFLTKVCFFFPAASNCFGGFKQLSLRHDIAVKIREISEK 148
            ++D      D     +  F T L+K              F +  LR +    +  I  +
Sbjct: 49  EEIDHIIMSKDAVSGTLRLFWTLLSK-------QEEMVQKFVEEVLRINYKFLMSPIKTE 101

Query: 149 LDDIARQKDSFKLVENVSNNVKKPERVRTTSLIDEGEVCGRVDEKSELFSKLLCESSEQQ 208
               +     +    +   N  +           +  V  R+    +L   LL    E +
Sbjct: 102 QRQPSMMTRMYIEQRDRLYNDNQV--------FAKYNVS-RLQPYLKLRQALL----ELR 148

Query: 209 NGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFE-KVIWVCVSDTFDQIRIAKAIIEGLG 267
               V+ + G+ G GKT +A     + +V+   + K+ W+            + ++E L 
Sbjct: 149 PAKNVL-IDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWL----NLKNCNSPETVLEMLQ 203

Query: 268 K---------------SAS---GLNEFQSLMSRIQSSIKGKKNFLVLDDVWDGDYNKWQP 309
           K               S++    ++  Q+ + R+  S   +   LVL +V +     W  
Sbjct: 204 KLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNA--KAWNA 261

Query: 310 F-FRCLKNGLHGSKILVTTRNESVARMMGS--TDIISIEQ----LAEEE 351
           F   C        KIL+TTR + V   + +  T  IS++     L  +E
Sbjct: 262 FNLSC--------KILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDE 302

>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 = 51.4 bits (122), Expect = 3e-07
 Identities = 55/313 (17%), Positives = 106/313 (33%), Gaps = 74/313 (23%)

Query: 1   MAHAIVSSLL-DQLNSIAQDQVKGKWRLVTGVEQEVGKLTTNLQAIQAVLEDAEQRQMKQ 59
              +I++  + D L +         W+ V        KLTT +++   VLE AE R+M  
Sbjct: 328 RRLSIIAESIRDGLATWDN------WKHV-----NCDKLTTIIESSLNVLEPAEYRKMFD 376

Query: 60  DKAVTFWLDQLIDASYDMEDVLEE-WITETRKLQLDEGGDDDDDDNVGAFVTFLTKVCFF 118
             +V F     I        +L   W              D    +V   V  L K    
Sbjct: 377 RLSV-FPPSAHI-----PTILLSLIW-------------FDVIKSDVMVVVNKLHK---- 413

Query: 119 FPAASNCFGGFKQLSLR-HDIAVKIREISEKLDDIARQKDSFKLVENVSNNVKKPERVRT 177
               S      K+ ++    I ++++   E    + R      +V++ +           
Sbjct: 414 ---YSLVEKQPKESTISIPSIYLELKVKLENEYALHR-----SIVDHYNIPKTFDSDDLI 465

Query: 178 TSLIDE------G---EVCGRVDEKSELFSKLLCESS--EQQNGLQVISLVGLGGIGKTT 226
              +D+      G   +      E+  LF  +  +    EQ+      +    G I   T
Sbjct: 466 PPYLDQYFYSHIGHHLKNIEH-PERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSI-LNT 523

Query: 227 LAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSASGL--NEFQSLMSRIQ 284
           L QL        + ++  I  C +D   + R+  AI++ L K    L  +++  L   ++
Sbjct: 524 LQQL--------KFYKPYI--CDNDPKYE-RLVNAILDFLPKIEENLICSKYTDL---LR 569

Query: 285 SSIKGKKNFLVLD 297
            ++  +   +  +
Sbjct: 570 IALMAEDEAIFEE 582

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 47.2 bits (111), Expect = 6e-06
 Identities = 52/315 (16%), Positives = 92/315 (29%), Gaps = 104/315 (33%)

Query: 9   LLDQLNSIAQDQVKGKWRLVTGVEQEVGKLTTNLQAIQAVLEDAEQRQMKQDKAVTFWLD 68
              +L     +    K  L+ GV    GK  T + A+   L    Q +M  D  + FWL+
Sbjct: 136 PYLKLRQALLELRPAKNVLIDGVLG-SGK--TWV-ALDVCLSYKVQCKM--DFKI-FWLN 188

Query: 69  QLIDASYDMEDVLEEWITETRKLQLDEGGDDDDDDNVGAFVTFLTKVCFFFPAASNCFGG 128
             +      E VLE  + +    Q+D       D                          
Sbjct: 189 --LKNCNSPETVLE--MLQKLLYQIDPNWTSRSD-------------------------H 219

Query: 129 FKQLSLR-HDIAVKIRE-ISEK--------LDDIARQK--DSFK-----LV----ENVSN 167
              + LR H I  ++R  +  K        L ++   K  ++F      L+    + V++
Sbjct: 220 SSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTD 279

Query: 168 NVKKPERVRTTSLIDEGEVCGRVDEKSELFSKLL-CESSE-----QQNGLQVISLVG--- 218
            +         SL          DE   L  K L C   +          + +S++    
Sbjct: 280 FLS-AATTTHISLDHHSMTLTP-DEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESI 337

Query: 219 -----------------LGGIGKTTLAQLAYNNDEVKRNFEK----------------VI 245
                            L  I +++L  L     E ++ F++                +I
Sbjct: 338 RDGLATWDNWKHVNCDKLTTIIESSLNVL--EPAEYRKMFDRLSVFPPSAHIPTILLSLI 395

Query: 246 WVCVSDTFDQIRIAK 260
           W       D + +  
Sbjct: 396 W-FDVIKSDVMVVVN 409

>3qfl_A MLA10; coiled-coil, (CC) domain, NLRS, nucleotide-binding domain, L rich repeat containing receptors, protein binding; 2.00A {Hordeum vulgare} Length = 115

 Score = 68.7 bits (168), Expect = 1e-14
 Identities = 27/135 (20%), Positives = 59/135 (43%), Gaps = 23/135 (17%)

Query: 6   VSSLLDQLNSIAQDQVKGKWRLVTGVEQEVGKLTTNLQAIQAVLEDAEQRQMKQ-DKAVT 64
           +S+L+ +L  +  +    +++L  GV++ +  L   L+++ A L    +   +Q D    
Sbjct: 3   ISNLIPKLGELLTE----EFKLHKGVKKNIEDLGKELESMNAALIKIGEVPREQLDSQDK 58

Query: 65  FWLDQLIDASYDMEDVLEEWITETRKLQLDEGGDDDDDDNVGAFVTFLTKVCFFFPAASN 124
            W D++ + SY +EDV+++++ +              DDN   F   + +          
Sbjct: 59  LWADEVRELSYVIEDVVDKFLVQV--------DGIKSDDNNNKFKGLMKRTTEL------ 104

Query: 125 CFGGFKQLSLRHDIA 139
                K++  +H IA
Sbjct: 105 ----LKKVKHKHGIA 115

>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 = 72.6 bits (178), Expect = 4e-14
 Identities = 52/312 (16%), Positives = 111/312 (35%), Gaps = 62/312 (19%)

Query: 69  QLIDASYDMEDVLEEWITETRKLQLDEGGDDDDDDNVGAFVTFLTKVCFFFPA----ASN 124
           + ++       +++  I+       +      +++ V +  T   +            + 
Sbjct: 14  EALEKDIKTSYIMDHMIS-------NGVLSVIEEEKVKSQATQYQRAAALIKMILNKDNC 66

Query: 125 CFGGFKQLSLRHDIAVKIREISEKLDDIARQKDSFKLVENVSNNVKKPERVRTTSLIDEG 184
            +  F   +L H+     ++++  L        S     +   +          +++ EG
Sbjct: 67  AYISFYN-ALLHE---GYKDLAALLQSGLPLVSS-----SSGKDTDGGITSFVRTVLCEG 117

Query: 185 EV-------CGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQ-LAYNNDE 236
            V         R      +  KL   + E       +++ G+ G GK+ LA     ++  
Sbjct: 118 GVPQRPVIFVTRKKLVHAIQQKLWKLNGEPG----WVTIYGMAGCGKSVLAAEAVRDHSL 173

Query: 237 VKRNFE-KVIWVCVSDTFDQIRIAKAIIEGLGKSASGLNEFQSLMSRIQSSIKGKKN--- 292
           ++  F   V WV +       +    ++  L      L++ +S   R+  +I+  K+   
Sbjct: 174 LEGCFSGGVHWVSIGK-----QDKSGLLMKLQNLCMRLDQEESFSQRLPLNIEEAKDRLR 228

Query: 293 ----------FLVLDDVWDGDYNKWQPFFRCLKNGLHGSKILVTTRNESVA-RMMGSTDI 341
                      L+LDDVWD            LK   +  +IL+TTR++SV   +MG   +
Sbjct: 229 VLMLRKHPRSLLILDDVWDP---------WVLKAFDNQCQILLTTRDKSVTDSVMGPKHV 279

Query: 342 ISIE-QLAEEEC 352
           + +E  L  E+ 
Sbjct: 280 VPVESGLGREKG 291

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	352
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	99.95
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	99.89
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	99.86
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	99.81
3qfl_A	115	MLA10; coiled-coil, (CC) domain, NLRS, nucleotide-	99.77
1w5s_A	412	Origin recognition complex subunit 2 ORC2; replica	99.46
2qen_A	350	Walker-type ATPase; unknown function; HET: ADP; 2.	99.31
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	99.31
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	99.29
2fna_A	357	Conserved hypothetical protein; structural genomic	99.27
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	99.26
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	99.24
2chg_A	226	Replication factor C small subunit; DNA-binding pr	99.12
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	99.09
1sxj_B	323	Activator 1 37 kDa subunit; clamp loader, processi	98.92
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	98.88
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	98.86
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	98.71
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	98.56
1jr3_A	373	DNA polymerase III subunit gamma; processivity, pr	98.54
2chq_A	319	Replication factor C small subunit; DNA-binding pr	98.49
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	98.45
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	98.35
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	98.34
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	98.34
3bos_A	242	Putative DNA replication factor; P-loop containing	98.33
3pvs_A	447	Replication-associated recombination protein A; ma	98.29
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	98.29
2gno_A	305	DNA polymerase III, gamma subunit-related protein;	98.26
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	98.23
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	98.2
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	98.17
3co5_A	143	Putative two-component system transcriptional RES	98.16
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	98.14
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	98.13
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	98.13
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	98.11
1hqc_A	324	RUVB; extended AAA-ATPase domain, complex with nuc	98.09
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	98.09
1a5t_A	334	Delta prime, HOLB; zinc finger, DNA replication; 2	98.08
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	98.08
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	98.05
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	98.05
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	98.05
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	98.03
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	97.88
2cvh_A	220	DNA repair and recombination protein RADB; filamen	97.87
2bjv_A	265	PSP operon transcriptional activator; AAA, transcr	97.86
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	97.84
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	97.82
1ojl_A	304	Transcriptional regulatory protein ZRAR; response	97.81
3pxg_A	468	Negative regulator of genetic competence CLPC/MEC;	97.8
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	97.74
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	97.68
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	97.64
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	97.61
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	97.6
2qgz_A	308	Helicase loader, putative primosome component; str	97.57
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	97.57
2vhj_A	331	Ntpase P4, P4; non- hydrolysable ATP analogue, hyd	97.55
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	97.51
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	97.51
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	97.5
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	97.44
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	97.43
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	97.35
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	97.33
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	97.29
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	97.28
2b8t_A	223	Thymidine kinase; deoxyribonucleoside kinase, zinc	97.28
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	97.25
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	97.25
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	97.22
3hr8_A	356	Protein RECA; alpha and beta proteins (A/B, A+B),	97.21
1v5w_A	343	DMC1, meiotic recombination protein DMC1/LIM15 hom	97.17
3io5_A	333	Recombination and repair protein; storage dimer, i	97.14
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	97.1
2i1q_A	322	DNA repair and recombination protein RADA; ATPase,	97.1
2zr9_A	349	Protein RECA, recombinase A; recombination, RECA m	97.09
1xp8_A	366	RECA protein, recombinase A; recombination, radior	97.07
3m6a_A	543	ATP-dependent protease LA 1; alpha, beta, ATP-bind	97.04
2z43_A	324	DNA repair and recombination protein RADA; archaea	97.04
1g5t_A	196	COB(I)alamin adenosyltransferase; P-loop protein,	97.02
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	97.02
2c9o_A	456	RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-	96.92
1u94_A	356	RECA protein, recombinase A; homologous recombinat	96.9
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	96.89
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	96.88
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	96.87
4b4t_J	405	26S protease regulatory subunit 8 homolog; hydrola	96.86
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	96.78
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	96.75
1um8_A	376	ATP-dependent CLP protease ATP-binding subunit CL;	96.74
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	96.72
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	96.67
2pze_A	229	Cystic fibrosis transmembrane conductance regulat;	96.66
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	96.63
1mv5_A	243	LMRA, multidrug resistance ABC transporter ATP-bin	96.63
2dhr_A	499	FTSH; AAA+ protein, hexameric Zn metalloprotease,	96.61
4b4t_H	467	26S protease regulatory subunit 7 homolog; hydrola	96.59
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	96.57
1jr3_D	343	DNA polymerase III, delta subunit; processivity, p	96.54
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	96.53
2orw_A	184	Thymidine kinase; TMTK, TP4A, transferase; HET: 4T	96.47
3lda_A	400	DNA repair protein RAD51; DNA binding protein, ATP	96.46
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	96.44
3tqc_A	321	Pantothenate kinase; biosynthesis of cofactors, pr	96.43
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	96.39
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	96.35
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	96.28
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	96.27
2r6a_A	454	DNAB helicase, replicative helicase; replication,	96.25
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	96.21
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	96.2
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	96.2
4b4t_I	437	26S protease regulatory subunit 4 homolog; hydrola	96.2
1sky_E	473	F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alp	96.16
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	96.15
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	96.13
3upu_A	459	ATP-dependent DNA helicase DDA; RECA-like domain,	96.13
2xxa_A	433	Signal recognition particle protein; protein trans	96.11
3hws_A	363	ATP-dependent CLP protease ATP-binding subunit CL;	96.1
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	96.1
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	96.1
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	96.1
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	96.09
3ice_A	422	Transcription termination factor RHO; transcriptio	96.07
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	96.06
3tui_C	366	Methionine import ATP-binding protein METN; ABC-tr	96.05
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	96.05
2r44_A	331	Uncharacterized protein; putative ATPase, structur	96.03
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	96.03
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	96.03
3bh0_A	315	DNAB-like replicative helicase; ATPase, replicatio	96.02
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	96.02
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	96.02
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	96.0
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	96.0
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	95.99
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	95.98
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	95.98
1uf9_A	203	TT1252 protein; P-loop, nucleotide binding domain,	95.97
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	95.97
2ewv_A	372	Twitching motility protein PILT; pilus retraction	95.96
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	95.94
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	95.93
2ffh_A	425	Protein (FFH); SRP54, signal recognition particle,	95.93
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	95.91
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	95.9
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	95.9
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	95.87
3umf_A	217	Adenylate kinase; rossmann fold, transferase; 2.05	95.85
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	95.85
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	95.84
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	95.82
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	95.81
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	95.8
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	95.8
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	95.79
3nbx_X	500	ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structu	95.78
1uj2_A	252	Uridine-cytidine kinase 2; alpha/beta mononucleoti	95.78
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	95.78
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	95.77
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	95.75
1g8p_A	350	Magnesium-chelatase 38 kDa subunit; parallel beta	95.75
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	95.74
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	95.73
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	95.72
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	95.72
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	95.71
4a1f_A	338	DNAB helicase, replicative DNA helicase; hydrolase	95.71
1jjv_A	206	Dephospho-COA kinase; P-loop nucleotide-binding fo	95.7
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	95.7
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	95.69
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	95.69
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	95.68
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	95.67
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	95.66
3llm_A	235	ATP-dependent RNA helicase A; alpha-beta-alpha, st	95.64
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	95.63
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	95.62
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	95.61
1via_A	175	Shikimate kinase; structural genomics, transferase	95.61
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	95.6
2r8r_A	228	Sensor protein; KDPD, PFAM02702, MCSG, structural	95.6
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	95.59
1fx0_B	498	ATP synthase beta chain; latent ATPase, thermal st	95.59
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	95.59
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	95.58
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	95.58
1j8m_F	297	SRP54, signal recognition 54 kDa protein; signalin	95.55
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	95.54
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	95.52
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	95.52
2vli_A	183	Antibiotic resistance protein; transferase, tunica	95.52
2ga8_A	359	Hypothetical 39.9 kDa protein; YFR007W, YFH7, unkn	95.51
1q57_A	503	DNA primase/helicase; dntpase, DNA replication, tr	95.48
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	95.48
3fwy_A	314	Light-independent protochlorophyllide reductase I	95.47
2grj_A	192	Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosp	95.46
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	95.45
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	95.44
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	95.42
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	95.41
2hf9_A	226	Probable hydrogenase nickel incorporation protein	95.41
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	95.4
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	95.4
2ck3_D	482	ATP synthase subunit beta\, mitochondrial; hydrola	95.39
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	95.39
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	95.38
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	95.37
2pt7_A	330	CAG-ALFA; ATPase, protein-protein complex, type IV	95.37
1zu4_A	320	FTSY; GTPase, signal recognition particle, SRP, re	95.34
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	95.34
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	95.33
1sq5_A	308	Pantothenate kinase; P-loop, transferase; HET: PAU	95.33
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	95.32
2f6r_A	281	COA synthase, bifunctional coenzyme A synthase; 18	95.31
1gtv_A	214	TMK, thymidylate kinase; transferase, transferase	95.31
4a74_A	231	DNA repair and recombination protein RADA; hydrola	95.3
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	95.27
2q6t_A	444	DNAB replication FORK helicase; hydrolase; 2.90A {	95.26
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	95.25
1m7g_A	211	Adenylylsulfate kinase; APS kinase, transferase, s	95.22
1ls1_A	295	Signal recognition particle protein; FFH, SRP54, S	95.22
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	95.21
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	95.2
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	95.2
2ged_A	193	SR-beta, signal recognition particle receptor beta	95.19
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	95.17
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	95.17
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	95.16
1vht_A	218	Dephospho-COA kinase; structural genomics, transfe	95.16
2z0h_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	95.14
2i3b_A	189	HCR-ntpase, human cancer-related ntpase; AAA, ross	95.13
2onk_A	240	Molybdate/tungstate ABC transporter, ATP-binding p	95.11
3l0o_A	427	Transcription termination factor RHO; helicase, RH	95.1
2pcj_A	224	ABC transporter, lipoprotein-releasing system ATP-	95.1
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	95.1
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	95.1
2f1r_A	171	Molybdopterin-guanine dinucleotide biosynthesis pr	95.08
3tif_A	235	Uncharacterized ABC transporter ATP-binding prote;	95.06
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	95.06
2r2a_A	199	Uncharacterized protein; zonular occludens toxin,	95.0
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	94.97
3e1s_A	574	Exodeoxyribonuclease V, subunit RECD; alpha and be	94.94
3b85_A	208	Phosphate starvation-inducible protein; PHOH2, ATP	94.94
3lnc_A	231	Guanylate kinase, GMP kinase; ALS collaborative cr	94.93
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	94.92
3sr0_A	206	Adenylate kinase; phosphoryl transfer analogue, AL	94.9
3b5x_A	582	Lipid A export ATP-binding/permease protein MSBA;	94.86
2vp4_A	230	Deoxynucleoside kinase; ATP-binding, DNA synthesis	94.84
2cbz_A	237	Multidrug resistance-associated protein 1; ABC pro	94.84
1b0u_A	262	Histidine permease; ABC transporter, transport pro	94.84
3gfo_A	275	Cobalt import ATP-binding protein CBIO 1; structur	94.84
2og2_A	359	Putative signal recognition particle receptor; nuc	94.83
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	94.77
1ji0_A	240	ABC transporter; ATP binding protein, structural g	94.77
3ake_A	208	Cytidylate kinase; CMP kinase, CMP complex, open c	94.75
3r20_A	233	Cytidylate kinase; structural genomics, seattle st	94.75
1g6h_A	257	High-affinity branched-chain amino acid transport	94.74
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	94.74
2d2e_A	250	SUFC protein; ABC-ATPase, SUF protein, 310-helix,	94.74
4g1u_C	266	Hemin import ATP-binding protein HMUV; membrane tr	94.72
2olj_A	263	Amino acid ABC transporter; ABC domain, ATPase, hy	94.71
1np6_A	174	Molybdopterin-guanine dinucleotide biosynthesis pr	94.7
1e4v_A	214	Adenylate kinase; transferase(phosphotransferase);	94.68
2zu0_C	267	Probable ATP-dependent transporter SUFC; iron-sulf	94.65
1sgw_A	214	Putative ABC transporter; structural genomics, P p	94.64
2ff7_A	247	Alpha-hemolysin translocation ATP-binding protein	94.63
3d3q_A	340	TRNA delta(2)-isopentenylpyrophosphate transferase	94.62
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	94.61
1vpl_A	256	ABC transporter, ATP-binding protein; TM0544, stru	94.61
2xb4_A	223	Adenylate kinase; ATP-binding, nucleotide-binding,	94.59
3a8t_A	339	Adenylate isopentenyltransferase; rossmann fold pr	94.58
1g41_A	444	Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dep	94.56
2ixe_A	271	Antigen peptide transporter 1; ABC ATPase, hydrola	94.56
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	94.52
2ghi_A	260	Transport protein; multidrug resistance protein, M	94.52
2qi9_C	249	Vitamin B12 import ATP-binding protein BTUD; inner	94.5
1ltq_A	301	Polynucleotide kinase; phosphatase, alpha/beta, P-	94.5
2eyu_A	261	Twitching motility protein PILT; pilus retraction	94.49
2wji_A	165	Ferrous iron transport protein B homolog; membrane	94.49
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	94.48
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	94.48
2yz2_A	266	Putative ABC transporter ATP-binding protein TM_0;	94.46
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	94.45
2nq2_C	253	Hypothetical ABC transporter ATP-binding protein H	94.45
2iw3_A	986	Elongation factor 3A; acetylation, ATP-binding, pr	94.45
2ihy_A	279	ABC transporter, ATP-binding protein; ATPase, ABC	94.44
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	94.43
2fz4_A	237	DNA repair protein RAD25; RECA-like domain, DNA da	94.43
3crm_A	323	TRNA delta(2)-isopentenylpyrophosphate transferase	94.41
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	94.41
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	94.4
3zvl_A	416	Bifunctional polynucleotide phosphatase/kinase; hy	94.39
3exa_A	322	TRNA delta(2)-isopentenylpyrophosphate transferase	94.36
3hjn_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	94.34
3sop_A	270	Neuronal-specific septin-3; hydrolase; HET: GDP; 2	94.34
3foz_A	316	TRNA delta(2)-isopentenylpyrophosphate transferas;	94.33
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	94.3
3bgw_A	444	DNAB-like replicative helicase; ATPase, replicatio	94.29
2qe7_A	502	ATP synthase subunit alpha; blockage of ATP hydrol	94.29
2r9v_A	515	ATP synthase subunit alpha; TM1612, structural gen	94.26
4eaq_A	229	DTMP kinase, thymidylate kinase; structural genomi	94.26
4edh_A	213	DTMP kinase, thymidylate kinase; structural genomi	94.25
1a7j_A	290	Phosphoribulokinase; transferase, calvin cycle; 2.	94.22
2v3c_C	432	SRP54, signal recognition 54 kDa protein; nucleoti	94.22
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	94.2
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	94.17
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	94.16
2xau_A	773	PRE-mRNA-splicing factor ATP-dependent RNA helica;	94.15
1q3t_A	236	Cytidylate kinase; nucleotide monophosphate kinase	94.12
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	94.1
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	94.06
2pjz_A	263	Hypothetical protein ST1066; ATP binding protein,	94.05
2ocp_A	241	DGK, deoxyguanosine kinase; protein-nucleotide com	93.98
1nij_A	318	Hypothetical protein YJIA; structural genomics, P-	93.96
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	93.96
3vr4_D	465	V-type sodium ATPase subunit D; V-ATPase, rotary m	93.93
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	93.92
3k1j_A	604	LON protease, ATP-dependent protease LON; ATP-bind	93.91
1tue_A	212	Replication protein E1; helicase, replication, E1E	93.9
3gqb_B	464	V-type ATP synthase beta chain; A3B3, V-ATPase, AT	93.9
2bbs_A	290	Cystic fibrosis transmembrane conductance regulato	93.87
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	93.84
3ld9_A	223	DTMP kinase, thymidylate kinase; ssgcid, NIH, niai	93.83
3end_A	307	Light-independent protochlorophyllide reductase ir	93.83
2j9r_A	214	Thymidine kinase; TK1, DNK, lasso, transferase, AT	93.81
3nh6_A	306	ATP-binding cassette SUB-family B member 6, mitoc;	93.79
3fvq_A	359	Fe(3+) IONS import ATP-binding protein FBPC; nucle	93.78
2ck3_A	510	ATP synthase subunit alpha\, mitochondrial; hydrol	93.77
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	93.76
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	93.76
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	93.72
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	93.72
1tq4_A	413	IIGP1, interferon-inducible GTPase; interferon gam	93.71
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	93.67
3kta_A	182	Chromosome segregation protein SMC; structural mai	93.65
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	93.63
3lv8_A	236	DTMP kinase, thymidylate kinase; structural genomi	93.62
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	93.62
2p67_A	341	LAO/AO transport system kinase; ARGK, structural G	93.61
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	93.59
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	93.58
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	93.58
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	93.57
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	93.57
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	93.55
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	93.55
2aka_B	299	Dynamin-1; fusion protein, GTPase domain, myosin,	93.54
3mfy_A	588	V-type ATP synthase alpha chain; A-type ATP syntha	93.54
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	93.52
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	93.52
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	93.5
1z47_A	355	CYSA, putative ABC-transporter ATP-binding protein	93.49
1nrj_B	218	SR-beta, signal recognition particle receptor beta	93.48
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	93.48
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	93.48
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	93.45
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	93.45
2cxx_A	190	Probable GTP-binding protein ENGB; structural geno	93.42
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	93.4
2qmh_A	205	HPR kinase/phosphorylase; V267F mutation, ATP-bind	93.38
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	93.35
1lw7_A	365	Transcriptional regulator NADR; NMN, NMN adenylyl	93.33
3rlf_A	381	Maltose/maltodextrin import ATP-binding protein M;	93.32
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	93.31
2yyz_A	359	Sugar ABC transporter, ATP-binding protein; sugar	93.3
3eph_A	409	TRNA isopentenyltransferase; transferase, alternat	93.29
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	93.28
4tmk_A	213	Protein (thymidylate kinase); ATP:DTMP phosphotran	93.28
2zts_A	251	Putative uncharacterized protein PH0186; KAIC like	93.27
1p5z_B	263	DCK, deoxycytidine kinase; nucleoside kinase, P-lo	93.27
1u0j_A	267	DNA replication protein; AAA+ protein, P-loop atpa	93.27
2it1_A	362	362AA long hypothetical maltose/maltodextrin trans	93.26
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	93.25
2c61_A	469	A-type ATP synthase non-catalytic subunit B; hydro	93.23
3vkw_A	446	Replicase large subunit; alpha/beta domain, helica	93.23
3thx_A	934	DNA mismatch repair protein MSH2; ABC family ATPas	93.23
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	93.22
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	93.21
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	93.19
1g29_1	372	MALK, maltose transport protein MALK; ATPase, acti	93.19
2qnr_A	301	Septin-2, protein NEDD5; structural genomics conso	93.18
1fx0_A	507	ATP synthase alpha chain; latent ATPase, thermal s	93.17
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	93.17
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	93.14
1pui_A	210	ENGB, probable GTP-binding protein ENGB; structura	93.14
3oaa_A	513	ATP synthase subunit alpha; rossmann fold, hydrola	93.13
1v43_A	372	Sugar-binding transport ATP-binding protein; ATPas	93.13
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	93.11
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	93.08
1cp2_A	269	CP2, nitrogenase iron protein; oxidoreductase; 1.9	93.08
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	93.07
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	93.06
3vr4_A	600	V-type sodium ATPase catalytic subunit A; V-ATPase	93.03
3gmt_A	230	Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucle	93.01
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	93.0
3iev_A	308	GTP-binding protein ERA; ERA, GTPase, KH domain, a	93.0
2afh_E	289	Nitrogenase iron protein 1; nitrogen fixation, iro	92.99
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	92.99
3d31_A	348	Sulfate/molybdate ABC transporter, ATP-binding pro	92.98
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	92.96
3llu_A	196	RAS-related GTP-binding protein C; structural geno	92.96
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	92.95
4bas_A	199	ADP-ribosylation factor, putative (small GTPase, p	92.94
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	92.94
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	92.93
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	92.93
2obl_A	347	ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O	92.93
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	92.92
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	92.91
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	92.9
1ega_A	301	Protein (GTP-binding protein ERA); GTPase, RNA-bin	92.9
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	92.89
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	92.89
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	92.88
2axn_A	520	6-phosphofructo-2-kinase/fructose-2,6- biphosphata	92.88
3ch4_B	202	Pmkase, phosphomevalonate kinase; parallel beta-sh	92.87
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	92.84
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	92.83
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	92.81
2qu8_A	228	Putative nucleolar GTP-binding protein 1; GTPase,	92.79
1xx6_A	191	Thymidine kinase; NESG, northeast structural genom	92.78
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	92.77
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	92.76
3gd7_A	390	Fusion complex of cystic fibrosis transmembrane co	92.75
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	92.73
1oxx_K	353	GLCV, glucose, ABC transporter, ATP binding protei	92.72
2h92_A	219	Cytidylate kinase; rossmann fold, transferase; HET	92.72
2gza_A	361	Type IV secretion system protein VIRB11; ATPase, h	92.7
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	92.69
3f9v_A	595	Minichromosome maintenance protein MCM; replicativ	92.68
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	92.63
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	92.6
3lxx_A	239	GTPase IMAP family member 4; structural genomics c	92.6
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	92.6
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	92.6
2fh5_B	214	SR-beta, signal recognition particle receptor beta	92.58
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	92.58
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	92.56
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	92.56
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	92.54
1p9r_A	418	General secretion pathway protein E; bacterial typ	92.52
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	92.51
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	92.5
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	92.45
1h65_A	270	Chloroplast outer envelope protein OEP34; GTPase,	92.44
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	92.43
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	92.41
1g8f_A	511	Sulfate adenylyltransferase; alpha-beta protein, b	92.41
3def_A	262	T7I23.11 protein; chloroplast, TOC33, GTPase, hydr	92.39
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	92.39
3k53_A	271	Ferrous iron transport protein B; GTPase fold, hel	92.38
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	92.38
2orv_A	234	Thymidine kinase; TP4A (P1-(5'-adenosyl)P4-(5'- (2	92.36
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	92.36
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	92.36
3v9p_A	227	DTMP kinase, thymidylate kinase; ssgcid, STRU geno	92.33
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	92.31
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	92.3
4f4c_A	1321	Multidrug resistance protein PGP-1; ABC transporte	92.28
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	92.28
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	92.27
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	92.25
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	92.24
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	92.23
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	92.22
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	92.21
2qag_B	427	Septin-6, protein NEDD5; cell cycle, cell division	92.2
4dkx_A	216	RAS-related protein RAB-6A; GTP binding fold, memb	92.19
1bif_A	469	6-phosphofructo-2-kinase/ fructose-2,6-bisphospha;	92.18
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	92.17
2npi_A	460	Protein CLP1; CLP1-PCF11 complex, ATP binding, ter	92.17
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	92.16
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	92.11
1ny5_A	387	Transcriptional regulator (NTRC family); AAA+ ATPa	92.1
3cr8_A	552	Sulfate adenylyltranferase, adenylylsulfate kinase	92.1
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	92.09
3fdi_A	201	Uncharacterized protein; cytidylate kinase like pr	92.08
2h57_A	190	ADP-ribosylation factor-like protein 6; GTP, GTPas	92.05
1jwy_B	315	Dynamin A GTPase domain; dynamin, GTPase, GDP, myo	91.99
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	91.97
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	91.96
1f2t_A	149	RAD50 ABC-ATPase; DNA double-strand break repair,	91.93
1w36_D	608	RECD, exodeoxyribonuclease V alpha chain; recombin	91.87
2xtp_A	260	GTPase IMAP family member 2; immune system, G prot	91.86
4dzz_A	206	Plasmid partitioning protein PARF; deviant walker	91.84
3b6e_A	216	Interferon-induced helicase C domain-containing P;	91.84
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	91.82
4hlc_A	205	DTMP kinase, thymidylate kinase; TMK, MRSA, pipiri	91.81
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	91.79
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	91.79
3fkq_A	373	NTRC-like two-domain protein; RER070207001320, str	91.77
4akg_A	2695	Glutathione S-transferase class-MU 26 kDa isozyme	91.77
3gqb_A	578	V-type ATP synthase alpha chain; A3B3, V-ATPase, A	91.75
2dpy_A	438	FLII, flagellum-specific ATP synthase; beta barrel	91.75
2qag_C	418	Septin-7; cell cycle, cell division, GTP-binding,	91.58
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	91.58

>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=99.95  E-value=5.4e-28  Score=236.51  Aligned_cols=155  Identities=20%  Similarity=0.252  Sum_probs=129.0

Q ss_pred             ccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHh--hhhhhccCCeEEEEEeCCCC--CHHHHHHHH
Q 036619          187 CGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYN--NDEVKRNFEKVIWVCVSDTF--DQIRIAKAI  262 (352)
Q Consensus       187 ~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~--~~~~~~~F~~~~wv~vs~~~--~~~~~~~~i  262 (352)
                      |||+.++++|.++|.....   ...++|+|+||||+||||||+.+|+  +.+++.+|+.++||++++.+  +...++..|
T Consensus       131 ~GR~~~~~~l~~~L~~~~~---~~~~vv~I~G~gGvGKTtLA~~v~~~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~~~i  207 (549)
T 2a5y_B          131 YIREYHVDRVIKKLDEMCD---LDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGTAPKSTFDLFTDI  207 (549)
T ss_dssp             CCCHHHHHHHHHHHHHHTT---SSSEEEEEECSTTSSHHHHHHHHHHHCSSTBTTTBSEEEEEECCCCSTTHHHHHHHHH
T ss_pred             CCchHHHHHHHHHHhcccC---CCceEEEEEcCCCCCHHHHHHHHHHhhhHHHhccCCcEEEEEECCCCCCCHHHHHHHH
Confidence            6999999999999975431   4589999999999999999999998  67899999999999999985  899999999


Q ss_pred             HHHhCCCCC-------CcccHHHHHHHHHHhcCCc-eEEEEecCCCCCCccChhHHHHhhccCCCCcEEEEecCChHHHH
Q 036619          263 IEGLGKSAS-------GLNEFQSLMSRIQSSIKGK-KNFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKILVTTRNESVAR  334 (352)
Q Consensus       263 ~~~l~~~~~-------~~~~~~~~~~~l~~~l~~k-r~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTTR~~~va~  334 (352)
                      +.+++....       ...+.+.+...+++.|.++ ||||||||||+.+  .+     .++. .+||+||||||++.++.
T Consensus       208 l~~l~~~~~~~~~~~~~~~~~~~l~~~l~~~L~~~kr~LlVLDdv~~~~--~~-----~~~~-~~gs~ilvTTR~~~v~~  279 (549)
T 2a5y_B          208 LLMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVVQEE--TI-----RWAQ-ELRLRCLVTTRDVEISN  279 (549)
T ss_dssp             HHHHTTTSCCTTCCCCTTCCHHHHHHHHHHHHTTSTTEEEEEEEECCHH--HH-----HHHH-HTTCEEEEEESBGGGGG
T ss_pred             HHHHhcCcccccccccccccHHHHHHHHHHHHcCCCcEEEEEECCCCch--hh-----cccc-cCCCEEEEEcCCHHHHH
Confidence            999986521       1234577889999999996 9999999999863  22     1221 16999999999999998


Q ss_pred             HhCC-CCeeeCCCCCCCcC
Q 036619          335 MMGS-TDIISIEQLAEEEC  352 (352)
Q Consensus       335 ~~~~-~~~~~l~~L~~~es  352 (352)
                      .++. ..+|+|++|+++||
T Consensus       280 ~~~~~~~~~~l~~L~~~ea  298 (549)
T 2a5y_B          280 AASQTCEFIEVTSLEIDEC  298 (549)
T ss_dssp             GCCSCEEEEECCCCCHHHH
T ss_pred             HcCCCCeEEECCCCCHHHH
Confidence            8763 46899999998764

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A*

Probab=99.89  E-value=9.3e-24  Score=212.61  Aligned_cols=154  Identities=20%  Similarity=0.258  Sum_probs=121.2

Q ss_pred             ccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCe-EEEEEeCCCCCHHHHHHHHH
Q 036619          185 EVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEK-VIWVCVSDTFDQIRIAKAII  263 (352)
Q Consensus       185 ~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~-~~wv~vs~~~~~~~~~~~i~  263 (352)
                      ..+||+.++++|.++|....     ..++++|+||||+||||||+.+|++.+++.+|+. ++|+++++.++...++..|+
T Consensus       129 ~~VGRe~eLeeL~elL~~~d-----~~RVV~IvGmGGIGKTTLAk~Vy~d~rV~~~Fd~gV~WVsVs~~~d~~~IL~~Ll  203 (1221)
T 1vt4_I          129 YNVSRLQPYLKLRQALLELR-----PAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQ  203 (1221)
T ss_dssp             SCCCCHHHHHHHHHHHHHCC-----SSCEEEECCSTTSSHHHHHHHHHHHCHHHHHHSSCEEEEECCCSSSHHHHHHHHH
T ss_pred             CCCCcHHHHHHHHHHHhccC-----CCeEEEEEcCCCccHHHHHHHHHHhhHHHHhCCCcEEEEEeCCCCCHHHHHHHHH
Confidence            45999999999999997532     3689999999999999999999998889999986 99999999999988888887


Q ss_pred             HHhCCC------CCC-----cccHHHHHHHHHHhc---CCceEEEEecCCCCCCccChhHHHHhhccCCCCcEEEEecCC
Q 036619          264 EGLGKS------ASG-----LNEFQSLMSRIQSSI---KGKKNFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKILVTTRN  329 (352)
Q Consensus       264 ~~l~~~------~~~-----~~~~~~~~~~l~~~l---~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTTR~  329 (352)
                      ..++..      ...     ..+.+.+...+++.|   .+||+||||||||+.  +.|+.+    +   +||+||||||+
T Consensus       204 ~lL~~i~~~~~~~~d~~~~ip~~leeL~e~Lr~lL~~l~~KRvLLVLDDVwd~--eqLe~f----~---pGSRILVTTRd  274 (1221)
T 1vt4_I          204 KLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNA--KAWNAF----N---LSCKILLTTRF  274 (1221)
T ss_dssp             HHHHHHCSSSTTTSCCCSSHHHHHHHHHHHHHHHHHHSTTSSCEEEEESCCCH--HHHHHH----H---SSCCEEEECSC
T ss_pred             HHHhhcCcccccccccccCCCCCHHHHHHHHHHHHHhhcCCCEEEEEeCcChH--HHHHhh----C---CCeEEEEeccC
Confidence            754321      001     123456667777766   789999999999984  445543    3   69999999999


Q ss_pred             hHHHHHhCCCCeeeCC------CCCCCcC
Q 036619          330 ESVARMMGSTDIISIE------QLAEEEC  352 (352)
Q Consensus       330 ~~va~~~~~~~~~~l~------~L~~~es  352 (352)
                      +.++..+.....|+|+      +|+++||
T Consensus       275 ~~Va~~l~g~~vy~LeL~d~dL~LS~eEA  303 (1221)
T 1vt4_I          275 KQVTDFLSAATTTHISLDHHSMTLTPDEV  303 (1221)
T ss_dssp             SHHHHHHHHHSSCEEEECSSSSCCCHHHH
T ss_pred             hHHHHhcCCCeEEEecCccccCCcCHHHH
Confidence            9999755444456666      8887764

>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=99.86  E-value=6.1e-22  Score=210.78  Aligned_cols=159  Identities=23%  Similarity=0.316  Sum_probs=124.9

Q ss_pred             ccCCccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhh-hccC-CeEEEEEeCCCCC--HH
Q 036619          181 IDEGEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEV-KRNF-EKVIWVCVSDTFD--QI  256 (352)
Q Consensus       181 ~~~~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~-~~~F-~~~~wv~vs~~~~--~~  256 (352)
                      ...+.|+||++++++|.++|....    ...++++|+||||+||||||+++|++.+. ..+| +.++|+++++..+  ..
T Consensus       121 ~~~~~~vgR~~~~~~l~~~l~~~~----~~~~~v~i~G~gG~GKTtLa~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~  196 (1249)
T 3sfz_A          121 QRPVIFVTRKKLVHAIQQKLWKLN----GEPGWVTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWVSIGKQDKSGLL  196 (1249)
T ss_dssp             CCCSSCCCCHHHHHHHHHHHHTTT----TSCEEEEEECSTTSSHHHHHHHHTCCHHHHTTTSTTCEEEEECCSCCHHHHH
T ss_pred             CCCceeccHHHHHHHHHHHHhhcc----CCCCEEEEEeCCCCCHHHHHHHHhcChhHHHhhCCCeEEEEEECCcCchHHH
Confidence            344679999999999999997654    45899999999999999999999998654 4445 6788999998543  44


Q ss_pred             HHHHHHHHHhCCCCC----CcccHHHHHHHHHHhcCCc--eEEEEecCCCCCCccChhHHHHhhccCCCCcEEEEecCCh
Q 036619          257 RIAKAIIEGLGKSAS----GLNEFQSLMSRIQSSIKGK--KNFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKILVTTRNE  330 (352)
Q Consensus       257 ~~~~~i~~~l~~~~~----~~~~~~~~~~~l~~~l~~k--r~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTTR~~  330 (352)
                      ..+..++..+.....    ...+.+.+...++..|.++  ||||||||||+.  ..|..       ..+||+||||||++
T Consensus       197 ~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~LlvlDd~~~~--~~~~~-------~~~~~~ilvTtR~~  267 (1249)
T 3sfz_A          197 MKLQNLCMRLDQEESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDVWDP--WVLKA-------FDNQCQILLTTRDK  267 (1249)
T ss_dssp             HHHHHHHHHHTTTCTTCSSCCSSHHHHHHHHHHHTSSSSCSCEEEEESCCCH--HHHTT-------TCSSCEEEEEESST
T ss_pred             HHHHHHHHHhhhhcccccCCCCCHHHHHHHHHHHHhccCCCEEEEEecCCCH--HHHHh-------hcCCCEEEEEcCCH
Confidence            556777777765432    2356788899999999877  999999999975  33333       25799999999999


Q ss_pred             HHHHH-hCCCCeeeCCC-CCCCcC
Q 036619          331 SVARM-MGSTDIISIEQ-LAEEEC  352 (352)
Q Consensus       331 ~va~~-~~~~~~~~l~~-L~~~es  352 (352)
                      .++.. ++....+++.+ |+++||
T Consensus       268 ~~~~~~~~~~~~~~~~~~l~~~~a  291 (1249)
T 3sfz_A          268 SVTDSVMGPKHVVPVESGLGREKG  291 (1249)
T ss_dssp             TTTTTCCSCBCCEECCSSCCHHHH
T ss_pred             HHHHhhcCCceEEEecCCCCHHHH
Confidence            99854 45678899996 887764

>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation, ADP, nucleotide binding, CARD, apoptosis; HET: ADP; 2.21A {Homo sapiens}

Probab=99.81  E-value=2e-20  Score=184.77  Aligned_cols=155  Identities=22%  Similarity=0.304  Sum_probs=114.3

Q ss_pred             CCccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhh-hccC-CeEEEEEeCCCCCHHHHHH
Q 036619          183 EGEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEV-KRNF-EKVIWVCVSDTFDQIRIAK  260 (352)
Q Consensus       183 ~~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~-~~~F-~~~~wv~vs~~~~~~~~~~  260 (352)
                      .+.||||+.++++|.++|....    ...++++|+||||+||||||+.+|++..+ ..+| +.++|++++.. +...++.
T Consensus       123 ~~~~vGR~~~l~~L~~~L~~~~----~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~v~wv~~~~~-~~~~~~~  197 (591)
T 1z6t_A          123 PVVFVTRKKLVNAIQQKLSKLK----GEPGWVTIHGMAGCGKSVLAAEAVRDHSLLEGCFPGGVHWVSVGKQ-DKSGLLM  197 (591)
T ss_dssp             CSSCCCCHHHHHHHHHHHTTST----TSCEEEEEECCTTSSHHHHHHHHHCCHHHHHHHCTTCEEEEEEESC-CHHHHHH
T ss_pred             CCeecccHHHHHHHHHHHhccc----CCCceEEEEcCCCCCHHHHHHHHHhchhHHHhhCCCceEEEECCCC-chHHHHH
Confidence            3569999999999999997543    45789999999999999999999998766 7889 58999999875 3334444


Q ss_pred             HH---HHHhCCC----CCCcccHHHHHHHHHHhcCC--ceEEEEecCCCCCCccChhHHHHhhccCCCCcEEEEecCChH
Q 036619          261 AI---IEGLGKS----ASGLNEFQSLMSRIQSSIKG--KKNFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKILVTTRNES  331 (352)
Q Consensus       261 ~i---~~~l~~~----~~~~~~~~~~~~~l~~~l~~--kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTTR~~~  331 (352)
                      .+   +..++..    .....+.+.+...++..+.+  +++||||||+|+.     ..+ ..+   .+||+||||||++.
T Consensus       198 ~l~~l~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~LLVLDdv~~~-----~~l-~~l---~~~~~ilvTsR~~~  268 (591)
T 1z6t_A          198 KLQNLCTRLDQDESFSQRLPLNIEEAKDRLRILMLRKHPRSLLILDDVWDS-----WVL-KAF---DSQCQILLTTRDKS  268 (591)
T ss_dssp             HHHHHHHHHCSSCCSCSSCCCSHHHHHHHHHHHHHHTCTTCEEEEEEECCH-----HHH-HTT---CSSCEEEEEESCGG
T ss_pred             HHHHHHHHhccccccccCCCCCHHHHHHHHHHHHccCCCCeEEEEeCCCCH-----HHH-HHh---cCCCeEEEECCCcH
Confidence            43   4455421    12334567778888888865  7999999999863     222 223   46899999999999


Q ss_pred             HHHHhCCCCeeeC---CCCCCCcC
Q 036619          332 VARMMGSTDIISI---EQLAEEEC  352 (352)
Q Consensus       332 va~~~~~~~~~~l---~~L~~~es  352 (352)
                      ++..++ ...+++   ++|+++||
T Consensus       269 ~~~~~~-~~~~~v~~l~~L~~~ea  291 (591)
T 1z6t_A          269 VTDSVM-GPKYVVPVESSLGKEKG  291 (591)
T ss_dssp             GGTTCC-SCEEEEECCSSCCHHHH
T ss_pred             HHHhcC-CCceEeecCCCCCHHHH
Confidence            886543 334444   57887653

>3qfl_A MLA10; coiled-coil, (CC) domain, NLRS, nucleotide-binding domain, L rich repeat containing receptors, protein binding; 2.00A {Hordeum vulgare}

Probab=99.77  E-value=3.6e-19  Score=136.47  Aligned_cols=80  Identities=24%  Similarity=0.517  Sum_probs=73.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhCcHHHHHHHHHHHHHHHHHHHHHHhc--hhcCChHHHHHHHHHHHhhhcchHHH
Q 036619            4 AIVSSLLDQLNSIAQDQVKGKWRLVTGVEQEVGKLTTNLQAIQAVLEDAEQR--QMKQDKAVTFWLDQLIDASYDMEDVL   81 (352)
Q Consensus         4 ~~vs~~~~kl~~~l~~~~~~e~~~~~~v~~~~~~L~~~L~~i~~~l~~ae~~--~~~~~~~~~~Wl~~lr~~ayd~eD~l   81 (352)
                      |+|+++++||+++    +.+|+.++.||++++++|+++|++|++||.+|+.+  +.. ++.++.|++|||++|||+||||
T Consensus         1 a~v~~ll~KL~~l----l~~E~~l~~gv~~~i~~Lk~eL~~m~a~L~da~~~~~~~~-d~~vk~W~~~vrdlaYD~ED~i   75 (115)
T 3qfl_A            1 AAISNLIPKLGEL----LTEEFKLHKGVKKNIEDLGKELESMNAALIKIGEVPREQL-DSQDKLWADEVRELSYVIEDVV   75 (115)
T ss_dssp             CTTCSHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSCGGGC-CHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHH----HHHHHHHHhchHHHHHHHHHHHHHHHHHHHHHHHhccccC-CHHHHHHHHHHHHHHHHHHHHH
Confidence            3577888888887    77899999999999999999999999999999987  445 8999999999999999999999


Q ss_pred             HHHHHHH
Q 036619           82 EEWITET   88 (352)
Q Consensus        82 D~~~~~~   88 (352)
                      |+|.|+.
T Consensus        76 D~f~~~~   82 (115)
T 3qfl_A           76 DKFLVQV   82 (115)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHh
Confidence            9999775

>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=99.46  E-value=1.4e-13  Score=129.44  Aligned_cols=168  Identities=15%  Similarity=0.093  Sum_probs=107.9

Q ss_pred             CccccccchHHHHHHHH-cCccccCCCCeEEEEE--EecCCCcHHHHHHHHHhhhhhh---ccCC-eEEEEEeCCCCCHH
Q 036619          184 GEVCGRVDEKSELFSKL-LCESSEQQNGLQVISL--VGLGGIGKTTLAQLAYNNDEVK---RNFE-KVIWVCVSDTFDQI  256 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L-~~~~~~~~~~~~vi~I--~G~~GiGKTtLa~~v~~~~~~~---~~F~-~~~wv~vs~~~~~~  256 (352)
                      ..++||+.++++|..+| .....+.......+.|  +|++|+|||||++.+++.....   ..|+ ..+|+++....+..
T Consensus        22 ~~l~gR~~el~~l~~~l~~~~~~~~~~~~~~~li~i~G~~G~GKT~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  101 (412)
T 1w5s_A           22 PELRVRRGEAEALARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVNAFNAPNLY  101 (412)
T ss_dssp             SSCSSSCHHHHHHHHHHHHHHHTSSCBCCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEEEGGGCCSHH
T ss_pred             CCCCChHHHHHHHHHHHhHHHhcCCCCCCCEEEEeCcCcCCCCHHHHHHHHHHHHHHHHhccCCceeEEEEECCCCCCHH
Confidence            67999999999999988 4321100012345556  9999999999999999853221   1222 36788877777888


Q ss_pred             HHHHHHHHHhCCCCC-CcccHHHHHHHHHHhcC--CceEEEEecCCCCCCc------cChhHHHHhhccC---C--CCcE
Q 036619          257 RIAKAIIEGLGKSAS-GLNEFQSLMSRIQSSIK--GKKNFLVLDDVWDGDY------NKWQPFFRCLKNG---L--HGSK  322 (352)
Q Consensus       257 ~~~~~i~~~l~~~~~-~~~~~~~~~~~l~~~l~--~kr~LlVlDdvw~~~~------~~~~~l~~~l~~~---~--~gs~  322 (352)
                      .++..|+.+++...+ ...+...+...+.+.+.  +++++|||||+|....      +.+..+...+...   .  ....
T Consensus       102 ~~~~~l~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~llvlDe~~~l~~~~~~~~~~l~~l~~~~~~~~~~~~~~~v~  181 (412)
T 1w5s_A          102 TILSLIVRQTGYPIQVRGAPALDILKALVDNLYVENHYLLVILDEFQSMLSSPRIAAEDLYTLLRVHEEIPSRDGVNRIG  181 (412)
T ss_dssp             HHHHHHHHHHTCCCCCTTCCHHHHHHHHHHHHHHHTCEEEEEEESTHHHHSCTTSCHHHHHHHHTHHHHSCCTTSCCBEE
T ss_pred             HHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHHHhcCCeEEEEEeCHHHHhhccCcchHHHHHHHHHHHhcccCCCCceEE
Confidence            999999999876533 22334556666666664  7799999999977421      2233333333322   1  3344


Q ss_pred             EEEecCChHHHHHh--------CC-CCeeeCCCCCCCc
Q 036619          323 ILVTTRNESVARMM--------GS-TDIISIEQLAEEE  351 (352)
Q Consensus       323 IivTTR~~~va~~~--------~~-~~~~~l~~L~~~e  351 (352)
                      ||+||+...+...+        .. ...+++.+|+.++
T Consensus       182 lI~~~~~~~~~~~l~~~~~~~~~~~~~~i~l~~l~~~e  219 (412)
T 1w5s_A          182 FLLVASDVRALSYMREKIPQVESQIGFKLHLPAYKSRE  219 (412)
T ss_dssp             EEEEEEETHHHHHHHHHCHHHHTTCSEEEECCCCCHHH
T ss_pred             EEEEeccccHHHHHhhhcchhhhhcCCeeeeCCCCHHH
Confidence            78888766543221        11 2238999998764

>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus abyssi}

Probab=99.31  E-value=2.2e-12  Score=118.31  Aligned_cols=154  Identities=12%  Similarity=0.178  Sum_probs=101.7

Q ss_pred             cCCccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCC------CH
Q 036619          182 DEGEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTF------DQ  255 (352)
Q Consensus       182 ~~~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~------~~  255 (352)
                      ....++||+.++++|.+++..      .  +++.|+|++|+|||||++.+++..      . .+|+++....      +.
T Consensus        10 ~~~~~~gR~~el~~L~~~l~~------~--~~v~i~G~~G~GKT~Ll~~~~~~~------~-~~~~~~~~~~~~~~~~~~   74 (350)
T 2qen_A           10 RREDIFDREEESRKLEESLEN------Y--PLTLLLGIRRVGKSSLLRAFLNER------P-GILIDCRELYAERGHITR   74 (350)
T ss_dssp             SGGGSCSCHHHHHHHHHHHHH------C--SEEEEECCTTSSHHHHHHHHHHHS------S-EEEEEHHHHHHTTTCBCH
T ss_pred             ChHhcCChHHHHHHHHHHHhc------C--CeEEEECCCcCCHHHHHHHHHHHc------C-cEEEEeecccccccCCCH
Confidence            345799999999999998853      1  588999999999999999998742      2 6777765432      56


Q ss_pred             HHHHHHHHHHhCC----------------CCC--CcccHHHHHHHHHHhcCC-ceEEEEecCCCCCCc-------cChhH
Q 036619          256 IRIAKAIIEGLGK----------------SAS--GLNEFQSLMSRIQSSIKG-KKNFLVLDDVWDGDY-------NKWQP  309 (352)
Q Consensus       256 ~~~~~~i~~~l~~----------------~~~--~~~~~~~~~~~l~~~l~~-kr~LlVlDdvw~~~~-------~~~~~  309 (352)
                      ..++..+...+..                ...  ...+...+...+.+.... ++++|||||++..+.       ..+..
T Consensus        75 ~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~vlvlDe~~~~~~~~~~~~~~~~~~  154 (350)
T 2qen_A           75 EELIKELQSTISPFQKFQSKFKISLNLKFLTLEPRKLSLREVFRELNDLGEELGEFIVAFDEAQYLRFYGSRGGKELLAL  154 (350)
T ss_dssp             HHHHHHHHHHSCSHHHHHHHHTCCCCCGGGTSCGGGCCHHHHHHHHHHHHHHHSCEEEEEETGGGGGGBTTTTTHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhHhhhceeEEEecceeeccccchHHHHHHHHHHHHhccCCEEEEEeCHHHHhccCccchhhHHHH
Confidence            6677777665542                000  123456666667666543 389999999977432       12333


Q ss_pred             HHHhhccCCCCcEEEEecCChHH-HHH----------hCC-CCeeeCCCCCCCc
Q 036619          310 FFRCLKNGLHGSKILVTTRNESV-ARM----------MGS-TDIISIEQLAEEE  351 (352)
Q Consensus       310 l~~~l~~~~~gs~IivTTR~~~v-a~~----------~~~-~~~~~l~~L~~~e  351 (352)
                      +...+... ++.++|+|++...+ ...          .+. ...++|.||+.+|
T Consensus       155 L~~~~~~~-~~~~~il~g~~~~~l~~~l~~~~~~~~l~~~~~~~i~l~pl~~~e  207 (350)
T 2qen_A          155 FAYAYDSL-PNLKIILTGSEVGLLHDFLKITDYESPLYGRIAGEVLVKPFDKDT  207 (350)
T ss_dssp             HHHHHHHC-TTEEEEEEESSHHHHHHHHCTTCTTSTTTTCCCEEEECCCCCHHH
T ss_pred             HHHHHHhc-CCeEEEEECCcHHHHHHHHhhcCCCCccccCccceeeCCCCCHHH
Confidence            33333322 47789999887654 322          011 2378999999765

>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=99.31  E-value=6.4e-12  Score=116.94  Aligned_cols=166  Identities=13%  Similarity=0.079  Sum_probs=110.1

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhc----c--CCeEEEEEeCCCC-CHH
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKR----N--FEKVIWVCVSDTF-DQI  256 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~----~--F~~~~wv~vs~~~-~~~  256 (352)
                      ..++||+.+++++..+|.....  ....+.+.|+|++|+|||+||+.+++...-..    .  ....+|++++... +..
T Consensus        20 ~~l~gr~~~~~~l~~~l~~~~~--~~~~~~vll~G~~G~GKT~la~~l~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~   97 (384)
T 2qby_B           20 KEIPFREDILRDAAIAIRYFVK--NEVKFSNLFLGLTGTGKTFVSKYIFNEIEEVKKEDEEYKDVKQAYVNCREVGGTPQ   97 (384)
T ss_dssp             SSCTTCHHHHHHHHHHHHHHHT--TCCCCEEEEEECTTSSHHHHHHHHHHHHHHHHHHSSSSTTCEEEEEEHHHHCSCHH
T ss_pred             CCCCChHHHHHHHHHHHHHHHc--CCCCCcEEEECCCCCCHHHHHHHHHHHHHHHhhhhcCCCCceEEEEECccCCCCHH
Confidence            6799999999999988754221  13356889999999999999999998532211    1  3457788877766 888


Q ss_pred             HHHHHHHHHhCCCCC--CcccHHHHHHHHHHhcCCceEEEEecCCCCCCccChhHH-HHhhccCCCCcEEEEecCChHH-
Q 036619          257 RIAKAIIEGLGKSAS--GLNEFQSLMSRIQSSIKGKKNFLVLDDVWDGDYNKWQPF-FRCLKNGLHGSKILVTTRNESV-  332 (352)
Q Consensus       257 ~~~~~i~~~l~~~~~--~~~~~~~~~~~l~~~l~~kr~LlVlDdvw~~~~~~~~~l-~~~l~~~~~gs~IivTTR~~~v-  332 (352)
                      .++..++..+.+...  .......+...+.+.+..++.+|||||++......+..+ ...+.....+..||+||+.... 
T Consensus        98 ~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~vlilDEi~~l~~~~~~~~~l~~l~~~~~~~~iI~~t~~~~~~  177 (384)
T 2qby_B           98 AVLSSLAGKLTGFSVPKHGINLGEYIDKIKNGTRNIRAIIYLDEVDTLVKRRGGDIVLYQLLRSDANISVIMISNDINVR  177 (384)
T ss_dssp             HHHHHHHHHHHCSCCCSSSSCTHHHHHHHHHHHSSSCEEEEEETTHHHHHSTTSHHHHHHHHTSSSCEEEEEECSSTTTT
T ss_pred             HHHHHHHHHhcCCCCCCCCCCHHHHHHHHHHHhccCCCEEEEECHHHhccCCCCceeHHHHhcCCcceEEEEEECCCchH
Confidence            888999888843322  122345667777788877666999999976432222222 3333332267788999886521 


Q ss_pred             ---HHHh--CCCCeeeCCCCCCCc
Q 036619          333 ---ARMM--GSTDIISIEQLAEEE  351 (352)
Q Consensus       333 ---a~~~--~~~~~~~l~~L~~~e  351 (352)
                         ...+  .....+++.+++.++
T Consensus       178 ~~l~~~l~sr~~~~i~l~~l~~~~  201 (384)
T 2qby_B          178 DYMEPRVLSSLGPSVIFKPYDAEQ  201 (384)
T ss_dssp             TTSCHHHHHTCCCEEEECCCCHHH
T ss_pred             hhhCHHHHhcCCCeEEECCCCHHH
Confidence               1111  112388999987654

>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=99.29  E-value=2.2e-11  Score=113.39  Aligned_cols=166  Identities=14%  Similarity=0.132  Sum_probs=112.8

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhcc-CCeEEEEEeCCCCCHHHHHHHH
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRN-FEKVIWVCVSDTFDQIRIAKAI  262 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~-F~~~~wv~vs~~~~~~~~~~~i  262 (352)
                      ..++||+.+++++..++.....+.....+.+.|+|++|+|||||++.+++.  .... -...+|++++...+...++..+
T Consensus        17 ~~l~gr~~~~~~l~~~l~~~~~~~~~~~~~~li~G~~G~GKTtl~~~l~~~--~~~~~~~~~~~i~~~~~~~~~~~~~~l   94 (389)
T 1fnn_A           17 KRLPHREQQLQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWEL--YKDKTTARFVYINGFIYRNFTAIIGEI   94 (389)
T ss_dssp             SCCTTCHHHHHHHHHHHHHHHHSTTSSCCEEEEECCTTSSHHHHHHHHHHH--HTTSCCCEEEEEETTTCCSHHHHHHHH
T ss_pred             CCCCChHHHHHHHHHHHHHHHcCCCCCCCeEEEECCCCCCHHHHHHHHHHH--HhhhcCeeEEEEeCccCCCHHHHHHHH
Confidence            679999999999999886532111123348889999999999999999974  3222 1356788888888888999999


Q ss_pred             HHHhCCCCCC-cccHHHHHHHHHHhc--CCceEEEEecCCCCCCccChhHHHHhhccCC----CCcEEEEecCChHHHHH
Q 036619          263 IEGLGKSASG-LNEFQSLMSRIQSSI--KGKKNFLVLDDVWDGDYNKWQPFFRCLKNGL----HGSKILVTTRNESVARM  335 (352)
Q Consensus       263 ~~~l~~~~~~-~~~~~~~~~~l~~~l--~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~----~gs~IivTTR~~~va~~  335 (352)
                      +..++...+. ......+...+...+  .+++.+||||+++..+......|...+....    .+..||++|+.......
T Consensus        95 ~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDE~~~l~~~~~~~L~~~~~~~~~~~~~~~~iI~~~~~~~~~~~  174 (389)
T 1fnn_A           95 ARSLNIPFPRRGLSRDEFLALLVEHLRERDLYMFLVLDDAFNLAPDILSTFIRLGQEADKLGAFRIALVIVGHNDAVLNN  174 (389)
T ss_dssp             HHHTTCCCCSSCCCHHHHHHHHHHHHHHTTCCEEEEEETGGGSCHHHHHHHHHHTTCHHHHSSCCEEEEEEESSTHHHHT
T ss_pred             HHHhCccCCCCCCCHHHHHHHHHHHHhhcCCeEEEEEECccccchHHHHHHHHHHHhCCCCCcCCEEEEEEECCchHHHH
Confidence            9988754322 224455566666655  3668899999998765445555655553211    36678888877644332


Q ss_pred             hC-------CCCeeeCCCCCCCc
Q 036619          336 MG-------STDIISIEQLAEEE  351 (352)
Q Consensus       336 ~~-------~~~~~~l~~L~~~e  351 (352)
                      +.       ....+++.+++.++
T Consensus       175 l~~~~~~r~~~~~i~~~pl~~~~  197 (389)
T 1fnn_A          175 LDPSTRGIMGKYVIRFSPYTKDQ  197 (389)
T ss_dssp             SCHHHHHHHTTCEEECCCCBHHH
T ss_pred             hCHHhhhcCCCceEEeCCCCHHH
Confidence            21       12368899887654

>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=99.27  E-value=2.5e-11  Score=111.45  Aligned_cols=152  Identities=16%  Similarity=0.241  Sum_probs=96.6

Q ss_pred             CCccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCC-----CCHHH
Q 036619          183 EGEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDT-----FDQIR  257 (352)
Q Consensus       183 ~~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~-----~~~~~  257 (352)
                      ...++||+.+++.|.+ +..         +++.|+|++|+|||+|++.+.+..  ..   ..+|+++...     .+...
T Consensus        12 ~~~~~gR~~el~~L~~-l~~---------~~v~i~G~~G~GKT~L~~~~~~~~--~~---~~~~~~~~~~~~~~~~~~~~   76 (357)
T 2fna_A           12 RKDFFDREKEIEKLKG-LRA---------PITLVLGLRRTGKSSIIKIGINEL--NL---PYIYLDLRKFEERNYISYKD   76 (357)
T ss_dssp             GGGSCCCHHHHHHHHH-TCS---------SEEEEEESTTSSHHHHHHHHHHHH--TC---CEEEEEGGGGTTCSCCCHHH
T ss_pred             HHHhcChHHHHHHHHH-hcC---------CcEEEECCCCCCHHHHHHHHHHhc--CC---CEEEEEchhhccccCCCHHH
Confidence            3569999999999998 632         489999999999999999999752  22   2578887642     34455


Q ss_pred             HHHHHHHHhCC-------------C-----CC-----------CcccHHHHHHHHHHhcCCceEEEEecCCCCCC----c
Q 036619          258 IAKAIIEGLGK-------------S-----AS-----------GLNEFQSLMSRIQSSIKGKKNFLVLDDVWDGD----Y  304 (352)
Q Consensus       258 ~~~~i~~~l~~-------------~-----~~-----------~~~~~~~~~~~l~~~l~~kr~LlVlDdvw~~~----~  304 (352)
                      ++..+.+.+..             .     .+           .......+...+.+... ++++|||||++..+    .
T Consensus        77 ~~~~l~~~l~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~-~~~vlvlDe~~~~~~~~~~  155 (357)
T 2fna_A           77 FLLELQKEINKLVKRLPSLLKALKNIQGIVIMGNEIKFNWNRKDRLSFANLLESFEQASK-DNVIIVLDEAQELVKLRGV  155 (357)
T ss_dssp             HHHHHHHHHHHHHHHCTTHHHHTTTSTTEEECSSSEEEC-----CCCHHHHHHHHHHTCS-SCEEEEEETGGGGGGCTTC
T ss_pred             HHHHHHHHHHHHhhhhhHHHHHhcccceEEecceEEEeccCCcchhhHHHHHHHHHhcCC-CCeEEEEECHHHhhccCch
Confidence            55554443310             0     00           12345556666655433 49999999997742    1


Q ss_pred             cChhHHHHhhccCCCCcEEEEecCChHH-HHH---------h-CC-CCeeeCCCCCCCc
Q 036619          305 NKWQPFFRCLKNGLHGSKILVTTRNESV-ARM---------M-GS-TDIISIEQLAEEE  351 (352)
Q Consensus       305 ~~~~~l~~~l~~~~~gs~IivTTR~~~v-a~~---------~-~~-~~~~~l~~L~~~e  351 (352)
                      +.+..+...... .++.++|+|++.... ...         + +. ...++|.+|+.+|
T Consensus       156 ~~~~~l~~~~~~-~~~~~~i~~g~~~~~l~~~l~~~~~~~~l~~r~~~~i~l~~l~~~e  213 (357)
T 2fna_A          156 NLLPALAYAYDN-LKRIKFIMSGSEMGLLYDYLRVEDPESPLFGRAFSTVELKPFSREE  213 (357)
T ss_dssp             CCHHHHHHHHHH-CTTEEEEEEESSHHHHHHHTTTTCTTSTTTTCCCEEEEECCCCHHH
T ss_pred             hHHHHHHHHHHc-CCCeEEEEEcCchHHHHHHHhccCCCCccccCccceeecCCCCHHH
Confidence            233334333332 246789999998754 222         1 11 2578999998765

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=99.26  E-value=2.3e-11  Score=113.00  Aligned_cols=166  Identities=18%  Similarity=0.119  Sum_probs=107.9

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhc---c-CCeEEEEEeCCCCCHHHHH
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKR---N-FEKVIWVCVSDTFDQIRIA  259 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~---~-F~~~~wv~vs~~~~~~~~~  259 (352)
                      ..++||+.+++++..+|...-.  ......+.|+|++|+||||||+.+++...-..   . -...+|+++....+...++
T Consensus        19 ~~~~gr~~~~~~l~~~l~~~~~--~~~~~~vll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~   96 (387)
T 2v1u_A           19 DVLPHREAELRRLAEVLAPALR--GEKPSNALLYGLTGTGKTAVARLVLRRLEARASSLGVLVKPIYVNARHRETPYRVA   96 (387)
T ss_dssp             SCCTTCHHHHHHHHHTTGGGTS--SCCCCCEEECBCTTSSHHHHHHHHHHHHHHHHHHHTCCEEEEEEETTTSCSHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHc--CCCCCcEEEECCCCCCHHHHHHHHHHHHHHHHhccCCCeEEEEEECCcCCCHHHHH
Confidence            6799999999999998854311  13456788999999999999999997532110   1 1356788888888889999


Q ss_pred             HHHHHHhCCCCCC-cccHHHHHHHHHHhc--CCceEEEEecCCCCCCcc--ChhHHHHhhccC-----CCCcEEEEecCC
Q 036619          260 KAIIEGLGKSASG-LNEFQSLMSRIQSSI--KGKKNFLVLDDVWDGDYN--KWQPFFRCLKNG-----LHGSKILVTTRN  329 (352)
Q Consensus       260 ~~i~~~l~~~~~~-~~~~~~~~~~l~~~l--~~kr~LlVlDdvw~~~~~--~~~~l~~~l~~~-----~~gs~IivTTR~  329 (352)
                      ..++..++...+. ......+...+.+.+  .+++.+||||+++.....  ..+.+...+...     ..+..+|.||+.
T Consensus        97 ~~l~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDEi~~l~~~~~~~~~l~~l~~~~~~~~~~~~~~~I~~t~~  176 (387)
T 2v1u_A           97 SAIAEAVGVRVPFTGLSVGEVYERLVKRLSRLRGIYIIVLDEIDFLPKRPGGQDLLYRITRINQELGDRVWVSLVGITNS  176 (387)
T ss_dssp             HHHHHHHSCCCCSSCCCHHHHHHHHHHHHTTSCSEEEEEEETTTHHHHSTTHHHHHHHHHHGGGCC-----CEEEEECSC
T ss_pred             HHHHHHhCCCCCCCCCCHHHHHHHHHHHHhccCCeEEEEEccHhhhcccCCCChHHHhHhhchhhcCCCceEEEEEEECC
Confidence            9999999764332 233555666666666  456899999999764322  223343333211     345677888776


Q ss_pred             hHH----HHHh-CC--CCeeeCCCCCCCc
Q 036619          330 ESV----ARMM-GS--TDIISIEQLAEEE  351 (352)
Q Consensus       330 ~~v----a~~~-~~--~~~~~l~~L~~~e  351 (352)
                      ...    ...+ ..  ...+++.+++.++
T Consensus       177 ~~~~~~l~~~l~~r~~~~~i~l~~l~~~~  205 (387)
T 2v1u_A          177 LGFVENLEPRVKSSLGEVELVFPPYTAPQ  205 (387)
T ss_dssp             STTSSSSCHHHHTTTTSEECCBCCCCHHH
T ss_pred             CchHhhhCHHHHhcCCCeEEeeCCCCHHH
Confidence            522    1111 11  2468888887654

>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=99.24  E-value=1.1e-11  Score=115.23  Aligned_cols=164  Identities=18%  Similarity=0.217  Sum_probs=106.5

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccC---CeEEEEEeCCCCCHHHHHH
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNF---EKVIWVCVSDTFDQIRIAK  260 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F---~~~~wv~vs~~~~~~~~~~  260 (352)
                      ..++||+.+++.+.+++.....  ......+.|+|++|+|||||++.+++.  ....+   ...+|+++....+...++.
T Consensus        20 ~~~~gr~~e~~~l~~~l~~~~~--~~~~~~vli~G~~G~GKTtl~~~l~~~--~~~~~~~~~~~~~i~~~~~~~~~~~~~   95 (386)
T 2qby_A           20 DELPHREDQIRKIASILAPLYR--EEKPNNIFIYGLTGTGKTAVVKFVLSK--LHKKFLGKFKHVYINTRQIDTPYRVLA   95 (386)
T ss_dssp             SCCTTCHHHHHHHHHSSGGGGG--TCCCCCEEEEECTTSSHHHHHHHHHHH--HHHHTCSSCEEEEEEHHHHCSHHHHHH
T ss_pred             CCCCChHHHHHHHHHHHHHHHc--CCCCCeEEEECCCCCCHHHHHHHHHHH--HHHHhcCCceEEEEECCCCCCHHHHHH
Confidence            6799999999999998864311  134568889999999999999999984  33322   3567888777667778888


Q ss_pred             HHHHHhCCCCC-CcccHHHHHHHHHHhcC--CceEEEEecCCCCCC----ccChhHHHHhhcc-CCCCcEEEEecCChHH
Q 036619          261 AIIEGLGKSAS-GLNEFQSLMSRIQSSIK--GKKNFLVLDDVWDGD----YNKWQPFFRCLKN-GLHGSKILVTTRNESV  332 (352)
Q Consensus       261 ~i~~~l~~~~~-~~~~~~~~~~~l~~~l~--~kr~LlVlDdvw~~~----~~~~~~l~~~l~~-~~~gs~IivTTR~~~v  332 (352)
                      .++..++.... ...+...+...+.+.+.  +++.+||||+++...    ...+..+...+.. ...+..+|+||+....
T Consensus        96 ~i~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDE~~~l~~~~~~~~l~~l~~~~~~~~~~~~~~I~~~~~~~~  175 (386)
T 2qby_A           96 DLLESLDVKVPFTGLSIAELYRRLVKAVRDYGSQVVIVLDEIDAFVKKYNDDILYKLSRINSEVNKSKISFIGITNDVKF  175 (386)
T ss_dssp             HHTTTTSCCCCSSSCCHHHHHHHHHHHHHTCCSCEEEEEETHHHHHHSSCSTHHHHHHHHHHSCCC--EEEEEEESCGGG
T ss_pred             HHHHHhCCCCCCCCCCHHHHHHHHHHHHhccCCeEEEEEcChhhhhccCcCHHHHHHhhchhhcCCCeEEEEEEECCCCh
Confidence            88887765432 12234555556666553  458999999996632    2334444444422 2235567888876543


Q ss_pred             HHHhC-----C--CCeeeCCCCCCCc
Q 036619          333 ARMMG-----S--TDIISIEQLAEEE  351 (352)
Q Consensus       333 a~~~~-----~--~~~~~l~~L~~~e  351 (352)
                      ...+.     .  ...+++.+|+.++
T Consensus       176 ~~~~~~~~~~r~~~~~i~l~~l~~~~  201 (386)
T 2qby_A          176 VDLLDPRVKSSLSEEEIIFPPYNAEE  201 (386)
T ss_dssp             GGGCTTHHHHTTTTEEEEECCCCHHH
T ss_pred             HhhhCHHHhccCCCeeEEeCCCCHHH
Confidence            22111     1  2478999998654

>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=99.12  E-value=5.2e-10  Score=95.30  Aligned_cols=146  Identities=14%  Similarity=0.104  Sum_probs=90.9

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCC-eEEEEEeCCCCCHHHHHHHH
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFE-KVIWVCVSDTFDQIRIAKAI  262 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~-~~~wv~vs~~~~~~~~~~~i  262 (352)
                      ..++|++..++.+.+++....      ...+.|+|++|+|||+||+.+++... ...+. ..+.++.+.......+...+
T Consensus        17 ~~~~g~~~~~~~l~~~l~~~~------~~~~ll~G~~G~GKT~l~~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~   89 (226)
T 2chg_A           17 DEVVGQDEVIQRLKGYVERKN------IPHLLFSGPPGTGKTATAIALARDLF-GENWRDNFIEMNASDERGIDVVRHKI   89 (226)
T ss_dssp             GGCCSCHHHHHHHHHHHHTTC------CCCEEEECSTTSSHHHHHHHHHHHHH-GGGGGGGEEEEETTCTTCHHHHHHHH
T ss_pred             HHHcCcHHHHHHHHHHHhCCC------CCeEEEECCCCCCHHHHHHHHHHHHh-ccccccceEEeccccccChHHHHHHH
Confidence            458999999999999986533      22388999999999999999987421 11221 23344444433332222211


Q ss_pred             HHHhCCCCCCcccHHHHHHHHHHhcCCceEEEEecCCCCCCccChhHHHHhhccCCCCcEEEEecCChH-HH-HHhCCCC
Q 036619          263 IEGLGKSASGLNEFQSLMSRIQSSIKGKKNFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKILVTTRNES-VA-RMMGSTD  340 (352)
Q Consensus       263 ~~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTTR~~~-va-~~~~~~~  340 (352)
                      .......               ....+++.+|||||++.......+.+...+.....++++|+||+... +. .......
T Consensus        90 ~~~~~~~---------------~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~~~~~~l~~r~~  154 (226)
T 2chg_A           90 KEFARTA---------------PIGGAPFKIIFLDEADALTADAQAALRRTMEMYSKSCRFILSCNYVSRIIEPIQSRCA  154 (226)
T ss_dssp             HHHHTSC---------------CSTTCSCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSE
T ss_pred             HHHhccc---------------CCCccCceEEEEeChhhcCHHHHHHHHHHHHhcCCCCeEEEEeCChhhcCHHHHHhCc
Confidence            1111100               01136789999999987655556677777776666788888887653 21 1222344


Q ss_pred             eeeCCCCCCCc
Q 036619          341 IISIEQLAEEE  351 (352)
Q Consensus       341 ~~~l~~L~~~e  351 (352)
                      .+++.+++.++
T Consensus       155 ~i~~~~~~~~~  165 (226)
T 2chg_A          155 VFRFKPVPKEA  165 (226)
T ss_dssp             EEECCCCCHHH
T ss_pred             eeecCCCCHHH
Confidence            78888888654

>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=99.09  E-value=4.8e-10  Score=96.76  Aligned_cols=156  Identities=15%  Similarity=0.189  Sum_probs=90.8

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHH
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAII  263 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~  263 (352)
                      ..++||+..++.|..++....     ....+.|+|++|+||||||+.+++.......+..      ........ ...+.
T Consensus        23 ~~~~g~~~~~~~l~~~l~~~~-----~~~~~ll~G~~G~GKT~l~~~~~~~~~~~~~~~~------~~~~~~~~-~~~~~   90 (250)
T 1njg_A           23 ADVVGQEHVLTALANGLSLGR-----IHHAYLFSGTRGVGKTSIARLLAKGLNCETGITA------TPCGVCDN-CREIE   90 (250)
T ss_dssp             GGCCSCHHHHHHHHHHHHHTC-----CCSEEEEECSTTSCHHHHHHHHHHHHHCTTCSCS------SCCSCSHH-HHHHH
T ss_pred             HHHhCcHHHHHHHHHHHHcCC-----CCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCC------CCCcccHH-HHHHh
Confidence            458999999999999886532     2357889999999999999999875322111100      00000000 01111


Q ss_pred             HHhCC-----CCCCcccHHHHHHHHHHh----cCCceEEEEecCCCCCCccChhHHHHhhccCCCCcEEEEecCChH-HH
Q 036619          264 EGLGK-----SASGLNEFQSLMSRIQSS----IKGKKNFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKILVTTRNES-VA  333 (352)
Q Consensus       264 ~~l~~-----~~~~~~~~~~~~~~l~~~----l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTTR~~~-va  333 (352)
                      .....     ........+.+...+...    ..+++.+|||||++..+...++.+...+.....+..+|+||+... +.
T Consensus        91 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vlviDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~t~~~~~~~  170 (250)
T 1njg_A           91 QGRFVDLIEIDAASRTKVEDTRDLLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLP  170 (250)
T ss_dssp             TTCCSSEEEEETTCGGGHHHHHHHHHSCCCSCSSSSSEEEEEETGGGSCHHHHHHHHHHHHSCCTTEEEEEEESCGGGSC
T ss_pred             ccCCcceEEecCcccccHHHHHHHHHHhhhchhcCCceEEEEECcccccHHHHHHHHHHHhcCCCceEEEEEeCChHhCC
Confidence            00000     000111122222222221    245689999999987665677888888876666788888887643 22


Q ss_pred             H-HhCCCCeeeCCCCCCCc
Q 036619          334 R-MMGSTDIISIEQLAEEE  351 (352)
Q Consensus       334 ~-~~~~~~~~~l~~L~~~e  351 (352)
                      . .......+++.+|+.+|
T Consensus       171 ~~l~~r~~~i~l~~l~~~e  189 (250)
T 1njg_A          171 VTILSRCLQFHLKALDVEQ  189 (250)
T ss_dssp             HHHHTTSEEEECCCCCHHH
T ss_pred             HHHHHHhhhccCCCCCHHH
Confidence            2 22334678999998754

>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=98.92  E-value=2.5e-09  Score=96.82  Aligned_cols=146  Identities=16%  Similarity=0.216  Sum_probs=90.1

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccC-CeEEEEEeCCCCCHHHHHHHH
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNF-EKVIWVCVSDTFDQIRIAKAI  262 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F-~~~~wv~vs~~~~~~~~~~~i  262 (352)
                      ..++|++..++.+.+++....      .+.+.|+|++|+|||++|+.+++.-.. ..+ ...++++.+....... ++++
T Consensus        21 ~~~~g~~~~~~~l~~~l~~~~------~~~~ll~G~~G~GKt~la~~l~~~l~~-~~~~~~~~~~~~~~~~~~~~-i~~~   92 (323)
T 1sxj_B           21 SDIVGNKETIDRLQQIAKDGN------MPHMIISGMPGIGKTTSVHCLAHELLG-RSYADGVLELNASDDRGIDV-VRNQ   92 (323)
T ss_dssp             GGCCSCTHHHHHHHHHHHSCC------CCCEEEECSTTSSHHHHHHHHHHHHHG-GGHHHHEEEECTTSCCSHHH-HHTH
T ss_pred             HHHHCCHHHHHHHHHHHHcCC------CCeEEEECcCCCCHHHHHHHHHHHhcC-CcccCCEEEecCccccChHH-HHHH
Confidence            458999999999999986533      223889999999999999999875211 111 1234444443322221 1122


Q ss_pred             HHHhCCCCCCcccHHHHHHHHHHhc-CCceEEEEecCCCCCCccChhHHHHhhccCCCCcEEEEecCChH-HHHH-hCCC
Q 036619          263 IEGLGKSASGLNEFQSLMSRIQSSI-KGKKNFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKILVTTRNES-VARM-MGST  339 (352)
Q Consensus       263 ~~~l~~~~~~~~~~~~~~~~l~~~l-~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTTR~~~-va~~-~~~~  339 (352)
                      +..+...              ...+ .+++.+|||||++......++.|...+.....++.+|+||.... +... ....
T Consensus        93 ~~~~~~~--------------~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~il~~~~~~~l~~~l~sr~  158 (323)
T 1sxj_B           93 IKHFAQK--------------KLHLPPGKHKIVILDEADSMTAGAQQALRRTMELYSNSTRFAFACNQSNKIIEPLQSQC  158 (323)
T ss_dssp             HHHHHHB--------------CCCCCTTCCEEEEEESGGGSCHHHHHTTHHHHHHTTTTEEEEEEESCGGGSCHHHHTTS
T ss_pred             HHHHHhc--------------cccCCCCCceEEEEECcccCCHHHHHHHHHHHhccCCCceEEEEeCChhhchhHHHhhc
Confidence            2211100              0011 45689999999987655567777777776666788888876542 2222 2334


Q ss_pred             CeeeCCCCCCCc
Q 036619          340 DIISIEQLAEEE  351 (352)
Q Consensus       340 ~~~~l~~L~~~e  351 (352)
                      ..+++.+++.++
T Consensus       159 ~~i~~~~~~~~~  170 (323)
T 1sxj_B          159 AILRYSKLSDED  170 (323)
T ss_dssp             EEEECCCCCHHH
T ss_pred             eEEeecCCCHHH
Confidence            578898888654

>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR complex, HMR, HML, TELO AAA+ domain, structural, nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}

Probab=98.88  E-value=1.4e-08  Score=91.46  Aligned_cols=126  Identities=10%  Similarity=0.006  Sum_probs=83.7

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhc------cCCeEEEEEeCCCCCHHH
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKR------NFEKVIWVCVSDTFDQIR  257 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~------~F~~~~wv~vs~~~~~~~  257 (352)
                      ..+.||++|+++|...|...-.  ......+.|+|++|+|||++++.|.+.-....      .| ..+.|++....+...
T Consensus        20 ~~L~~Re~E~~~i~~~L~~~i~--~~~~~~lli~GpPGTGKT~~v~~v~~~L~~~~~~~~~~~~-~~v~INc~~~~t~~~   96 (318)
T 3te6_A           20 ELLKSQVEDFTRIFLPIYDSLM--SSQNKLFYITNADDSTKFQLVNDVMDELITSSARKELPIF-DYIHIDALELAGMDA   96 (318)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHH--TTCCCEEEEECCCSHHHHHHHHHHHHHHHHTTTTTSSCCE-EEEEEETTCCC--HH
T ss_pred             cccCCHHHHHHHHHHHHHHHhc--CCCCCeEEEECCCCCCHHHHHHHHHHHHHHHhhhccCCce-EEEEEeccccCCHHH
Confidence            3489999999999988865432  14567788999999999999999998532211      12 456777777788889


Q ss_pred             HHHHHHHHhCCCCCCc-ccHHHHHHHHHHh--cCCceEEEEecCCCCCCccChhHHHHhh
Q 036619          258 IAKAIIEGLGKSASGL-NEFQSLMSRIQSS--IKGKKNFLVLDDVWDGDYNKWQPFFRCL  314 (352)
Q Consensus       258 ~~~~i~~~l~~~~~~~-~~~~~~~~~l~~~--l~~kr~LlVlDdvw~~~~~~~~~l~~~l  314 (352)
                      ++..|++++.+..... ...+.+...+...  -.+++++|+||++..-.  .-+.|...+
T Consensus        97 ~~~~I~~~L~g~~~~~~~~~~~L~~~f~~~~~~~~~~~ii~lDE~d~l~--~q~~L~~l~  154 (318)
T 3te6_A           97 LYEKIWFAISKENLCGDISLEALNFYITNVPKAKKRKTLILIQNPENLL--SEKILQYFE  154 (318)
T ss_dssp             HHHHHHHHHSCCC--CCCCHHHHHHHHHHSCGGGSCEEEEEEECCSSSC--CTHHHHHHH
T ss_pred             HHHHHHHHhcCCCCCchHHHHHHHHHHHHhhhccCCceEEEEecHHHhh--cchHHHHHH
Confidence            9999999997653222 2233333333332  24678999999997653  234444444

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=98.86  E-value=2.1e-08  Score=83.12  Aligned_cols=146  Identities=14%  Similarity=0.126  Sum_probs=80.4

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhc-----cCCeEEEEEeCCCCCHHHH
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKR-----NFEKVIWVCVSDTFDQIRI  258 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~-----~F~~~~wv~vs~~~~~~~~  258 (352)
                      ..++||+++++++.+.+....      ...+.|+|++|+|||+||+.+++......     .....++++++.      +
T Consensus        22 ~~~~g~~~~~~~l~~~l~~~~------~~~~ll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------~   89 (195)
T 1jbk_A           22 DPVIGRDEEIRRTIQVLQRRT------KNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMGA------L   89 (195)
T ss_dssp             CCCCSCHHHHHHHHHHHTSSS------SCEEEEECCTTSCHHHHHHHHHHHHHHTCSCGGGTTCEEEEECHHH------H
T ss_pred             cccccchHHHHHHHHHHhcCC------CCceEEECCCCCCHHHHHHHHHHHHHhCCCchhhcCCcEEEeeHHH------H
Confidence            468999999999999986532      34567999999999999999987521110     112333443211      1


Q ss_pred             HHHHHHHhCCCCCCcccHHHHHHHHHH-hc-CCceEEEEecCCCCCC--------ccChhHHHHhhccCCCCcEEEEecC
Q 036619          259 AKAIIEGLGKSASGLNEFQSLMSRIQS-SI-KGKKNFLVLDDVWDGD--------YNKWQPFFRCLKNGLHGSKILVTTR  328 (352)
Q Consensus       259 ~~~i~~~l~~~~~~~~~~~~~~~~l~~-~l-~~kr~LlVlDdvw~~~--------~~~~~~l~~~l~~~~~gs~IivTTR  328 (352)
                      .       ... ............+.+ .. .+++.+|||||+....        ......+...+..+  +..+|.||.
T Consensus        90 ~-------~~~-~~~~~~~~~~~~~~~~~~~~~~~~vl~iDe~~~l~~~~~~~~~~~~~~~l~~~~~~~--~~~~i~~~~  159 (195)
T 1jbk_A           90 V-------AGA-KYRGEFEERLKGVLNDLAKQEGNVILFIDELHTMVGAGKADGAMDAGNMLKPALARG--ELHCVGATT  159 (195)
T ss_dssp             H-------TTT-CSHHHHHHHHHHHHHHHHHSTTTEEEEEETGGGGTT------CCCCHHHHHHHHHTT--SCCEEEEEC
T ss_pred             h-------ccC-CccccHHHHHHHHHHHHhhcCCCeEEEEeCHHHHhccCcccchHHHHHHHHHhhccC--CeEEEEeCC
Confidence            0       000 000111111111211 11 4568899999997642        22344455444332  345777776


Q ss_pred             ChHHHH-------HhCCCCeeeCCCCCCCc
Q 036619          329 NESVAR-------MMGSTDIISIEQLAEEE  351 (352)
Q Consensus       329 ~~~va~-------~~~~~~~~~l~~L~~~e  351 (352)
                      ......       .......+.+.+++.++
T Consensus       160 ~~~~~~~~~~~~~l~~r~~~i~~~~p~~~~  189 (195)
T 1jbk_A          160 LDEYRQYIEKDAALERRFQKVFVAEPSVED  189 (195)
T ss_dssp             HHHHHHHTTTCHHHHTTEEEEECCCCCHHH
T ss_pred             HHHHHHHHhcCHHHHHHhceeecCCCCHHH
Confidence            654322       12223357888877553

>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=98.71  E-value=1.5e-08  Score=91.69  Aligned_cols=143  Identities=15%  Similarity=0.149  Sum_probs=86.9

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccC-CeEEEEEeCCCCCHHHHHHHH
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNF-EKVIWVCVSDTFDQIRIAKAI  262 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F-~~~~wv~vs~~~~~~~~~~~i  262 (352)
                      ..++|++..++.+..++....      ...+.|+|++|+||||+|+.+++.... ..+ ...+.++.+....... +.. 
T Consensus        25 ~~~~g~~~~~~~l~~~l~~~~------~~~~ll~G~~G~GKT~la~~l~~~l~~-~~~~~~~~~~~~~~~~~~~~-~~~-   95 (327)
T 1iqp_A           25 DDIVGQEHIVKRLKHYVKTGS------MPHLLFAGPPGVGKTTAALALARELFG-ENWRHNFLELNASDERGINV-IRE-   95 (327)
T ss_dssp             TTCCSCHHHHHHHHHHHHHTC------CCEEEEESCTTSSHHHHHHHHHHHHHG-GGHHHHEEEEETTCHHHHHT-THH-
T ss_pred             HHhhCCHHHHHHHHHHHHcCC------CCeEEEECcCCCCHHHHHHHHHHHhcC-CcccCceEEeeccccCchHH-HHH-
Confidence            458999999999998886532      334889999999999999999875211 111 1233333332111110 000 


Q ss_pred             HHHhCCCCCCcccHHHHHHHHHHh--c-CCceEEEEecCCCCCCccChhHHHHhhccCCCCcEEEEecCChH-HHHH-hC
Q 036619          263 IEGLGKSASGLNEFQSLMSRIQSS--I-KGKKNFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKILVTTRNES-VARM-MG  337 (352)
Q Consensus       263 ~~~l~~~~~~~~~~~~~~~~l~~~--l-~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTTR~~~-va~~-~~  337 (352)
                                      ........  + .+++.+||+|+++......++.|...+.....++++|+||.... +... ..
T Consensus        96 ----------------~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~L~~~le~~~~~~~~i~~~~~~~~l~~~l~s  159 (327)
T 1iqp_A           96 ----------------KVKEFARTKPIGGASFKIIFLDEADALTQDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQS  159 (327)
T ss_dssp             ----------------HHHHHHHSCCGGGCSCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHH
T ss_pred             ----------------HHHHHHhhCCcCCCCCeEEEEeCCCcCCHHHHHHHHHHHHhcCCCCeEEEEeCCccccCHHHHh
Confidence                            01111111  1 26788999999987665667778888776666788888886642 1111 11


Q ss_pred             CCCeeeCCCCCCCc
Q 036619          338 STDIISIEQLAEEE  351 (352)
Q Consensus       338 ~~~~~~l~~L~~~e  351 (352)
                      ....+++.+++.++
T Consensus       160 r~~~~~~~~l~~~~  173 (327)
T 1iqp_A          160 RCAIFRFRPLRDED  173 (327)
T ss_dssp             TEEEEECCCCCHHH
T ss_pred             hCcEEEecCCCHHH
Confidence            23478888887654

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=98.56  E-value=2.1e-07  Score=76.72  Aligned_cols=45  Identities=24%  Similarity=0.207  Sum_probs=37.7

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..++||+.+++.+.+.+....      ...+.|+|++|+|||+||+.+++.
T Consensus        22 ~~~~g~~~~~~~l~~~l~~~~------~~~vll~G~~G~GKT~la~~~~~~   66 (187)
T 2p65_A           22 DPVIGRDTEIRRAIQILSRRT------KNNPILLGDPGVGKTAIVEGLAIK   66 (187)
T ss_dssp             CCCCSCHHHHHHHHHHHTSSS------SCEEEEESCGGGCHHHHHHHHHHH
T ss_pred             chhhcchHHHHHHHHHHhCCC------CCceEEECCCCCCHHHHHHHHHHH
Confidence            468999999999999986532      345679999999999999999874

>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=98.54  E-value=2.7e-07  Score=85.08  Aligned_cols=156  Identities=15%  Similarity=0.240  Sum_probs=88.8

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHH
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAII  263 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~  263 (352)
                      ..++|++..++.+.+.+....     ....+.|+|++|+||||||+.+.+.......+.       ..++........+.
T Consensus        16 ~~~vg~~~~~~~L~~~l~~~~-----~~~~~ll~G~~G~GKT~la~~la~~l~~~~~~~-------~~~~~~~~~~~~~~   83 (373)
T 1jr3_A           16 ADVVGQEHVLTALANGLSLGR-----IHHAYLFSGTRGVGKTSIARLLAKGLNCETGIT-------ATPCGVCDNCREIE   83 (373)
T ss_dssp             TTSCSCHHHHHHHHHHHHHTC-----CCSEEEEESCTTSSHHHHHHHHHHHHSCTTCSC-------SSCCSSSHHHHHHH
T ss_pred             hhccCcHHHHHHHHHHHHhCC-----CCeEEEEECCCCCCHHHHHHHHHHHhCCCCCCC-------CCCCcccHHHHHHh
Confidence            458999999999999886432     234678999999999999999987432111110       00000001111111


Q ss_pred             HHhC-------CC-CCCcccHHHHHHHHHHh-cCCceEEEEecCCCCCCccChhHHHHhhccCCCCcEEEEecCCh-HHH
Q 036619          264 EGLG-------KS-ASGLNEFQSLMSRIQSS-IKGKKNFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKILVTTRNE-SVA  333 (352)
Q Consensus       264 ~~l~-------~~-~~~~~~~~~~~~~l~~~-l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTTR~~-~va  333 (352)
                      ....       .. .....+...+...+... ..+++.+|||||+...+...++.|...+.....+..+|++|... .+.
T Consensus        84 ~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~Ll~~le~~~~~~~~Il~~~~~~~l~  163 (373)
T 1jr3_A           84 QGRFVDLIEIDAASRTKVEDTRDLLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLP  163 (373)
T ss_dssp             TSCCSSCEEEETTCSCCSSCHHHHHHHTTSCCSSSSSEEEEEECGGGSCHHHHHHHHHHHHSCCSSEEEEEEESCGGGSC
T ss_pred             ccCCCceEEecccccCCHHHHHHHHHHHhhccccCCeEEEEEECcchhcHHHHHHHHHHHhcCCCceEEEEEeCChHhCc
Confidence            1000       00 01122233333332221 24567899999998766566777888887655566777776543 222


Q ss_pred             H-HhCCCCeeeCCCCCCCc
Q 036619          334 R-MMGSTDIISIEQLAEEE  351 (352)
Q Consensus       334 ~-~~~~~~~~~l~~L~~~e  351 (352)
                      . .......+++.+++.++
T Consensus       164 ~~l~sr~~~i~~~~l~~~~  182 (373)
T 1jr3_A          164 VTILSRCLQFHLKALDVEQ  182 (373)
T ss_dssp             HHHHTTSEEEECCCCCHHH
T ss_pred             HHHHhheeEeeCCCCCHHH
Confidence            2 22334678888887654

>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=98.49  E-value=7.9e-08  Score=86.65  Aligned_cols=143  Identities=14%  Similarity=0.140  Sum_probs=84.2

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCC-eEEEEEeCCCCCHHHHHHHH
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFE-KVIWVCVSDTFDQIRIAKAI  262 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~-~~~wv~vs~~~~~~~~~~~i  262 (352)
                      ..++|++..++.+.+++....      ...+.++|++|+|||++|+.+.+.-. ...+. ..+.++.+.....       
T Consensus        17 ~~~~g~~~~~~~l~~~l~~~~------~~~~ll~G~~G~GKt~la~~l~~~l~-~~~~~~~~~~~~~~~~~~~-------   82 (319)
T 2chq_A           17 DEVVGQDEVIQRLKGYVERKN------IPHLLFSGPPGTGKTATAIALARDLF-GENWRDNFIEMNASDERGI-------   82 (319)
T ss_dssp             GGSCSCHHHHHHHHTTTTTTC------CCCEEEESSSSSSHHHHHHHHHHHHH-TTCHHHHCEEEETTSTTCT-------
T ss_pred             HHHhCCHHHHHHHHHHHhCCC------CCeEEEECcCCcCHHHHHHHHHHHhc-CCcccCCeEEEeCccccCh-------
Confidence            358999999998888775432      22378999999999999999987421 11111 1233443332111       


Q ss_pred             HHHhCCCCCCcccHHHHHHHHHHh--c-CCceEEEEecCCCCCCccChhHHHHhhccCCCCcEEEEecCChH-HHHH-hC
Q 036619          263 IEGLGKSASGLNEFQSLMSRIQSS--I-KGKKNFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKILVTTRNES-VARM-MG  337 (352)
Q Consensus       263 ~~~l~~~~~~~~~~~~~~~~l~~~--l-~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTTR~~~-va~~-~~  337 (352)
                                 .........+...  + .+++.+||+|++........+.|...+.....++.+|+||.... +... ..
T Consensus        83 -----------~~~~~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~L~~~le~~~~~~~~i~~~~~~~~l~~~l~s  151 (319)
T 2chq_A           83 -----------DVVRHKIKEFARTAPIGGAPFKIIFLDEADALTADAQAALRRTMEMYSKSCRFILSCNYVSRIIEPIQS  151 (319)
T ss_dssp             -----------TTSSHHHHHHHHSCCSSSCCCEEEEEETGGGSCHHHHHTTGGGTSSSSSSEEEEEEESCGGGSCHHHHT
T ss_pred             -----------HHHHHHHHHHHhcCCCCCCCceEEEEeCCCcCCHHHHHHHHHHHHhcCCCCeEEEEeCChhhcchHHHh
Confidence                       1111111111111  1 35688999999977654455666666665556777887776543 2222 22


Q ss_pred             CCCeeeCCCCCCCc
Q 036619          338 STDIISIEQLAEEE  351 (352)
Q Consensus       338 ~~~~~~l~~L~~~e  351 (352)
                      ....+++.+++.++
T Consensus       152 r~~~i~~~~~~~~~  165 (319)
T 2chq_A          152 RCAVFRFKPVPKEA  165 (319)
T ss_dssp             TCEEEECCCCCHHH
T ss_pred             hCeEEEecCCCHHH
Confidence            34578888887653

>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=98.45  E-value=6.1e-07  Score=73.98  Aligned_cols=103  Identities=18%  Similarity=0.235  Sum_probs=57.9

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCcccHHHHHHHHHHhcCCc
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSASGLNEFQSLMSRIQSSIKGK  290 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~k  290 (352)
                      ...+.|+|++|+|||||++.+++.......+. +.++      +...+...+..........     .+...+.     +
T Consensus        38 g~~~~l~G~~G~GKTtL~~~i~~~~~~~~g~~-~~~~------~~~~~~~~~~~~~~~~~~~-----~~~~~~~-----~  100 (180)
T 3ec2_A           38 GKGLTFVGSPGVGKTHLAVATLKAIYEKKGIR-GYFF------DTKDLIFRLKHLMDEGKDT-----KFLKTVL-----N  100 (180)
T ss_dssp             CCEEEECCSSSSSHHHHHHHHHHHHHHHSCCC-CCEE------EHHHHHHHHHHHHHHTCCS-----HHHHHHH-----T
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHHHHcCCe-EEEE------EHHHHHHHHHHHhcCchHH-----HHHHHhc-----C
Confidence            46789999999999999999998533222322 3333      3444554444433221111     1122221     4


Q ss_pred             eEEEEecCCCCCCccChh--HHHHhhccC-CCCcEEEEecCCh
Q 036619          291 KNFLVLDDVWDGDYNKWQ--PFFRCLKNG-LHGSKILVTTRNE  330 (352)
Q Consensus       291 r~LlVlDdvw~~~~~~~~--~l~~~l~~~-~~gs~IivTTR~~  330 (352)
                      .-+|||||++....+.|.  .+...+... ..|..||+||...
T Consensus       101 ~~llilDE~~~~~~~~~~~~~l~~ll~~~~~~~~~ii~tsn~~  143 (180)
T 3ec2_A          101 SPVLVLDDLGSERLSDWQRELISYIITYRYNNLKSTIITTNYS  143 (180)
T ss_dssp             CSEEEEETCSSSCCCHHHHHHHHHHHHHHHHTTCEEEEECCCC
T ss_pred             CCEEEEeCCCCCcCCHHHHHHHHHHHHHHHHcCCCEEEEcCCC
Confidence            568999999853323443  344444321 2466788888643

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=98.35  E-value=9.3e-07  Score=74.24  Aligned_cols=100  Identities=20%  Similarity=0.276  Sum_probs=55.0

Q ss_pred             EEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCcccHHHHHHHHHHhcCCce
Q 036619          212 QVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSASGLNEFQSLMSRIQSSIKGKK  291 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~kr  291 (352)
                      ..+.|+|++|+|||+||+.+++.  .......++|++++      .+...+...+...     ....+...+.+     .
T Consensus        55 ~~~~l~G~~GtGKT~la~~i~~~--~~~~~~~~~~~~~~------~~~~~~~~~~~~~-----~~~~~~~~~~~-----~  116 (202)
T 2w58_A           55 KGLYLHGSFGVGKTYLLAAIANE--LAKRNVSSLIVYVP------ELFRELKHSLQDQ-----TMNEKLDYIKK-----V  116 (202)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHH--HHTTTCCEEEEEHH------HHHHHHHHC---C-----CCHHHHHHHHH-----S
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH--HHHcCCeEEEEEhH------HHHHHHHHHhccc-----hHHHHHHHhcC-----C
Confidence            67889999999999999999985  33333456666543      4444444433211     12222333322     2


Q ss_pred             EEEEecCCCCCCccChhH--HHH-hhccC-CCCcEEEEecCC
Q 036619          292 NFLVLDDVWDGDYNKWQP--FFR-CLKNG-LHGSKILVTTRN  329 (352)
Q Consensus       292 ~LlVlDdvw~~~~~~~~~--l~~-~l~~~-~~gs~IivTTR~  329 (352)
                      -+|||||++......|..  +.. .+... ..+.++|+||..
T Consensus       117 ~~lilDei~~~~~~~~~~~~ll~~~l~~~~~~~~~~i~tsn~  158 (202)
T 2w58_A          117 PVLMLDDLGAEAMSSWVRDDVFGPILQYRMFENLPTFFTSNF  158 (202)
T ss_dssp             SEEEEEEECCC---CCGGGTTHHHHHHHHHHTTCCEEEEESS
T ss_pred             CEEEEcCCCCCcCCHHHHHHHHHHHHHHHHhCCCCEEEEcCC
Confidence            399999997643333322  332 33221 235568888774

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=98.34  E-value=1.5e-06  Score=77.91  Aligned_cols=150  Identities=14%  Similarity=0.125  Sum_probs=79.9

Q ss_pred             ccccccchHHHHHHHHcCcc---------ccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCH
Q 036619          185 EVCGRVDEKSELFSKLLCES---------SEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQ  255 (352)
Q Consensus       185 ~~~gr~~~~~~l~~~L~~~~---------~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~  255 (352)
                      .++|.+..++.|.+.+....         -........+.|+|++|+|||+||+.+.+............++.++..   
T Consensus        32 ~i~G~~~~~~~l~~~~~~~~~~~~~~~~g~~~~~~~~~vll~G~~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~---  108 (309)
T 3syl_A           32 ELIGLKPVKDRIRETAALLLVERARQKLGLAHETPTLHMSFTGNPGTGKTTVALKMAGLLHRLGYVRKGHLVSVTRD---  108 (309)
T ss_dssp             HSSSCHHHHHHHHHHHHHHHHHHHHHHHTCCSSCCCCEEEEEECTTSSHHHHHHHHHHHHHHTTSSSSCCEEEECGG---
T ss_pred             HccChHHHHHHHHHHHHHHHhHHHHHHcCCCCCCCCceEEEECCCCCCHHHHHHHHHHHHHhcCCcCCCcEEEEcHH---
Confidence            47888888887776553210         000133556889999999999999988875322222222223333311   


Q ss_pred             HHHHHHHHHHhCCCCCCcccHHHHHHHHHHhcCCceEEEEecCCCCC---------CccChhHHHHhhccCCCCcEEEEe
Q 036619          256 IRIAKAIIEGLGKSASGLNEFQSLMSRIQSSIKGKKNFLVLDDVWDG---------DYNKWQPFFRCLKNGLHGSKILVT  326 (352)
Q Consensus       256 ~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdvw~~---------~~~~~~~l~~~l~~~~~gs~IivT  326 (352)
                               .+.....+ .....+...+...   +.-+|+||++...         .......|...+.....+..||+|
T Consensus       109 ---------~l~~~~~g-~~~~~~~~~~~~~---~~~vl~iDEid~l~~~~~~~~~~~~~~~~Ll~~l~~~~~~~~~i~~  175 (309)
T 3syl_A          109 ---------DLVGQYIG-HTAPKTKEVLKRA---MGGVLFIDEAYYLYRPDNERDYGQEAIEILLQVMENNRDDLVVILA  175 (309)
T ss_dssp             ---------GTCCSSTT-CHHHHHHHHHHHH---TTSEEEEETGGGSCCCC---CCTHHHHHHHHHHHHHCTTTCEEEEE
T ss_pred             ---------Hhhhhccc-ccHHHHHHHHHhc---CCCEEEEEChhhhccCCCcccccHHHHHHHHHHHhcCCCCEEEEEe
Confidence                     01110000 1111222222222   3459999999743         223445667777666667778888


Q ss_pred             cCChHHHHHh--CC------CCeeeCCCCCCC
Q 036619          327 TRNESVARMM--GS------TDIISIEQLAEE  350 (352)
Q Consensus       327 TR~~~va~~~--~~------~~~~~l~~L~~~  350 (352)
                      |.........  .+      ...+++.+++.+
T Consensus       176 ~~~~~~~~~~~~~~~l~~R~~~~i~~~~~~~~  207 (309)
T 3syl_A          176 GYADRMENFFQSNPGFRSRIAHHIEFPDYSDE  207 (309)
T ss_dssp             ECHHHHHHHHHHSTTHHHHEEEEEEECCCCHH
T ss_pred             CChHHHHHHHhhCHHHHHhCCeEEEcCCcCHH
Confidence            8654322111  11      256777777654

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=98.34  E-value=3.8e-07  Score=72.52  Aligned_cols=114  Identities=15%  Similarity=0.026  Sum_probs=68.1

Q ss_pred             ccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHH
Q 036619          185 EVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIE  264 (352)
Q Consensus       185 ~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~  264 (352)
                      .++|+...+.++.+.+..-..    ...-|.|+|.+|+|||+||+.+++... +.....+  ++++...+.         
T Consensus         2 ~iiG~s~~~~~~~~~~~~~a~----~~~~vll~G~~GtGKt~lA~~i~~~~~-~~~~~~v--~~~~~~~~~---------   65 (145)
T 3n70_A            2 ELIGRSEWINQYRRRLQQLSE----TDIAVWLYGAPGTGRMTGARYLHQFGR-NAQGEFV--YRELTPDNA---------   65 (145)
T ss_dssp             --CCSSHHHHHHHHHHHHHTT----CCSCEEEESSTTSSHHHHHHHHHHSST-TTTSCCE--EEECCTTTS---------
T ss_pred             CceeCCHHHHHHHHHHHHHhC----CCCCEEEECCCCCCHHHHHHHHHHhCC-ccCCCEE--EECCCCCcc---------
Confidence            478999999998887754321    123367999999999999999987421 1111122  555543221         


Q ss_pred             HhCCCCCCcccHHHHHHHHHHhcCCceEEEEecCCCCCCccChhHHHHhhccCCCCcEEEEecCC
Q 036619          265 GLGKSASGLNEFQSLMSRIQSSIKGKKNFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKILVTTRN  329 (352)
Q Consensus       265 ~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTTR~  329 (352)
                               ...   ...+...   ..-.|+||++..........+...+.......+||.||..
T Consensus        66 ---------~~~---~~~~~~a---~~g~l~ldei~~l~~~~q~~Ll~~l~~~~~~~~~I~~t~~  115 (145)
T 3n70_A           66 ---------PQL---NDFIALA---QGGTLVLSHPEHLTREQQYHLVQLQSQEHRPFRLIGIGDT  115 (145)
T ss_dssp             ---------SCH---HHHHHHH---TTSCEEEECGGGSCHHHHHHHHHHHHSSSCSSCEEEEESS
T ss_pred             ---------hhh---hcHHHHc---CCcEEEEcChHHCCHHHHHHHHHHHhhcCCCEEEEEECCc
Confidence                     011   1111111   2347899999876555566677777554445677777764

>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=98.33  E-value=3.4e-07  Score=78.77  Aligned_cols=114  Identities=13%  Similarity=0.140  Sum_probs=64.6

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCcccHHHHHHHHHHhcCCc
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSASGLNEFQSLMSRIQSSIKGK  290 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~k  290 (352)
                      ...+.|+|++|+||||||+.+++..  ........|++++...+.      +.+                 .+ +.+ .+
T Consensus        52 ~~~~ll~G~~G~GKT~la~~l~~~~--~~~~~~~~~~~~~~~~~~------~~~-----------------~~-~~~-~~  104 (242)
T 3bos_A           52 VQAIYLWGPVKSGRTHLIHAACARA--NELERRSFYIPLGIHASI------STA-----------------LL-EGL-EQ  104 (242)
T ss_dssp             CSEEEEECSTTSSHHHHHHHHHHHH--HHTTCCEEEEEGGGGGGS------CGG-----------------GG-TTG-GG
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHH--HHcCCeEEEEEHHHHHHH------HHH-----------------HH-Hhc-cC
Confidence            4678899999999999999998753  222345667766442110      000                 00 011 34


Q ss_pred             eEEEEecCCCCCCccC--hhHHHHhhccC-CCC-cEEEEecCCh---------HHHHHhCCCCeeeCCCCCCCc
Q 036619          291 KNFLVLDDVWDGDYNK--WQPFFRCLKNG-LHG-SKILVTTRNE---------SVARMMGSTDIISIEQLAEEE  351 (352)
Q Consensus       291 r~LlVlDdvw~~~~~~--~~~l~~~l~~~-~~g-s~IivTTR~~---------~va~~~~~~~~~~l~~L~~~e  351 (352)
                      ..+|||||++......  .+.+...+... ..+ .++|+||+..         .+...+.....+++.+++.++
T Consensus       105 ~~vliiDe~~~~~~~~~~~~~l~~~l~~~~~~~~~~ii~~~~~~~~~~~~~~~~l~~r~~~~~~i~l~~~~~~~  178 (242)
T 3bos_A          105 FDLICIDDVDAVAGHPLWEEAIFDLYNRVAEQKRGSLIVSASASPMEAGFVLPDLVSRMHWGLTYQLQPMMDDE  178 (242)
T ss_dssp             SSEEEEETGGGGTTCHHHHHHHHHHHHHHHHHCSCEEEEEESSCTTTTTCCCHHHHHHHHHSEEEECCCCCGGG
T ss_pred             CCEEEEeccccccCCHHHHHHHHHHHHHHHHcCCCeEEEEcCCCHHHHHHhhhhhhhHhhcCceEEeCCCCHHH
Confidence            6799999997653332  33444443321 113 2477776632         222222223678899888765

>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli}

Probab=98.29  E-value=1.9e-06  Score=81.44  Aligned_cols=135  Identities=20%  Similarity=0.300  Sum_probs=76.1

Q ss_pred             CccccccchH---HHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCC-CCHHHHH
Q 036619          184 GEVCGRVDEK---SELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDT-FDQIRIA  259 (352)
Q Consensus       184 ~~~~gr~~~~---~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~-~~~~~~~  259 (352)
                      ..++|.+..+   ..|...+...      .+..+.|+|++|+||||||+.+.+.  ....|     +.++.. ..... +
T Consensus        26 ~~ivGq~~~~~~~~~L~~~i~~~------~~~~vLL~GppGtGKTtlAr~ia~~--~~~~f-----~~l~a~~~~~~~-i   91 (447)
T 3pvs_A           26 AQYIGQQHLLAAGKPLPRAIEAG------HLHSMILWGPPGTGKTTLAEVIARY--ANADV-----ERISAVTSGVKE-I   91 (447)
T ss_dssp             TTCCSCHHHHSTTSHHHHHHHHT------CCCEEEEECSTTSSHHHHHHHHHHH--TTCEE-----EEEETTTCCHHH-H
T ss_pred             HHhCCcHHHHhchHHHHHHHHcC------CCcEEEEECCCCCcHHHHHHHHHHH--hCCCe-----EEEEeccCCHHH-H
Confidence            4578887766   5666666442      2467889999999999999999974  22222     222221 12221 1


Q ss_pred             HHHHHHhCCCCCCcccHHHHHHHHHH-hcCCceEEEEecCCCCCCccChhHHHHhhccCCCCcEEE-EecCChH--H-HH
Q 036619          260 KAIIEGLGKSASGLNEFQSLMSRIQS-SIKGKKNFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKIL-VTTRNES--V-AR  334 (352)
Q Consensus       260 ~~i~~~l~~~~~~~~~~~~~~~~l~~-~l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~Ii-vTTR~~~--v-a~  334 (352)
                      +.++                 ..... ...+++.+|+||++........+.|...+..+  ...+| .||.+..  + ..
T Consensus        92 r~~~-----------------~~a~~~~~~~~~~iLfIDEI~~l~~~~q~~LL~~le~~--~v~lI~att~n~~~~l~~a  152 (447)
T 3pvs_A           92 REAI-----------------ERARQNRNAGRRTILFVDEVHRFNKSQQDAFLPHIEDG--TITFIGATTENPSFELNSA  152 (447)
T ss_dssp             HHHH-----------------HHHHHHHHTTCCEEEEEETTTCC------CCHHHHHTT--SCEEEEEESSCGGGSSCHH
T ss_pred             HHHH-----------------HHHHHhhhcCCCcEEEEeChhhhCHHHHHHHHHHHhcC--ceEEEecCCCCcccccCHH
Confidence            1111                 11111 12467889999999877656667777777653  22333 3555543  2 22


Q ss_pred             HhCCCCeeeCCCCCCCc
Q 036619          335 MMGSTDIISIEQLAEEE  351 (352)
Q Consensus       335 ~~~~~~~~~l~~L~~~e  351 (352)
                      ...-..++.+.+++.+|
T Consensus       153 L~sR~~v~~l~~l~~ed  169 (447)
T 3pvs_A          153 LLSRARVYLLKSLSTED  169 (447)
T ss_dssp             HHTTEEEEECCCCCHHH
T ss_pred             HhCceeEEeeCCcCHHH
Confidence            23335578888887654

>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=98.29  E-value=1.5e-06  Score=82.07  Aligned_cols=123  Identities=19%  Similarity=0.268  Sum_probs=71.7

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhhhhhhccC--CeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCcccHHHHHHHHHHhcC
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNNDEVKRNF--EKVIWVCVSDTFDQIRIAKAIIEGLGKSASGLNEFQSLMSRIQSSIK  288 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F--~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~  288 (352)
                      ...+.|+|++|+||||||+.+++.  ....|  ...++++.+      .+...+...+...     ..    ..+...+.
T Consensus       130 ~~~lll~Gp~G~GKTtLa~aia~~--l~~~~~~~~v~~v~~~------~~~~~~~~~~~~~-----~~----~~~~~~~~  192 (440)
T 2z4s_A          130 YNPLFIYGGVGLGKTHLLQSIGNY--VVQNEPDLRVMYITSE------KFLNDLVDSMKEG-----KL----NEFREKYR  192 (440)
T ss_dssp             SCCEEEECSSSSSHHHHHHHHHHH--HHHHCCSSCEEEEEHH------HHHHHHHHHHHTT-----CH----HHHHHHHT
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHH--HHHhCCCCeEEEeeHH------HHHHHHHHHHHcc-----cH----HHHHHHhc
Confidence            567889999999999999999984  33333  234455433      3344444444321     11    22333334


Q ss_pred             CceEEEEecCCCCCCc--cChhHHHHhhcc-CCCCcEEEEecCCh---------HHHHHhCCCCeeeCCCCCCC
Q 036619          289 GKKNFLVLDDVWDGDY--NKWQPFFRCLKN-GLHGSKILVTTRNE---------SVARMMGSTDIISIEQLAEE  350 (352)
Q Consensus       289 ~kr~LlVlDdvw~~~~--~~~~~l~~~l~~-~~~gs~IivTTR~~---------~va~~~~~~~~~~l~~L~~~  350 (352)
                      .+.-+|+|||++....  ..-+.+...+.. ...|..||+||.+.         .+...+....++.+.+++.+
T Consensus       193 ~~~~vL~IDEi~~l~~~~~~q~~l~~~l~~l~~~~~~iIitt~~~~~~l~~l~~~L~sR~~~g~~i~l~~p~~e  266 (440)
T 2z4s_A          193 KKVDILLIDDVQFLIGKTGVQTELFHTFNELHDSGKQIVICSDREPQKLSEFQDRLVSRFQMGLVAKLEPPDEE  266 (440)
T ss_dssp             TTCSEEEEECGGGGSSCHHHHHHHHHHHHHHHTTTCEEEEEESSCGGGCSSCCHHHHHHHHSSBCCBCCCCCHH
T ss_pred             CCCCEEEEeCcccccCChHHHHHHHHHHHHHHHCCCeEEEEECCCHHHHHHHHHHHHhhccCCeEEEeCCCCHH
Confidence            4677999999976432  123345454432 23467888888762         33443444467778777654

>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=98.26  E-value=3.7e-06  Score=75.38  Aligned_cols=138  Identities=13%  Similarity=0.044  Sum_probs=86.0

Q ss_pred             ccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhh-hh-ccCCeEEEEEeCC-CCCHHHHHHHHHHH
Q 036619          189 RVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDE-VK-RNFEKVIWVCVSD-TFDQIRIAKAIIEG  265 (352)
Q Consensus       189 r~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~-~~-~~F~~~~wv~vs~-~~~~~~~~~~i~~~  265 (352)
                      -++.++.|.+.+...     . ...+.++|++|+||||+|+.+.+... .. .|.+ ..+++.+. ...+..+ +++++.
T Consensus         2 ~~~~~~~L~~~i~~~-----~-~~~~Lf~Gp~G~GKtt~a~~la~~~~~~~~~~~d-~~~l~~~~~~~~id~i-r~li~~   73 (305)
T 2gno_A            2 AKDQLETLKRIIEKS-----E-GISILINGEDLSYPREVSLELPEYVEKFPPKASD-VLEIDPEGENIGIDDI-RTIKDF   73 (305)
T ss_dssp             --CHHHHHHHHHHTC-----S-SEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTT-EEEECCSSSCBCHHHH-HHHHHH
T ss_pred             hHHHHHHHHHHHHCC-----C-CcEEEEECCCCCCHHHHHHHHHHhCchhhccCCC-EEEEcCCcCCCCHHHH-HHHHHH
Confidence            345556666666432     2 56888999999999999999986311 11 1333 34454432 2332222 233333


Q ss_pred             hCCCCCCcccHHHHHHHHHHhcCCceEEEEecCCCCCCccChhHHHHhhccCCCCcEEEEecCCh-HHHHHhCCCCeeeC
Q 036619          266 LGKSASGLNEFQSLMSRIQSSIKGKKNFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKILVTTRNE-SVARMMGSTDIISI  344 (352)
Q Consensus       266 l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTTR~~-~va~~~~~~~~~~l  344 (352)
                      +...+                ..+++-++|+|++...+....+.|...+....+.+.+|++|.+. .+...+.+. .+++
T Consensus        74 ~~~~p----------------~~~~~kvviIdead~lt~~a~naLLk~LEep~~~t~fIl~t~~~~kl~~tI~SR-~~~f  136 (305)
T 2gno_A           74 LNYSP----------------ELYTRKYVIVHDCERMTQQAANAFLKALEEPPEYAVIVLNTRRWHYLLPTIKSR-VFRV  136 (305)
T ss_dssp             HTSCC----------------SSSSSEEEEETTGGGBCHHHHHHTHHHHHSCCTTEEEEEEESCGGGSCHHHHTT-SEEE
T ss_pred             Hhhcc----------------ccCCceEEEeccHHHhCHHHHHHHHHHHhCCCCCeEEEEEECChHhChHHHHce-eEeC
Confidence            32211                13467789999998877677888888888776677777766443 455555555 8999


Q ss_pred             CCCCCCc
Q 036619          345 EQLAEEE  351 (352)
Q Consensus       345 ~~L~~~e  351 (352)
                      .++++++
T Consensus       137 ~~l~~~~  143 (305)
T 2gno_A          137 VVNVPKE  143 (305)
T ss_dssp             ECCCCHH
T ss_pred             CCCCHHH
Confidence            9998764

>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=98.23  E-value=4.7e-06  Score=76.11  Aligned_cols=155  Identities=11%  Similarity=0.084  Sum_probs=85.9

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCC-eEEEEEeCCCCCHHHHHHHH
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFE-KVIWVCVSDTFDQIRIAKAI  262 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~-~~~wv~vs~~~~~~~~~~~i  262 (352)
                      ..++|+++.++.+..++....      ...+.|+|++|+||||||+.+.+.......+. ....++.+.......+ .+.
T Consensus        37 ~~i~g~~~~~~~l~~~l~~~~------~~~~ll~G~~G~GKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~~  109 (353)
T 1sxj_D           37 DEVTAQDHAVTVLKKTLKSAN------LPHMLFYGPPGTGKTSTILALTKELYGPDLMKSRILELNASDERGISIV-REK  109 (353)
T ss_dssp             TTCCSCCTTHHHHHHHTTCTT------CCCEEEECSTTSSHHHHHHHHHHHHHHHHHHTTSEEEECSSSCCCHHHH-TTH
T ss_pred             HHhhCCHHHHHHHHHHHhcCC------CCEEEEECCCCCCHHHHHHHHHHHhCCCcccccceEEEccccccchHHH-HHH
Confidence            468999999999999886543      22378999999999999999987532111111 2333444443232222 222


Q ss_pred             HHHhCCC-CCCcccHHHHHHHHHHhcCCceEEEEecCCCCCCccChhHHHHhhccCCCCcEEEEecCCh-HHHHHh-CCC
Q 036619          263 IEGLGKS-ASGLNEFQSLMSRIQSSIKGKKNFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKILVTTRNE-SVARMM-GST  339 (352)
Q Consensus       263 ~~~l~~~-~~~~~~~~~~~~~l~~~l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTTR~~-~va~~~-~~~  339 (352)
                      +..+... .......     .....-.++.-+|++|++..........|...+.......++|++|... .+...+ ...
T Consensus       110 ~~~~~~~~~~~~~~~-----~~~~~~~~~~~vliiDE~~~l~~~~~~~Ll~~le~~~~~~~~il~~~~~~~l~~~l~sR~  184 (353)
T 1sxj_D          110 VKNFARLTVSKPSKH-----DLENYPCPPYKIIILDEADSMTADAQSALRRTMETYSGVTRFCLICNYVTRIIDPLASQC  184 (353)
T ss_dssp             HHHHHHSCCCCCCTT-----HHHHSCCCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHHS
T ss_pred             HHHHhhhcccccchh-----hcccCCCCCceEEEEECCCccCHHHHHHHHHHHHhcCCCceEEEEeCchhhCcchhhccC
Confidence            2211110 0000000     0011112455799999997765455667777776655566777776443 221111 113


Q ss_pred             CeeeCCCCCCC
Q 036619          340 DIISIEQLAEE  350 (352)
Q Consensus       340 ~~~~l~~L~~~  350 (352)
                      ..+++.+++.+
T Consensus       185 ~~i~~~~~~~~  195 (353)
T 1sxj_D          185 SKFRFKALDAS  195 (353)
T ss_dssp             EEEECCCCCHH
T ss_pred             ceEEeCCCCHH
Confidence            46778777754

>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=98.20  E-value=1.3e-06  Score=79.89  Aligned_cols=157  Identities=8%  Similarity=0.039  Sum_probs=80.3

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhh-h-c--cCC-----------------
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEV-K-R--NFE-----------------  242 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~-~-~--~F~-----------------  242 (352)
                      ..++|.+...+.+.+++....    .... +.|+|+.|+|||||++.+...-.- . .  .++                 
T Consensus        14 ~~~vg~~~~~~~l~~~~~~~~----~~~~-~ll~Gp~G~GKTtl~~~la~~l~~~~~g~i~~~~~~~~~~~~~~~~~~~~   88 (354)
T 1sxj_E           14 NALSHNEELTNFLKSLSDQPR----DLPH-LLLYGPNGTGKKTRCMALLESIFGPGVYRLKIDVRQFVTASNRKLELNVV   88 (354)
T ss_dssp             GGCCSCHHHHHHHHTTTTCTT----CCCC-EEEECSTTSSHHHHHHTHHHHHSCTTCCC------------------CCE
T ss_pred             HHhcCCHHHHHHHHHHHhhCC----CCCe-EEEECCCCCCHHHHHHHHHHHHcCCCCCeEEecceeecccccccceeeee
Confidence            458898888888877762221    1223 889999999999999988763100 0 0  000                 


Q ss_pred             ---eEEEEEeCCCC-CHHHHHHHHHHHhCCCCCCcccHHHHHHHHHHhcCCceEEEEecCCCCCCccChhHHHHhhccCC
Q 036619          243 ---KVIWVCVSDTF-DQIRIAKAIIEGLGKSASGLNEFQSLMSRIQSSIKGKKNFLVLDDVWDGDYNKWQPFFRCLKNGL  318 (352)
Q Consensus       243 ---~~~wv~vs~~~-~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~  318 (352)
                         ..+.+..+... ......++++..+.....- .   ... .+. .+..++-++|||++...+....+.+...+....
T Consensus        89 ~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~-~---~~~-~ls-~l~~~~~vlilDE~~~L~~~~~~~L~~~le~~~  162 (354)
T 1sxj_E           89 SSPYHLEITPSDMGNNDRIVIQELLKEVAQMEQV-D---FQD-SKD-GLAHRYKCVIINEANSLTKDAQAALRRTMEKYS  162 (354)
T ss_dssp             ECSSEEEECCC----CCHHHHHHHHHHHTTTTC------------------CCEEEEEECTTSSCHHHHHHHHHHHHHST
T ss_pred             cccceEEecHhhcCCcchHHHHHHHHHHHHhccc-c---ccc-ccc-ccCCCCeEEEEeCccccCHHHHHHHHHHHHhhc
Confidence               01111111100 0000122222222111000 0   000 000 023466799999998866556677777776655


Q ss_pred             CCcEEEEecCCh-HHHHHh-CCCCeeeCCCCCCCc
Q 036619          319 HGSKILVTTRNE-SVARMM-GSTDIISIEQLAEEE  351 (352)
Q Consensus       319 ~gs~IivTTR~~-~va~~~-~~~~~~~l~~L~~~e  351 (352)
                      .++.+|++|... .+...+ .-...+++.+++.++
T Consensus       163 ~~~~~Il~t~~~~~l~~~l~sR~~~~~~~~~~~~~  197 (354)
T 1sxj_E          163 KNIRLIMVCDSMSPIIAPIKSQCLLIRCPAPSDSE  197 (354)
T ss_dssp             TTEEEEEEESCSCSSCHHHHTTSEEEECCCCCHHH
T ss_pred             CCCEEEEEeCCHHHHHHHHHhhceEEecCCcCHHH
Confidence            567787777653 332222 234678888887653

>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=98.17  E-value=4.2e-06  Score=75.67  Aligned_cols=137  Identities=17%  Similarity=0.180  Sum_probs=83.2

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHH
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAII  263 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~  263 (352)
                      ..++|.+..+..+.+++....     ...++.+.|++|+|||++|+.+.+..  .   ...+.++.+. .... .++.++
T Consensus        26 ~~ivg~~~~~~~l~~~l~~~~-----~~~~~L~~G~~G~GKT~la~~la~~l--~---~~~~~i~~~~-~~~~-~i~~~~   93 (324)
T 3u61_B           26 DECILPAFDKETFKSITSKGK-----IPHIILHSPSPGTGKTTVAKALCHDV--N---ADMMFVNGSD-CKID-FVRGPL   93 (324)
T ss_dssp             TTSCCCHHHHHHHHHHHHTTC-----CCSEEEECSSTTSSHHHHHHHHHHHT--T---EEEEEEETTT-CCHH-HHHTHH
T ss_pred             HHHhCcHHHHHHHHHHHHcCC-----CCeEEEeeCcCCCCHHHHHHHHHHHh--C---CCEEEEcccc-cCHH-HHHHHH
Confidence            468999999999999887433     24567788999999999999998742  1   1234455443 2222 112211


Q ss_pred             HHhCCCCCCcccHHHHHHHHHHhcCCceEEEEecCCCCCC-ccChhHHHHhhccCCCCcEEEEecCChH-----HHHHhC
Q 036619          264 EGLGKSASGLNEFQSLMSRIQSSIKGKKNFLVLDDVWDGD-YNKWQPFFRCLKNGLHGSKILVTTRNES-----VARMMG  337 (352)
Q Consensus       264 ~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdvw~~~-~~~~~~l~~~l~~~~~gs~IivTTR~~~-----va~~~~  337 (352)
                      ......               ....+++.+|+||++.... .+..+.|...+.....+.++|+||....     +...  
T Consensus        94 ~~~~~~---------------~~~~~~~~vliiDEi~~l~~~~~~~~L~~~le~~~~~~~iI~~~n~~~~l~~~l~sR--  156 (324)
T 3u61_B           94 TNFASA---------------ASFDGRQKVIVIDEFDRSGLAESQRHLRSFMEAYSSNCSIIITANNIDGIIKPLQSR--  156 (324)
T ss_dssp             HHHHHB---------------CCCSSCEEEEEEESCCCGGGHHHHHHHHHHHHHHGGGCEEEEEESSGGGSCTTHHHH--
T ss_pred             HHHHhh---------------cccCCCCeEEEEECCcccCcHHHHHHHHHHHHhCCCCcEEEEEeCCccccCHHHHhh--
Confidence            111000               0012478899999997654 3455566666654444667888776543     2222  


Q ss_pred             CCCeeeCCCCCCC
Q 036619          338 STDIISIEQLAEE  350 (352)
Q Consensus       338 ~~~~~~l~~L~~~  350 (352)
                       ...+++.+++.+
T Consensus       157 -~~~i~~~~~~~~  168 (324)
T 3u61_B          157 -CRVITFGQPTDE  168 (324)
T ss_dssp             -SEEEECCCCCHH
T ss_pred             -CcEEEeCCCCHH
Confidence             246778777644

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=98.16  E-value=7.8e-07  Score=70.53  Aligned_cols=110  Identities=13%  Similarity=0.106  Sum_probs=62.6

Q ss_pred             ccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHH
Q 036619          185 EVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIE  264 (352)
Q Consensus       185 ~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~  264 (352)
                      .++|+...+.++.+.+.....    ...-+.|+|.+|+|||++|+.+++...        -++.+.-..-....      
T Consensus         5 ~~iG~s~~~~~l~~~~~~~~~----~~~~vll~G~~GtGKt~lA~~i~~~~~--------~~~~~~~~~~~~~~------   66 (143)
T 3co5_A            5 DKLGNSAAIQEMNREVEAAAK----RTSPVFLTGEAGSPFETVARYFHKNGT--------PWVSPARVEYLIDM------   66 (143)
T ss_dssp             ---CCCHHHHHHHHHHHHHHT----CSSCEEEEEETTCCHHHHHGGGCCTTS--------CEECCSSTTHHHHC------
T ss_pred             CceeCCHHHHHHHHHHHHHhC----CCCcEEEECCCCccHHHHHHHHHHhCC--------CeEEechhhCChHh------
Confidence            478988888888887754221    122366999999999999999987421        22322211100010      


Q ss_pred             HhCCCCCCcccHHHHHHHHHHhcCCceEEEEecCCCCCCccChhHHHHhhccC-CCCcEEEEecCC
Q 036619          265 GLGKSASGLNEFQSLMSRIQSSIKGKKNFLVLDDVWDGDYNKWQPFFRCLKNG-LHGSKILVTTRN  329 (352)
Q Consensus       265 ~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~-~~gs~IivTTR~  329 (352)
                                     ...+.+.  .+.-.|+||++.....+....+...+... ..+.+||.||..
T Consensus        67 ---------------~~~~~~~--a~~~~l~lDei~~l~~~~q~~Ll~~l~~~~~~~~~iI~~tn~  115 (143)
T 3co5_A           67 ---------------PMELLQK--AEGGVLYVGDIAQYSRNIQTGITFIIGKAERCRVRVIASCSY  115 (143)
T ss_dssp             ---------------HHHHHHH--TTTSEEEEEECTTCCHHHHHHHHHHHHHHTTTTCEEEEEEEE
T ss_pred             ---------------hhhHHHh--CCCCeEEEeChHHCCHHHHHHHHHHHHhCCCCCEEEEEecCC
Confidence                           1111111  12347899999776544555666666543 345678777753

>1sxj_A Activator 1 95 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=98.14  E-value=6.7e-06  Score=79.35  Aligned_cols=157  Identities=16%  Similarity=0.165  Sum_probs=83.8

Q ss_pred             CccccccchHHHHHHHHcCcccc-----------CCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCC
Q 036619          184 GEVCGRVDEKSELFSKLLCESSE-----------QQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDT  252 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~-----------~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~  252 (352)
                      ..++|++..+++|.++|......           +....+.+.|+|++|+||||||+.+.+..    .+ ..+.++.+..
T Consensus        39 ~dliG~~~~~~~L~~~l~~~~~~~~~~~~~~g~~~~~~~~~lLL~GppGtGKTtla~~la~~l----~~-~~i~in~s~~  113 (516)
T 1sxj_A           39 QQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQEL----GY-DILEQNASDV  113 (516)
T ss_dssp             GGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHT----TC-EEEEECTTSC
T ss_pred             HHhcCCHHHHHHHHHHHHHhHhhchhhccccCccCCCCCcEEEEECCCCCCHHHHHHHHHHHc----CC-CEEEEeCCCc
Confidence            46899999999999998652100           01134688899999999999999999742    12 2344555554


Q ss_pred             CCHHHHHHHHHHHhCCCCCCcccHHHHHHHHHHhcCCceEEEEecCCCCCCcc---ChhHHHHhhccCCCCcEEEEecCC
Q 036619          253 FDQIRIAKAIIEGLGKSASGLNEFQSLMSRIQSSIKGKKNFLVLDDVWDGDYN---KWQPFFRCLKNGLHGSKILVTTRN  329 (352)
Q Consensus       253 ~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdvw~~~~~---~~~~l~~~l~~~~~gs~IivTTR~  329 (352)
                      .... ++...+........-..-......  .....+++.+|+||++......   .+..|...+...  +..||+++..
T Consensus       114 ~~~~-~~~~~i~~~~~~~~~~~~~~~~~~--~~~~~~~~~vliIDEid~l~~~~~~~l~~L~~~l~~~--~~~iIli~~~  188 (516)
T 1sxj_A          114 RSKT-LLNAGVKNALDNMSVVGYFKHNEE--AQNLNGKHFVIIMDEVDGMSGGDRGGVGQLAQFCRKT--STPLILICNE  188 (516)
T ss_dssp             CCHH-HHHHTGGGGTTBCCSTTTTTC------CCSSTTSEEEEECSGGGCCTTSTTHHHHHHHHHHHC--SSCEEEEESC
T ss_pred             chHH-HHHHHHHHHhccccHHHHHhhhhh--hhhccCCCeEEEEECCCccchhhHHHHHHHHHHHHhc--CCCEEEEEcC
Confidence            4432 222222222111000000000000  0012467889999999764322   235566665543  3335555443


Q ss_pred             h---HHHHHhCCCCeeeCCCCCCC
Q 036619          330 E---SVARMMGSTDIISIEQLAEE  350 (352)
Q Consensus       330 ~---~va~~~~~~~~~~l~~L~~~  350 (352)
                      .   .+.........+++.+++.+
T Consensus       189 ~~~~~l~~l~~r~~~i~f~~~~~~  212 (516)
T 1sxj_A          189 RNLPKMRPFDRVCLDIQFRRPDAN  212 (516)
T ss_dssp             TTSSTTGGGTTTSEEEECCCCCHH
T ss_pred             CCCccchhhHhceEEEEeCCCCHH
Confidence            2   22222122446777777654

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=98.13  E-value=2.3e-06  Score=75.84  Aligned_cols=51  Identities=22%  Similarity=0.175  Sum_probs=37.6

Q ss_pred             CccccccchHHHHHHHHcCcccc-------CCCCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          184 GEVCGRVDEKSELFSKLLCESSE-------QQNGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~-------~~~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..++|.+..+++|.+.+......       +-.....+.|+|++|+|||+||+.+++.
T Consensus        17 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~G~~GtGKT~la~~la~~   74 (285)
T 3h4m_A           17 EDIGGLEKQMQEIREVVELPLKHPELFEKVGIEPPKGILLYGPPGTGKTLLAKAVATE   74 (285)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCHHHHHHHCCCCCSEEEEESSSSSSHHHHHHHHHHH
T ss_pred             HHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHHH
Confidence            56899999999998877432000       0022455889999999999999999874

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=98.13  E-value=3.5e-06  Score=67.23  Aligned_cols=103  Identities=16%  Similarity=0.119  Sum_probs=58.6

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCcccHHHHHHHHHHhcCCc
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSASGLNEFQSLMSRIQSSIKGK  290 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~k  290 (352)
                      -..+.|+|+.|+|||||++.++..... ..+ ..+++....-...                             .. ..+
T Consensus        36 g~~~~l~G~~G~GKTtL~~~i~~~~~~-~g~-~~~~~~~~~~~~~-----------------------------~~-~~~   83 (149)
T 2kjq_A           36 GQFIYVWGEEGAGKSHLLQAWVAQALE-AGK-NAAYIDAASMPLT-----------------------------DA-AFE   83 (149)
T ss_dssp             CSEEEEESSSTTTTCHHHHHHHHHHHT-TTC-CEEEEETTTSCCC-----------------------------GG-GGG
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHHh-cCC-cEEEEcHHHhhHH-----------------------------HH-HhC
Confidence            357889999999999999999985332 122 2556655432221                             11 224


Q ss_pred             eEEEEecCCCCCCccChhHHHHhhccC-CCCc-EEEEecCC--------hHHHHHhCCCCeeeCC
Q 036619          291 KNFLVLDDVWDGDYNKWQPFFRCLKNG-LHGS-KILVTTRN--------ESVARMMGSTDIISIE  345 (352)
Q Consensus       291 r~LlVlDdvw~~~~~~~~~l~~~l~~~-~~gs-~IivTTR~--------~~va~~~~~~~~~~l~  345 (352)
                      .-+|||||+...+...-+.+...+... ..|. .||+||+.        +.++..+....+++++
T Consensus        84 ~~lLilDE~~~~~~~~~~~l~~li~~~~~~g~~~iiits~~~p~~l~~~~~L~SRl~~g~~~~l~  148 (149)
T 2kjq_A           84 AEYLAVDQVEKLGNEEQALLFSIFNRFRNSGKGFLLLGSEYTPQQLVIREDLRTRMAYCLVYEVK  148 (149)
T ss_dssp             CSEEEEESTTCCCSHHHHHHHHHHHHHHHHTCCEEEEEESSCTTTSSCCHHHHHHGGGSEECCCC
T ss_pred             CCEEEEeCccccChHHHHHHHHHHHHHHHcCCcEEEEECCCCHHHccccHHHHHHHhcCeeEEec
Confidence            568899999764322233344443321 1233 48888874        3444444444445443

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=98.11  E-value=4.6e-06  Score=76.76  Aligned_cols=47  Identities=15%  Similarity=0.213  Sum_probs=35.1

Q ss_pred             CccccccchHHH---HHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          184 GEVCGRVDEKSE---LFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       184 ~~~~gr~~~~~~---l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..++|++..++.   +...+....    .....+.|+|++|+|||+||+.+.+.
T Consensus        44 ~~ivG~~~~~~~l~~l~~~~~~~~----~~~~~vLl~GppGtGKT~la~~la~~   93 (368)
T 3uk6_A           44 QGMVGQLAARRAAGVVLEMIREGK----IAGRAVLIAGQPGTGKTAIAMGMAQA   93 (368)
T ss_dssp             TTEESCHHHHHHHHHHHHHHHTTC----CTTCEEEEEESTTSSHHHHHHHHHHH
T ss_pred             hhccChHHHHHHHHHHHHHHHcCC----CCCCEEEEECCCCCCHHHHHHHHHHH
Confidence            469999988766   444444332    22357889999999999999999975

>1hqc_A RUVB; extended AAA-ATPase domain, complex with nucleotide, hydrolase; HET: ADE; 3.20A {Thermus thermophilus} SCOP: a.4.5.11 c.37.1.20 PDB: 1ixs_B* 1ixr_C*

Probab=98.09  E-value=3.4e-06  Score=76.14  Aligned_cols=140  Identities=16%  Similarity=0.195  Sum_probs=79.0

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHH
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAII  263 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~  263 (352)
                      ..++|++..+..+...+...... ......+.|+|++|+|||+||+.+++.  ...   ...+++.+......       
T Consensus        12 ~~~ig~~~~~~~l~~~l~~~~~~-~~~~~~vll~G~~GtGKT~la~~i~~~--~~~---~~~~~~~~~~~~~~-------   78 (324)
T 1hqc_A           12 DEYIGQERLKQKLRVYLEAAKAR-KEPLEHLLLFGPPGLGKTTLAHVIAHE--LGV---NLRVTSGPAIEKPG-------   78 (324)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHH-CSCCCCCEEECCTTCCCHHHHHHHHHH--HTC---CEEEECTTTCCSHH-------
T ss_pred             HHhhCHHHHHHHHHHHHHHHHcc-CCCCCcEEEECCCCCCHHHHHHHHHHH--hCC---CEEEEeccccCChH-------
Confidence            46899999988888877532110 022356789999999999999999874  222   22344433322211       


Q ss_pred             HHhCCCCCCcccHHHHHHHHHHhcCCceEEEEecCCCCCCccChhHHHHhhccCC------------------CCcEEEE
Q 036619          264 EGLGKSASGLNEFQSLMSRIQSSIKGKKNFLVLDDVWDGDYNKWQPFFRCLKNGL------------------HGSKILV  325 (352)
Q Consensus       264 ~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~------------------~gs~Iiv  325 (352)
                                    .+...+...+ .+..+|+||++..........+...+....                  ++.++|.
T Consensus        79 --------------~l~~~l~~~~-~~~~~l~lDEi~~l~~~~~~~L~~~l~~~~~~~v~~~~~~~~~~~~~~~~~~~i~  143 (324)
T 1hqc_A           79 --------------DLAAILANSL-EEGDILFIDEIHRLSRQAEEHLYPAMEDFVMDIVIGQGPAARTIRLELPRFTLIG  143 (324)
T ss_dssp             --------------HHHHHHTTTC-CTTCEEEETTTTSCCHHHHHHHHHHHHHSEEEECCSSSSSCCCEEEECCCCEEEE
T ss_pred             --------------HHHHHHHHhc-cCCCEEEEECCcccccchHHHHHHHHHhhhhHHhccccccccccccCCCCEEEEE
Confidence                          1111111111 355689999997764444555655554321                  2345666


Q ss_pred             ecCChH-HHHHh-CC-CCeeeCCCCCCCc
Q 036619          326 TTRNES-VARMM-GS-TDIISIEQLAEEE  351 (352)
Q Consensus       326 TTR~~~-va~~~-~~-~~~~~l~~L~~~e  351 (352)
                      ||.... +...+ .- ...+++.+++.+|
T Consensus       144 ~t~~~~~~~~~l~~R~~~~i~l~~~~~~e  172 (324)
T 1hqc_A          144 ATTRPGLITAPLLSRFGIVEHLEYYTPEE  172 (324)
T ss_dssp             EESCCSSCSCSTTTTCSCEEECCCCCHHH
T ss_pred             eCCCcccCCHHHHhcccEEEecCCCCHHH
Confidence            665432 11111 11 2578888887553

>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=98.09  E-value=1.1e-05  Score=72.91  Aligned_cols=121  Identities=24%  Similarity=0.309  Sum_probs=64.7

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCcccHHHHHHHHHHhcCCc
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSASGLNEFQSLMSRIQSSIKGK  290 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~k  290 (352)
                      ...+.|+|++|+||||||+.+++..... . ...++++..      .+...+...+...     ....    +...+. +
T Consensus        37 ~~~lll~G~~GtGKT~la~~i~~~~~~~-~-~~~~~i~~~------~~~~~~~~~~~~~-----~~~~----~~~~~~-~   98 (324)
T 1l8q_A           37 YNPIFIYGSVGTGKTHLLQAAGNEAKKR-G-YRVIYSSAD------DFAQAMVEHLKKG-----TINE----FRNMYK-S   98 (324)
T ss_dssp             CSSEEEECSSSSSHHHHHHHHHHHHHHT-T-CCEEEEEHH------HHHHHHHHHHHHT-----CHHH----HHHHHH-T
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHHHHHC-C-CEEEEEEHH------HHHHHHHHHHHcC-----cHHH----HHHHhc-C
Confidence            4567899999999999999999853211 1 234455432      3333333333210     1111    122222 3


Q ss_pred             eEEEEecCCCCCCc--cChhHHHHhhcc-CCCCcEEEEecCCh---------HHHHHhCCCCeeeCCCCCCC
Q 036619          291 KNFLVLDDVWDGDY--NKWQPFFRCLKN-GLHGSKILVTTRNE---------SVARMMGSTDIISIEQLAEE  350 (352)
Q Consensus       291 r~LlVlDdvw~~~~--~~~~~l~~~l~~-~~~gs~IivTTR~~---------~va~~~~~~~~~~l~~L~~~  350 (352)
                      .-+|+|||+.....  .....+...+.. ...|..||+||.+.         .+...+....++++.+ +.+
T Consensus        99 ~~vL~iDEi~~l~~~~~~~~~l~~~l~~~~~~~~~iii~~~~~~~~l~~l~~~L~sR~~~~~~i~l~~-~~~  169 (324)
T 1l8q_A           99 VDLLLLDDVQFLSGKERTQIEFFHIFNTLYLLEKQIILASDRHPQKLDGVSDRLVSRFEGGILVEIEL-DNK  169 (324)
T ss_dssp             CSEEEEECGGGGTTCHHHHHHHHHHHHHHHHTTCEEEEEESSCGGGCTTSCHHHHHHHHTSEEEECCC-CHH
T ss_pred             CCEEEEcCcccccCChHHHHHHHHHHHHHHHCCCeEEEEecCChHHHHHhhhHhhhcccCceEEEeCC-CHH
Confidence            66999999976432  122334444431 12356788877532         2333333345678877 543

>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=98.08  E-value=2.6e-05  Score=70.90  Aligned_cols=137  Identities=9%  Similarity=0.086  Sum_probs=79.1

Q ss_pred             cchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhc--------------------cCCeEEEEEe
Q 036619          190 VDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKR--------------------NFEKVIWVCV  249 (352)
Q Consensus       190 ~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~--------------------~F~~~~wv~v  249 (352)
                      ++..+.+.+.+....     -...+.++|+.|+|||++|+.+.+.-....                    |++ ..++..
T Consensus         8 ~~~~~~l~~~i~~~~-----~~~a~L~~G~~G~GKt~~a~~la~~l~~~~~~~~~~c~~c~~c~~~~~~~~~d-~~~~~~   81 (334)
T 1a5t_A            8 RPDFEKLVASYQAGR-----GHHALLIQALPGMGDDALIYALSRYLLCQQPQGHKSCGHCRGCQLMQAGTHPD-YYTLAP   81 (334)
T ss_dssp             HHHHHHHHHHHHTTC-----CCSEEEEECCTTSCHHHHHHHHHHHHTCSSCBTTBCCSCSHHHHHHHHTCCTT-EEEECC
T ss_pred             HHHHHHHHHHHHcCC-----cceeEEEECCCCchHHHHHHHHHHHHhCCCCCCCCCCCCCHHHHHHhcCCCCC-EEEEec
Confidence            344556666664432     245688999999999999998886421111                    122 122221


Q ss_pred             CCCCCHHHHHHHHHHHhCCCCCCcccHHHHHHHHHHhc-----CCceEEEEecCCCCCCccChhHHHHhhccCCCCcEEE
Q 036619          250 SDTFDQIRIAKAIIEGLGKSASGLNEFQSLMSRIQSSI-----KGKKNFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKIL  324 (352)
Q Consensus       250 s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l-----~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~Ii  324 (352)
                      ..                  .......+++.. +.+.+     .+++-++|+|++...+.+..+.|...+.....++.+|
T Consensus        82 ~~------------------~~~~~~i~~ir~-l~~~~~~~~~~~~~kvviIdead~l~~~a~naLLk~lEep~~~~~~I  142 (334)
T 1a5t_A           82 EK------------------GKNTLGVDAVRE-VTEKLNEHARLGGAKVVWVTDAALLTDAAANALLKTLEEPPAETWFF  142 (334)
T ss_dssp             CT------------------TCSSBCHHHHHH-HHHHTTSCCTTSSCEEEEESCGGGBCHHHHHHHHHHHTSCCTTEEEE
T ss_pred             cc------------------cCCCCCHHHHHH-HHHHHhhccccCCcEEEEECchhhcCHHHHHHHHHHhcCCCCCeEEE
Confidence            10                  001112222222 22222     3567899999998776566777888887666667777


Q ss_pred             EecCCh-HHHHHh-CCCCeeeCCCCCCCc
Q 036619          325 VTTRNE-SVARMM-GSTDIISIEQLAEEE  351 (352)
Q Consensus       325 vTTR~~-~va~~~-~~~~~~~l~~L~~~e  351 (352)
                      ++|.+. .+...+ +-...+++.++++++
T Consensus       143 l~t~~~~~l~~ti~SRc~~~~~~~~~~~~  171 (334)
T 1a5t_A          143 LATREPERLLATLRSRCRLHYLAPPPEQY  171 (334)
T ss_dssp             EEESCGGGSCHHHHTTSEEEECCCCCHHH
T ss_pred             EEeCChHhCcHHHhhcceeeeCCCCCHHH
Confidence            776654 333333 335578888887654

>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=98.08  E-value=1.7e-05  Score=69.10  Aligned_cols=51  Identities=24%  Similarity=0.173  Sum_probs=34.5

Q ss_pred             CccccccchHHHHHHHHc---Cccc---cCCCCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          184 GEVCGRVDEKSELFSKLL---CESS---EQQNGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~---~~~~---~~~~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..++|.+..++.|.+++.   ....   -+....+.+.|+|++|+|||+||+.+++.
T Consensus         6 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~g~~~~~~vll~G~~GtGKT~la~~la~~   62 (262)
T 2qz4_A            6 KDVAGMHEAKLEVREFVDYLKSPERFLQLGAKVPKGALLLGPPGCGKTLLAKAVATE   62 (262)
T ss_dssp             TSSCSCHHHHHHHHHHHHHHHCCC------CCCCCEEEEESCTTSSHHHHHHHHHHH
T ss_pred             HHhCCHHHHHHHHHHHHHHHHCHHHHHHcCCCCCceEEEECCCCCCHHHHHHHHHHH
Confidence            468898888777755542   2110   00122455779999999999999999974

>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=98.05  E-value=1.1e-05  Score=82.71  Aligned_cols=45  Identities=27%  Similarity=0.341  Sum_probs=37.5

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..++||++++.++++.|....      ...+.++|++|+|||+||+.+.+.
T Consensus       170 d~viGr~~~i~~l~~~l~~~~------~~~vlL~G~pG~GKT~la~~la~~  214 (854)
T 1qvr_A          170 DPVIGRDEEIRRVIQILLRRT------KNNPVLIGEPGVGKTAIVEGLAQR  214 (854)
T ss_dssp             CCCCSCHHHHHHHHHHHHCSS------CCCCEEEECTTSCHHHHHHHHHHH
T ss_pred             cccCCcHHHHHHHHHHHhcCC------CCceEEEcCCCCCHHHHHHHHHHH
Confidence            468999999999999986533      234578999999999999999875

>1d2n_A N-ethylmaleimide-sensitive fusion protein; hexamerization domain, ATPase, transport; HET: ANP; 1.75A {Cricetulus griseus} SCOP: c.37.1.20 PDB: 1nsf_A*

Probab=98.05  E-value=1.7e-05  Score=69.82  Aligned_cols=47  Identities=19%  Similarity=0.152  Sum_probs=33.2

Q ss_pred             ccccccchHHHHHH-------HHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          185 EVCGRVDEKSELFS-------KLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       185 ~~~gr~~~~~~l~~-------~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .++|.....++++.       .+....   ......+.|+|++|+|||+||+.+++.
T Consensus        34 ~~i~~~~~~~~i~~~~~~l~~~l~~~~---~~~~~~vLl~G~~GtGKT~la~~ia~~   87 (272)
T 1d2n_A           34 GIIKWGDPVTRVLDDGELLVQQTKNSD---RTPLVSVLLEGPPHSGKTALAAKIAEE   87 (272)
T ss_dssp             CCCCCSHHHHHHHHHHHHHHHHHHHCS---SCSEEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCCccHHHHHHHHHHHHHHHHHhccC---CCCCeEEEEECCCCCcHHHHHHHHHHH
Confidence            46677666666555       232111   145678889999999999999999984

>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=98.05  E-value=1.1e-05  Score=73.42  Aligned_cols=139  Identities=14%  Similarity=0.133  Sum_probs=79.4

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCC-eEEEEEeCCCCCHHHHHHHH
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFE-KVIWVCVSDTFDQIRIAKAI  262 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~-~~~wv~vs~~~~~~~~~~~i  262 (352)
                      ..++|.+..++.|...+....      +..+.++|++|+||||+|+.+...-. ...+. ...-++.+......      
T Consensus        25 ~~~~g~~~~~~~L~~~i~~g~------~~~~ll~Gp~G~GKTtla~~la~~l~-~~~~~~~~~~~~~~~~~~~~------   91 (340)
T 1sxj_C           25 DEVYGQNEVITTVRKFVDEGK------LPHLLFYGPPGTGKTSTIVALAREIY-GKNYSNMVLELNASDDRGID------   91 (340)
T ss_dssp             GGCCSCHHHHHHHHHHHHTTC------CCCEEEECSSSSSHHHHHHHHHHHHH-TTSHHHHEEEECTTSCCSHH------
T ss_pred             HHhcCcHHHHHHHHHHHhcCC------CceEEEECCCCCCHHHHHHHHHHHHc-CCCccceEEEEcCcccccHH------
Confidence            347788877788777775432      22378999999999999999987421 11111 12222333222221      


Q ss_pred             HHHhCCCCCCcccHHHHHHHHHHh------cCCceEEEEecCCCCCCccChhHHHHhhccCCCCcEEEEecCCh-HHHHH
Q 036619          263 IEGLGKSASGLNEFQSLMSRIQSS------IKGKKNFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKILVTTRNE-SVARM  335 (352)
Q Consensus       263 ~~~l~~~~~~~~~~~~~~~~l~~~------l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTTR~~-~va~~  335 (352)
                                     .+...+...      +.+.+-++|+|++........+.|...+......+.+|++|... .+...
T Consensus        92 ---------------~ir~~i~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~il~~n~~~~i~~~  156 (340)
T 1sxj_C           92 ---------------VVRNQIKDFASTRQIFSKGFKLIILDEADAMTNAAQNALRRVIERYTKNTRFCVLANYAHKLTPA  156 (340)
T ss_dssp             ---------------HHHTHHHHHHHBCCSSSCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHH
T ss_pred             ---------------HHHHHHHHHHhhcccCCCCceEEEEeCCCCCCHHHHHHHHHHHhcCCCCeEEEEEecCccccchh
Confidence                           111111111      12347789999997665455667777776555566677766443 22222


Q ss_pred             h-CCCCeeeCCCCCCC
Q 036619          336 M-GSTDIISIEQLAEE  350 (352)
Q Consensus       336 ~-~~~~~~~l~~L~~~  350 (352)
                      + +-...+++.+++++
T Consensus       157 i~sR~~~~~~~~l~~~  172 (340)
T 1sxj_C          157 LLSQCTRFRFQPLPQE  172 (340)
T ss_dssp             HHTTSEEEECCCCCHH
T ss_pred             HHhhceeEeccCCCHH
Confidence            2 22346778777754

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=98.03  E-value=1.1e-05  Score=73.34  Aligned_cols=139  Identities=14%  Similarity=0.155  Sum_probs=79.4

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHH
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAII  263 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~  263 (352)
                      ..++|++..++.+..++..... .......+.|+|++|+|||+||+.+.+.  ....   .+.++.+....         
T Consensus        29 ~~iiG~~~~~~~l~~~l~~~~~-~~~~~~~vll~G~~GtGKT~la~~ia~~--~~~~---~~~~~~~~~~~---------   93 (338)
T 3pfi_A           29 DGYIGQESIKKNLNVFIAAAKK-RNECLDHILFSGPAGLGKTTLANIISYE--MSAN---IKTTAAPMIEK---------   93 (338)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHH-TTSCCCCEEEECSTTSSHHHHHHHHHHH--TTCC---EEEEEGGGCCS---------
T ss_pred             HHhCChHHHHHHHHHHHHHHHh-cCCCCCeEEEECcCCCCHHHHHHHHHHH--hCCC---eEEecchhccc---------
Confidence            4689999999999888864321 0123456789999999999999999864  2222   22233322111         


Q ss_pred             HHhCCCCCCcccHHHHHHHHHHhcCCceEEEEecCCCCCCccChhHHHHhhccCC------------------CCcEEEE
Q 036619          264 EGLGKSASGLNEFQSLMSRIQSSIKGKKNFLVLDDVWDGDYNKWQPFFRCLKNGL------------------HGSKILV  325 (352)
Q Consensus       264 ~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~------------------~gs~Iiv  325 (352)
                                  ...+...+..  ..+..+|+||++..........|...+....                  ++..+|.
T Consensus        94 ------------~~~~~~~~~~--~~~~~vl~lDEi~~l~~~~~~~Ll~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~i~  159 (338)
T 3pfi_A           94 ------------SGDLAAILTN--LSEGDILFIDEIHRLSPAIEEVLYPAMEDYRLDIIIGSGPAAQTIKIDLPKFTLIG  159 (338)
T ss_dssp             ------------HHHHHHHHHT--CCTTCEEEEETGGGCCHHHHHHHHHHHHTSCC---------CCCCCCCCCCCEEEE
T ss_pred             ------------hhHHHHHHHh--ccCCCEEEEechhhcCHHHHHHHHHHHHhccchhhcccCccccceecCCCCeEEEE
Confidence                        1111111211  2456789999997765445555666665432                  1234555


Q ss_pred             ecCCh-HHHHHh-CC-CCeeeCCCCCCCc
Q 036619          326 TTRNE-SVARMM-GS-TDIISIEQLAEEE  351 (352)
Q Consensus       326 TTR~~-~va~~~-~~-~~~~~l~~L~~~e  351 (352)
                      +|... .+...+ .- ...+++.+++.++
T Consensus       160 atn~~~~l~~~L~~R~~~~i~l~~~~~~e  188 (338)
T 3pfi_A          160 ATTRAGMLSNPLRDRFGMQFRLEFYKDSE  188 (338)
T ss_dssp             EESCGGGSCHHHHTTCSEEEECCCCCHHH
T ss_pred             eCCCccccCHHHHhhcCEEeeCCCcCHHH
Confidence            55442 222111 11 3578888887553

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=97.88  E-value=2e-05  Score=70.66  Aligned_cols=124  Identities=14%  Similarity=0.261  Sum_probs=68.4

Q ss_pred             CccccccchHHHHHHHHcCccc---cCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHH
Q 036619          184 GEVCGRVDEKSELFSKLLCESS---EQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAK  260 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~---~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~  260 (352)
                      ..++|.+..++.+...+.....   ........+.++|++|+|||+||+.+.+.  ....-...+.++++...... ...
T Consensus        17 ~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~ll~G~~GtGKt~la~~la~~--~~~~~~~~~~~~~~~~~~~~-~~~   93 (311)
T 4fcw_A           17 KRVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAAT--LFDTEEAMIRIDMTEYMEKH-AVS   93 (311)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHTCSCTTSCSEEEEEESCSSSSHHHHHHHHHHH--HHSCGGGEEEEEGGGCCSTT-HHH
T ss_pred             hhcCCHHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCcCHHHHHHHHHHH--HcCCCcceEEeecccccccc-cHH
Confidence            3478888888888777754311   01123467899999999999999999874  22211234555554432211 111


Q ss_pred             HHHHHhCCCCC--CcccHHHHHHHHHHhcCCceEEEEecCCCCCCccChhHHHHhhcc
Q 036619          261 AIIEGLGKSAS--GLNEFQSLMSRIQSSIKGKKNFLVLDDVWDGDYNKWQPFFRCLKN  316 (352)
Q Consensus       261 ~i~~~l~~~~~--~~~~~~~~~~~l~~~l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~  316 (352)
                      .+   ++....  +......+...+.   ....-+|+||++..........|...+..
T Consensus        94 ~l---~g~~~~~~~~~~~~~~~~~~~---~~~~~vl~lDEi~~l~~~~~~~Ll~~le~  145 (311)
T 4fcw_A           94 RL---IGAPPGYVGYEEGGQLTEAVR---RRPYSVILFDAIEKAHPDVFNILLQMLDD  145 (311)
T ss_dssp             HH---HCCCTTSTTTTTCCHHHHHHH---HCSSEEEEEETGGGSCHHHHHHHHHHHHH
T ss_pred             Hh---cCCCCccccccccchHHHHHH---hCCCeEEEEeChhhcCHHHHHHHHHHHhc
Confidence            11   222111  1111112222222   22346999999977665566777777654

>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=97.87  E-value=0.00017  Score=60.85  Aligned_cols=87  Identities=21%  Similarity=0.240  Sum_probs=55.8

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCC------------CCCCcccHH
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGK------------SASGLNEFQ  277 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~------------~~~~~~~~~  277 (352)
                      .-.++.|+|.+|+|||||+..+..     ..-..++|+.....++...+.. +...++.            ......+..
T Consensus        19 ~G~~~~i~G~~GsGKTtl~~~l~~-----~~~~~v~~i~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~   92 (220)
T 2cvh_A           19 PGVLTQVYGPYASGKTTLALQTGL-----LSGKKVAYVDTEGGFSPERLVQ-MAETRGLNPEEALSRFILFTPSDFKEQR   92 (220)
T ss_dssp             TTSEEEEECSTTSSHHHHHHHHHH-----HHCSEEEEEESSCCCCHHHHHH-HHHTTTCCHHHHHHHEEEECCTTTSHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH-----HcCCcEEEEECCCCCCHHHHHH-HHHhcCCChHHHhhcEEEEecCCHHHHH
Confidence            346899999999999999998886     1224688888777666655443 3333221            111222334


Q ss_pred             HHHHHHHHhcCCceEEEEecCCCCC
Q 036619          278 SLMSRIQSSIKGKKNFLVLDDVWDG  302 (352)
Q Consensus       278 ~~~~~l~~~l~~kr~LlVlDdvw~~  302 (352)
                      .....++..+..+.-+||||.+-..
T Consensus        93 ~~~~~~~~l~~~~~~lliiD~~~~~  117 (220)
T 2cvh_A           93 RVIGSLKKTVDSNFALVVVDSITAH  117 (220)
T ss_dssp             HHHHHHHHHCCTTEEEEEEECCCCC
T ss_pred             HHHHHHHHHhhcCCCEEEEcCcHHH
Confidence            4555666666555779999998543

>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=97.86  E-value=1.7e-05  Score=69.49  Aligned_cols=133  Identities=13%  Similarity=0.205  Sum_probs=67.4

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHH
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAII  263 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~  263 (352)
                      ..++|....+.++.+.+.....    ....+.|+|.+|+|||+||+.+++... ... ...+.++++.. .. ..+...+
T Consensus         6 ~~~ig~~~~~~~~~~~~~~~~~----~~~~vll~G~~GtGKt~la~~i~~~~~-~~~-~~~~~v~~~~~-~~-~~~~~~l   77 (265)
T 2bjv_A            6 DNLLGEANSFLEVLEQVSHLAP----LDKPVLIIGERGTGKELIASRLHYLSS-RWQ-GPFISLNCAAL-NE-NLLDSEL   77 (265)
T ss_dssp             ----CCCHHHHHHHHHHHHHTT----SCSCEEEECCTTSCHHHHHHHHHHTST-TTT-SCEEEEEGGGS-CH-HHHHHHH
T ss_pred             ccceeCCHHHHHHHHHHHHHhC----CCCCEEEECCCCCcHHHHHHHHHHhcC-ccC-CCeEEEecCCC-Ch-hHHHHHh
Confidence            3478999888888877654221    123467999999999999999997421 111 12344555543 22 2222111


Q ss_pred             HHhCCCCCCcccH-HHHHHHHHHhcCCceEEEEecCCCCCCccChhHHHHhhccC-----------CCCcEEEEecCC
Q 036619          264 EGLGKSASGLNEF-QSLMSRIQSSIKGKKNFLVLDDVWDGDYNKWQPFFRCLKNG-----------LHGSKILVTTRN  329 (352)
Q Consensus       264 ~~l~~~~~~~~~~-~~~~~~l~~~l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~-----------~~gs~IivTTR~  329 (352)
                        ++......... ......+.   ....-+|+||++..........|...+..+           ....+||.||..
T Consensus        78 --~g~~~~~~~g~~~~~~~~l~---~a~~~~l~lDEi~~l~~~~q~~Ll~~l~~~~~~~~g~~~~~~~~~~iI~atn~  150 (265)
T 2bjv_A           78 --FGHEAGAFTGAQKRHPGRFE---RADGGTLFLDELATAPMMVQEKLLRVIEYGELERVGGSQPLQVNVRLVCATNA  150 (265)
T ss_dssp             --HCCC---------CCCCHHH---HTTTSEEEEESGGGSCHHHHHHHHHHHHHCEECCCCC--CEECCCEEEEEESS
T ss_pred             --cCCcccccccccccccchhh---hcCCcEEEEechHhcCHHHHHHHHHHHHhCCeecCCCcccccCCeEEEEecCc
Confidence              11110000000 00000011   112458999999876544555566666532           124578877765

>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=97.84  E-value=6.3e-05  Score=67.13  Aligned_cols=51  Identities=22%  Similarity=0.265  Sum_probs=36.7

Q ss_pred             CccccccchHHHHHHHHcCccc--------cCCCCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          184 GEVCGRVDEKSELFSKLLCESS--------EQQNGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~--------~~~~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..++|.+..++.+...+...-.        ........+.|+|++|+|||+||+.+.+.
T Consensus        15 ~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~   73 (310)
T 1ofh_A           15 QHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKL   73 (310)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHHH
T ss_pred             hhcCChHHHHHHHHHHHHHHHhhhhhcccccccCCCceEEEECCCCCCHHHHHHHHHHH
Confidence            4689999999888877754100        00022346779999999999999999874

>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=97.82  E-value=8e-05  Score=67.22  Aligned_cols=51  Identities=24%  Similarity=0.257  Sum_probs=37.4

Q ss_pred             CccccccchHHHHHHHHcCcc------ccCCCCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          184 GEVCGRVDEKSELFSKLLCES------SEQQNGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~------~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..++|.+..++.|.+.+....      .......+-+.|+|++|+|||+||+.+++.
T Consensus        18 ~di~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vLl~GppGtGKT~la~aia~~   74 (322)
T 3eie_A           18 EDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKSYLAKAVATE   74 (322)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCGGGCCTTCCCCCEEEEECSSSSCHHHHHHHHHHH
T ss_pred             HHhcChHHHHHHHHHHHHHHHhCHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHHH
Confidence            468999999998888772110      001123456889999999999999999974

>1ojl_A Transcriptional regulatory protein ZRAR; response regulator, two component system, AAA domain, NTRC family, DNA-binding; HET: ATP; 3.0A {Salmonella typhimurium}

Probab=97.81  E-value=2.5e-05  Score=69.95  Aligned_cols=132  Identities=12%  Similarity=0.140  Sum_probs=70.2

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHH
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAII  263 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~  263 (352)
                      ..++|+...+.++.+.+.....    ....+.|+|.+|+|||++|+.+++... +.. ...+.++++.-.  ..++..  
T Consensus         2 ~~iig~s~~~~~~~~~~~~~a~----~~~~vLi~Ge~GtGKt~lAr~i~~~~~-~~~-~~~v~v~~~~~~--~~l~~~--   71 (304)
T 1ojl_A            2 SHMIGSSPAMQHLLNEIAMVAP----SDATVLIHGDSGTGKELVARALHACSA-RSD-RPLVTLNCAALN--ESLLES--   71 (304)
T ss_dssp             -CCCCCSHHHHHHHHHHHHHCS----TTSCEEEESCTTSCHHHHHHHHHHHSS-CSS-SCCCEEECSSCC--HHHHHH--
T ss_pred             CCcEECCHHHHHHHHHHHHHhC----CCCcEEEECCCCchHHHHHHHHHHhCc-ccC-CCeEEEeCCCCC--hHHHHH--
Confidence            3578999898888887755331    123466999999999999999987421 111 122334544322  222222  


Q ss_pred             HHhCCCCCCc-ccH-HHHHHHHHHhcCCceEEEEecCCCCCCccChhHHHHhhccCC-----------CCcEEEEecCC
Q 036619          264 EGLGKSASGL-NEF-QSLMSRIQSSIKGKKNFLVLDDVWDGDYNKWQPFFRCLKNGL-----------HGSKILVTTRN  329 (352)
Q Consensus       264 ~~l~~~~~~~-~~~-~~~~~~l~~~l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~-----------~gs~IivTTR~  329 (352)
                       .+.+...+. ... ......+...   ..-+|+||++..........|...+....           ...+||.||..
T Consensus        72 -~lfg~~~g~~tg~~~~~~g~~~~a---~~g~L~LDEi~~l~~~~q~~Ll~~l~~~~~~~~g~~~~~~~~~riI~atn~  146 (304)
T 1ojl_A           72 -ELFGHEKGAFTGADKRREGRFVEA---DGGTLFLDEIGDISPLMQVRLLRAIQEREVQRVGSNQTISVDVRLIAATHR  146 (304)
T ss_dssp             -HHTCCCSSCCC---CCCCCHHHHH---TTSEEEEESCTTCCHHHHHHHHHHHHSSBCCBTTBCCCCBCCCEEEEEESS
T ss_pred             -HhcCccccccCchhhhhcCHHHhc---CCCEEEEeccccCCHHHHHHHHHHHhcCEeeecCCcccccCCeEEEEecCc
Confidence             222211100 000 0000111111   12478999998765445556666665431           24577777765

>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis}

Probab=97.80  E-value=2.9e-05  Score=73.87  Aligned_cols=45  Identities=27%  Similarity=0.319  Sum_probs=37.2

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..++||+.++.+++..|....      ..-+.|+|++|+|||+||+.+.+.
T Consensus       180 d~iiGr~~~i~~l~~~l~r~~------~~~~LL~G~pG~GKT~la~~la~~  224 (468)
T 3pxg_A          180 DPVIGRSKEIQRVIEVLSRRT------KNNPVLIGEPGVGKTAIAEGLAQQ  224 (468)
T ss_dssp             CCCCCCHHHHHHHHHHHHCSS------SCEEEEESCTTTTTHHHHHHHHHH
T ss_pred             CCccCcHHHHHHHHHHHhccC------CCCeEEECCCCCCHHHHHHHHHHH
Confidence            358999999999999986533      233569999999999999999874

>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=97.74  E-value=0.00014  Score=64.87  Aligned_cols=51  Identities=25%  Similarity=0.206  Sum_probs=36.8

Q ss_pred             CccccccchHHHHHHHHcCcc-------ccCCCCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          184 GEVCGRVDEKSELFSKLLCES-------SEQQNGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~-------~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..++|.+..+++|.+.+...-       .-+-...+.+.|+|++|+|||+||+.+++.
T Consensus        15 ~di~G~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~vLL~Gp~GtGKT~la~ala~~   72 (301)
T 3cf0_A           15 EDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANE   72 (301)
T ss_dssp             GGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCSEEEEECSSSSSHHHHHHHHHHH
T ss_pred             HHhCCHHHHHHHHHHHHHHHhhCHHHHHHcCCCCCceEEEECCCCcCHHHHHHHHHHH
Confidence            458899888888877664210       000123457889999999999999999974

>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=97.68  E-value=0.00017  Score=72.86  Aligned_cols=45  Identities=27%  Similarity=0.245  Sum_probs=37.6

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..++||+.++.++++.|....      ..-+.|+|++|+|||+||+.+.+.
T Consensus       186 d~~iGr~~~i~~l~~~l~~~~------~~~vlL~G~~GtGKT~la~~la~~  230 (758)
T 1r6b_X          186 DPLIGREKELERAIQVLCRRR------KNNPLLVGESGVGKTAIAEGLAWR  230 (758)
T ss_dssp             CCCCSCHHHHHHHHHHHTSSS------SCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCccCCHHHHHHHHHHHhccC------CCCeEEEcCCCCCHHHHHHHHHHH
Confidence            468999999999999986543      234579999999999999999874

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=97.64  E-value=0.00039  Score=61.73  Aligned_cols=51  Identities=24%  Similarity=0.246  Sum_probs=37.2

Q ss_pred             CccccccchHHHHHHHHcCccc------cCCCCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          184 GEVCGRVDEKSELFSKLLCESS------EQQNGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~------~~~~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..++|.+..++.|.+.+..+..      .-......+.|+|++|+|||+||+.+.+.
T Consensus        21 ~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~la~~la~~   77 (297)
T 3b9p_A           21 TDIAGQDVAKQALQEMVILPSVRPELFTGLRAPAKGLLLFGPPGNGKTLLARAVATE   77 (297)
T ss_dssp             GGSCCCHHHHHHHHHHTHHHHHCGGGSCGGGCCCSEEEEESSSSSCHHHHHHHHHHH
T ss_pred             HHhCChHHHHHHHHHHHHhhhhCHHHHhcCCCCCCeEEEECcCCCCHHHHHHHHHHH
Confidence            4689999999888887632110      00122457789999999999999999874

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=97.61  E-value=0.00093  Score=60.19  Aligned_cols=51  Identities=24%  Similarity=0.279  Sum_probs=36.4

Q ss_pred             CccccccchHHHHHHHHcCc----cc--cCCCCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          184 GEVCGRVDEKSELFSKLLCE----SS--EQQNGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~----~~--~~~~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .++.|.++.++.|.+.+..+    .-  ......+-+.|+|++|+|||+||+.+++.
T Consensus        12 ~di~G~~~~k~~l~~~v~~p~~~~~~~~~~~~~~~~iLL~GppGtGKT~la~ala~~   68 (322)
T 1xwi_A           12 SDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATE   68 (322)
T ss_dssp             GGSCSCHHHHHHHHHHHHHHHHCGGGSCTTCCCCSEEEEESSSSSCHHHHHHHHHHH
T ss_pred             HHhcCHHHHHHHHHHHHHHHHhCHHHHhCCCCCCceEEEECCCCccHHHHHHHHHHH
Confidence            46889888888887665311    00  01123467889999999999999999974

>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=97.60  E-value=0.00012  Score=67.08  Aligned_cols=51  Identities=18%  Similarity=0.183  Sum_probs=37.2

Q ss_pred             CccccccchHHHHHHHHcCc----cc--cCCCCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          184 GEVCGRVDEKSELFSKLLCE----SS--EQQNGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~----~~--~~~~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..++|.+..++.|.+.+...    .-  ......+.+.|+|++|+|||+||+.+++.
T Consensus        84 ~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vLl~GppGtGKT~la~aia~~  140 (357)
T 3d8b_A           84 EDIAGVEFAKATIKEIVVWPMLRPDIFTGLRGPPKGILLFGPPGTGKTLIGKCIASQ  140 (357)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCTTTSCGGGSCCSEEEEESSTTSSHHHHHHHHHHH
T ss_pred             HHhCChHHHHHHHHHHHHHHhhChHhHhhccCCCceEEEECCCCCCHHHHHHHHHHH
Confidence            46899999999888876421    00  00123567889999999999999999874

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3}

Probab=97.57  E-value=7.2e-05  Score=67.11  Aligned_cols=38  Identities=21%  Similarity=0.162  Sum_probs=26.7

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEe
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCV  249 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~v  249 (352)
                      ...+.|+|++|+|||+||..+++....... ..+.++++
T Consensus       152 ~~~lll~G~~GtGKT~La~aia~~~~~~~g-~~v~~~~~  189 (308)
T 2qgz_A          152 QKGLYLYGDMGIGKSYLLAAMAHELSEKKG-VSTTLLHF  189 (308)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHHHHHSC-CCEEEEEH
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHHHHhcC-CcEEEEEH
Confidence            356789999999999999999985321222 33455554

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=97.57  E-value=0.0002  Score=72.42  Aligned_cols=124  Identities=15%  Similarity=0.274  Sum_probs=73.7

Q ss_pred             CccccccchHHHHHHHHcCcccc---CCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHH
Q 036619          184 GEVCGRVDEKSELFSKLLCESSE---QQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAK  260 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~---~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~  260 (352)
                      ..++|.+..++.+...+......   .......+.++|++|+|||+||+.+.+.  ....-...+.++++.-.+..    
T Consensus       491 ~~viGq~~a~~~l~~~i~~~~~~~~~~~~p~~~~Ll~Gp~GtGKT~lA~ala~~--l~~~~~~~i~i~~s~~~~~~----  564 (758)
T 3pxi_A          491 SRVIGQDEAVVAVAKAVRRARAGLKDPKRPIGSFIFLGPTGVGKTELARALAES--IFGDEESMIRIDMSEYMEKH----  564 (758)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHTTTCSCTTSCSEEEEEESCTTSSHHHHHHHHHHH--HHSCTTCEEEEEGGGGCSSC----
T ss_pred             CcCcChHHHHHHHHHHHHHHHcccCCCCCCceEEEEECCCCCCHHHHHHHHHHH--hcCCCcceEEEechhccccc----
Confidence            46899999888888777543211   1123457889999999999999999874  22222234455554322100    


Q ss_pred             HHHHHhCCCCCCcccHHHHHHHHHHhcCCceEEEEecCCCCCCccChhHHHHhhccC-----------CCCcEEEEecC
Q 036619          261 AIIEGLGKSASGLNEFQSLMSRIQSSIKGKKNFLVLDDVWDGDYNKWQPFFRCLKNG-----------LHGSKILVTTR  328 (352)
Q Consensus       261 ~i~~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~-----------~~gs~IivTTR  328 (352)
                                .  .....+...++.   ...-+|+||++.....+....|...+..+           ....+||+||.
T Consensus       565 ----------~--~~~~~l~~~~~~---~~~~vl~lDEi~~~~~~~~~~Ll~~le~g~~~~~~g~~~~~~~~~iI~ttn  628 (758)
T 3pxi_A          565 ----------S--TSGGQLTEKVRR---KPYSVVLLDAIEKAHPDVFNILLQVLEDGRLTDSKGRTVDFRNTILIMTSN  628 (758)
T ss_dssp             ----------C--CC---CHHHHHH---CSSSEEEEECGGGSCHHHHHHHHHHHHHSBCC-----CCBCTTCEEEEEES
T ss_pred             ----------c--cccchhhHHHHh---CCCeEEEEeCccccCHHHHHHHHHHhccCeEEcCCCCEeccCCeEEEEeCC
Confidence                      0  001111112221   23348999999877666677777777652           12457888886

>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=97.55  E-value=4.5e-05  Score=68.14  Aligned_cols=70  Identities=17%  Similarity=0.249  Sum_probs=45.9

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEe--CCCCCHHHHHHHHHHHhCCCCCCcccHHHHHHHHHHhcC
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCV--SDTFDQIRIAKAIIEGLGKSASGLNEFQSLMSRIQSSIK  288 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~v--s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~  288 (352)
                      .+++.|+|++|+|||+||..+...     .-..++|+++  ....+.             .   ..+.+.....+.+.+.
T Consensus       123 gsviLI~GpPGsGKTtLAlqlA~~-----~G~~VlyIs~~~eE~v~~-------------~---~~~le~~l~~i~~~l~  181 (331)
T 2vhj_A          123 SGMVIVTGKGNSGKTPLVHALGEA-----LGGKDKYATVRFGEPLSG-------------Y---NTDFNVFVDDIARAML  181 (331)
T ss_dssp             SEEEEEECSCSSSHHHHHHHHHHH-----HHTTSCCEEEEBSCSSTT-------------C---BCCHHHHHHHHHHHHH
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHh-----CCCCEEEEEecchhhhhh-------------h---hcCHHHHHHHHHHHHh
Confidence            456789999999999999988864     1123566776  332110             0   0345555666666665


Q ss_pred             CceEEEEecCCCCC
Q 036619          289 GKKNFLVLDDVWDG  302 (352)
Q Consensus       289 ~kr~LlVlDdvw~~  302 (352)
                      ..+ +||+|++...
T Consensus       182 ~~~-LLVIDsI~aL  194 (331)
T 2vhj_A          182 QHR-VIVIDSLKNV  194 (331)
T ss_dssp             HCS-EEEEECCTTT
T ss_pred             hCC-EEEEeccccc
Confidence            555 9999999653

>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=97.51  E-value=0.00018  Score=65.80  Aligned_cols=51  Identities=24%  Similarity=0.248  Sum_probs=36.7

Q ss_pred             CccccccchHHHHHHHHcCc----cc--cCCCCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          184 GEVCGRVDEKSELFSKLLCE----SS--EQQNGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~----~~--~~~~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..++|.+..++.|.+.+...    ..  ......+-+.|+|++|+|||+||+.+++.
T Consensus        51 ~di~G~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~iLL~GppGtGKT~la~ala~~  107 (355)
T 2qp9_X           51 EDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKSYLAKAVATE  107 (355)
T ss_dssp             GGSCCGGGHHHHHHHHTHHHHHCGGGGCSSCCCCCCEEEECSTTSCHHHHHHHHHHH
T ss_pred             HHhCCHHHHHHHHHHHHHHHHhCHHHHhcCCCCCceEEEECCCCCcHHHHHHHHHHH
Confidence            46899999999888776311    00  01122345779999999999999999984

>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=97.51  E-value=0.0005  Score=64.88  Aligned_cols=51  Identities=24%  Similarity=0.303  Sum_probs=37.3

Q ss_pred             CccccccchHHHHHHHHcCc----c--ccCCCCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          184 GEVCGRVDEKSELFSKLLCE----S--SEQQNGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~----~--~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..++|.+..++.|.+.+..+    .  .......+-+.|+|++|+|||+||+.+++.
T Consensus       134 ~di~G~~~~k~~l~~~v~~p~~~~~~~~~~~~~~~~vLL~GppGtGKT~lA~aia~~  190 (444)
T 2zan_A          134 SDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATE  190 (444)
T ss_dssp             GGSCSCHHHHHHHHHHHTHHHHCTTTTSGGGCCCSEEEEECSTTSSHHHHHHHHHHH
T ss_pred             HHhcCHHHHHHHHHHHHHHHhhCHHHhhccCCCCceEEEECCCCCCHHHHHHHHHHH
Confidence            46899999888888776311    0  001123467889999999999999999974

>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=97.50  E-value=0.0004  Score=59.47  Aligned_cols=90  Identities=18%  Similarity=0.206  Sum_probs=54.7

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhhhhhhc----cCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCC---------CcccHH
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNNDEVKR----NFEKVIWVCVSDTFDQIRIAKAIIEGLGKSAS---------GLNEFQ  277 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~----~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~---------~~~~~~  277 (352)
                      -.++.|+|++|+|||||+..+........    .-..++|+.....++...+. .+++.++....         ...+..
T Consensus        24 G~~~~i~G~~GsGKTtl~~~l~~~~~~~~~~g~~~~~~~~i~~~~~~~~~~~~-~~~~~~g~~~~~~~~~~~~~~~~~~~  102 (243)
T 1n0w_A           24 GSITEMFGEFRTGKTQICHTLAVTCQLPIDRGGGEGKAMYIDTEGTFRPERLL-AVAERYGLSGSDVLDNVAYARAFNTD  102 (243)
T ss_dssp             TSEEEEECCTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSSCCCHHHHH-HHHHHTTCCHHHHHHTEEEEECCSHH
T ss_pred             CeEEEEECCCCCcHHHHHHHHHHHHhCchhcCCCCCeEEEEECCCCcCHHHHH-HHHHHcCCCHHHHhhCeEEEecCCHH
Confidence            46899999999999999998886421211    13568888887765655443 34444443210         011222


Q ss_pred             ---HHHHHHHHhcC-CceEEEEecCCCC
Q 036619          278 ---SLMSRIQSSIK-GKKNFLVLDDVWD  301 (352)
Q Consensus       278 ---~~~~~l~~~l~-~kr~LlVlDdvw~  301 (352)
                         .+...+.+.+. .+.-+||||.+..
T Consensus       103 ~~~~~~~~~~~~~~~~~~~lliiD~~~~  130 (243)
T 1n0w_A          103 HQTQLLYQASAMMVESRYALLIVDSATA  130 (243)
T ss_dssp             HHHHHHHHHHHHHHHSCEEEEEEETSSG
T ss_pred             HHHHHHHHHHHHHhcCCceEEEEeCchH
Confidence               23334555553 4677999999865

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens}

Probab=97.44  E-value=0.0004  Score=64.33  Aligned_cols=51  Identities=24%  Similarity=0.234  Sum_probs=37.4

Q ss_pred             CccccccchHHHHHHHHcCccc------cCCCCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          184 GEVCGRVDEKSELFSKLLCESS------EQQNGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~------~~~~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..++|.+..++.|...+.....      ......+-+.|+|++|+|||+||+.+++.
T Consensus       115 ~~iiG~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~aia~~  171 (389)
T 3vfd_A          115 DDIAGQDLAKQALQEIVILPSLRPELFTGLRAPARGLLLFGPPGNGKTMLAKAVAAE  171 (389)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCTTTSCGGGCCCSEEEEESSTTSCHHHHHHHHHHH
T ss_pred             HHhCCHHHHHHHHHHHHHHhccCHHHhcccCCCCceEEEECCCCCCHHHHHHHHHHh
Confidence            4689999999998887732110      00122457789999999999999999874

>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=97.43  E-value=0.0002  Score=68.30  Aligned_cols=51  Identities=20%  Similarity=0.184  Sum_probs=36.9

Q ss_pred             CccccccchHHHHHHHHcCcccc-------CCCCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          184 GEVCGRVDEKSELFSKLLCESSE-------QQNGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~-------~~~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..++|.+..+++|.+++...-..       +.....-+.|+|++|+|||+||+.+.+.
T Consensus       204 ~~i~G~~~~~~~l~~~i~~~l~~~~~~~~~g~~~~~~vLL~GppGtGKT~lAraia~~  261 (489)
T 3hu3_A          204 DDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANE  261 (489)
T ss_dssp             GGCCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCcEEEECcCCCCHHHHHHHHHHH
Confidence            35899999999888876432000       0123455789999999999999999874

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=97.35  E-value=0.00021  Score=72.25  Aligned_cols=45  Identities=27%  Similarity=0.319  Sum_probs=37.5

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..++||+.++++++..|....      ..-+.++|++|+|||++|+.+.+.
T Consensus       180 d~iiG~~~~i~~l~~~l~~~~------~~~vLL~G~pGtGKT~la~~la~~  224 (758)
T 3pxi_A          180 DPVIGRSKEIQRVIEVLSRRT------KNNPVLIGEPGVGKTAIAEGLAQQ  224 (758)
T ss_dssp             CCCCCCHHHHHHHHHHHHCSS------SCEEEEESCTTTTTHHHHHHHHHH
T ss_pred             CCccCchHHHHHHHHHHhCCC------CCCeEEECCCCCCHHHHHHHHHHH
Confidence            468999999999999986533      223679999999999999999874

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=97.33  E-value=0.00049  Score=61.14  Aligned_cols=26  Identities=19%  Similarity=0.334  Sum_probs=22.5

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..+..+.++|++|+|||+||+.+++.
T Consensus        34 ~~p~~lLl~GppGtGKT~la~aiA~~   59 (293)
T 3t15_A           34 KVPLILGIWGGKGQGKSFQCELVFRK   59 (293)
T ss_dssp             CCCSEEEEEECTTSCHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            34567889999999999999999984

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=97.29  E-value=0.0009  Score=56.72  Aligned_cols=115  Identities=17%  Similarity=0.076  Sum_probs=62.9

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCC-------------------
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSAS-------------------  271 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~-------------------  271 (352)
                      -.++.|+|++|+|||||++.+.......  -..++|+....  ....+...+. .++....                   
T Consensus        23 G~~~~i~G~~GsGKTtl~~~l~~~~~~~--~~~v~~~~~~~--~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~   97 (235)
T 2w0m_A           23 GFFIALTGEPGTGKTIFSLHFIAKGLRD--GDPCIYVTTEE--SRDSIIRQAK-QFNWDFEEYIEKKLIIIDALMKEKED   97 (235)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHHHHHHH--TCCEEEEESSS--CHHHHHHHHH-HTTCCCGGGBTTTEEEEECCC----C
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHHHHC--CCeEEEEEccc--CHHHHHHHHH-HhcchHHHHhhCCEEEEeccccccCc
Confidence            3688999999999999999888542211  23466665543  3444443332 3322110                   


Q ss_pred             ----CcccHHHHHHHHHHhc---CCceEEEEecCCCCC---CccChhHHHHhhcc--CCCCcEEEEecCCh
Q 036619          272 ----GLNEFQSLMSRIQSSI---KGKKNFLVLDDVWDG---DYNKWQPFFRCLKN--GLHGSKILVTTRNE  330 (352)
Q Consensus       272 ----~~~~~~~~~~~l~~~l---~~kr~LlVlDdvw~~---~~~~~~~l~~~l~~--~~~gs~IivTTR~~  330 (352)
                          ...+..++...+...+   +.+..+||||..-..   +......+...+..  ...|..||++|...
T Consensus        98 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~llilDe~~~~~~~d~~~~~~~~~~l~~~~~~~~~~vi~~~h~~  168 (235)
T 2w0m_A           98 QWSLVNLTPEELVNKVIEAKQKLGYGKARLVIDSVSALFLDKPAMARKISYYLKRVLNKWNFTIYATSQYA  168 (235)
T ss_dssp             TTBCSSCCHHHHHHHHHHHHHHHCSSCEEEEEETGGGGSSSCGGGHHHHHHHHHHHHHHTTEEEEEEEC--
T ss_pred             eeeecCCCHHHHHHHHHHHHHhhCCCceEEEEECchHhhcCCHHHHHHHHHHHHHHHHhCCCeEEEEeccC
Confidence                0114455555555544   223349999998632   22233444444432  12477899998876

>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=97.28  E-value=0.0003  Score=72.05  Aligned_cols=135  Identities=15%  Similarity=0.232  Sum_probs=72.8

Q ss_pred             ccccccchHHHHHHHHcCcccc---CCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHH
Q 036619          185 EVCGRVDEKSELFSKLLCESSE---QQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKA  261 (352)
Q Consensus       185 ~~~gr~~~~~~l~~~L~~~~~~---~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~  261 (352)
                      .++|.+..+..+...+.....+   .......+.|+|++|+|||+||+.+.+.-  ...-...+.++++...... .   
T Consensus       559 ~viG~~~a~~~l~~~i~~~~~g~~~~~~p~~~vLl~Gp~GtGKT~lA~~la~~~--~~~~~~~i~i~~~~~~~~~-~---  632 (854)
T 1qvr_A          559 RVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATL--FDTEEAMIRIDMTEYMEKH-A---  632 (854)
T ss_dssp             HSCSCHHHHHHHHHHHHHHGGGCSCSSSCSEEEEEBSCSSSSHHHHHHHHHHHH--HSSGGGEEEECTTTCCSSG-G---
T ss_pred             ccCCcHHHHHHHHHHHHHHhcccCCCCCCceEEEEECCCCCCHHHHHHHHHHHh--cCCCCcEEEEechhccchh-H---
Confidence            5789998888887777543210   11234678899999999999999998742  1111123444444322210 0   


Q ss_pred             HHHHhCCCCC---CcccHHHHHHHHHHhcCCceEEEEecCCCCCCccChhHHHHhhccCC-----------CCcEEEEec
Q 036619          262 IIEGLGKSAS---GLNEFQSLMSRIQSSIKGKKNFLVLDDVWDGDYNKWQPFFRCLKNGL-----------HGSKILVTT  327 (352)
Q Consensus       262 i~~~l~~~~~---~~~~~~~~~~~l~~~l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~-----------~gs~IivTT  327 (352)
                       ...+.+..+   +......+...++.   ...-+|+||++.....+..+.|...+..+.           .+..||+||
T Consensus       633 -~s~l~g~~~~~~G~~~~g~l~~~~~~---~~~~vl~lDEi~~l~~~~~~~Ll~~l~~~~~~~~~g~~vd~~~~iiI~ts  708 (854)
T 1qvr_A          633 -VSRLIGAPPGYVGYEEGGQLTEAVRR---RPYSVILFDEIEKAHPDVFNILLQILDDGRLTDSHGRTVDFRNTVIILTS  708 (854)
T ss_dssp             -GGGC--------------CHHHHHHH---CSSEEEEESSGGGSCHHHHHHHHHHHTTTEECCSSSCCEECTTEEEEEEC
T ss_pred             -HHHHcCCCCCCcCccccchHHHHHHh---CCCeEEEEecccccCHHHHHHHHHHhccCceECCCCCEeccCCeEEEEec
Confidence             011111111   00111122222222   223589999998776666777777776441           244477777


Q ss_pred             CC
Q 036619          328 RN  329 (352)
Q Consensus       328 R~  329 (352)
                      ..
T Consensus       709 n~  710 (854)
T 1qvr_A          709 NL  710 (854)
T ss_dssp             CT
T ss_pred             Cc
Confidence            64

>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=97.28  E-value=0.00033  Score=59.50  Aligned_cols=110  Identities=14%  Similarity=-0.001  Sum_probs=63.2

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCC--CcccHHHHHHHHHHhcC
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSAS--GLNEFQSLMSRIQSSIK  288 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~--~~~~~~~~~~~l~~~l~  288 (352)
                      -.++.|.|..|+||||++..+....  ..+-..++.+......  . ....|+..++....  ......++...+.+.+.
T Consensus        12 G~i~litG~mGsGKTT~ll~~~~r~--~~~g~kVli~~~~~d~--r-~~~~i~srlG~~~~~~~~~~~~~i~~~i~~~~~   86 (223)
T 2b8t_A           12 GWIEFITGPMFAGKTAELIRRLHRL--EYADVKYLVFKPKIDT--R-SIRNIQSRTGTSLPSVEVESAPEILNYIMSNSF   86 (223)
T ss_dssp             CEEEEEECSTTSCHHHHHHHHHHHH--HHTTCCEEEEEECCCG--G-GCSSCCCCCCCSSCCEEESSTHHHHHHHHSTTS
T ss_pred             cEEEEEECCCCCcHHHHHHHHHHHH--HhcCCEEEEEEeccCc--h-HHHHHHHhcCCCccccccCCHHHHHHHHHHHhh
Confidence            4788899999999999997776643  2222234444433321  1 12234444433211  12234556666666665


Q ss_pred             CceE-EEEecCCCCCCccChhHHHHhhccCCCCcEEEEecC
Q 036619          289 GKKN-FLVLDDVWDGDYNKWQPFFRCLKNGLHGSKILVTTR  328 (352)
Q Consensus       289 ~kr~-LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTTR  328 (352)
                      +.++ +||+|.+..-..+..+.+ ..+.+.  |-.||+|-+
T Consensus        87 ~~~~dvViIDEaQ~l~~~~ve~l-~~L~~~--gi~Vil~Gl  124 (223)
T 2b8t_A           87 NDETKVIGIDEVQFFDDRICEVA-NILAEN--GFVVIISGL  124 (223)
T ss_dssp             CTTCCEEEECSGGGSCTHHHHHH-HHHHHT--TCEEEEECC
T ss_pred             CCCCCEEEEecCccCcHHHHHHH-HHHHhC--CCeEEEEec
Confidence            5555 999999976433333333 333332  778999998

>4b4t_L 26S protease subunit RPT4; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.25  E-value=0.0031  Score=58.99  Aligned_cols=51  Identities=22%  Similarity=0.165  Sum_probs=36.2

Q ss_pred             CccccccchHHHHHHHHcC----ccc---cCCCCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          184 GEVCGRVDEKSELFSKLLC----ESS---EQQNGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~----~~~---~~~~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .++.|-++.+++|.+.+.-    ++-   -+-..++-+.++|++|+|||+||+.+++.
T Consensus       181 ~digGl~~~k~~l~e~v~~pl~~p~~f~~~g~~~prGvLL~GPPGtGKTllAkAiA~e  238 (437)
T 4b4t_L          181 DGIGGLTEQIRELREVIELPLKNPEIFQRVGIKPPKGVLLYGPPGTGKTLLAKAVAAT  238 (437)
T ss_dssp             GGGCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHHH
T ss_pred             hHhCChHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeEEEECCCCCcHHHHHHHHHHH
Confidence            5678888888777665432    110   01234567889999999999999999984

>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=97.25  E-value=0.00096  Score=63.25  Aligned_cols=98  Identities=20%  Similarity=0.169  Sum_probs=54.3

Q ss_pred             CccccccchHHHHHHHHc---Cccc---cCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHH
Q 036619          184 GEVCGRVDEKSELFSKLL---CESS---EQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIR  257 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~---~~~~---~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~  257 (352)
                      .+++|.++.++++.+.+.   ....   -+....+-+.|+|++|+|||+||+.+.+..  ...|   +.++.+.-...  
T Consensus        16 ~di~G~~~~~~~l~e~v~~l~~~~~~~~~g~~~p~gvLL~GppGtGKT~Laraia~~~--~~~f---~~is~~~~~~~--   88 (476)
T 2ce7_A           16 KDVGGAEEAIEELKEVVEFLKDPSKFNRIGARMPKGILLVGPPGTGKTLLARAVAGEA--NVPF---FHISGSDFVEL--   88 (476)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHCTHHHHTTTCCCCSEEEEECCTTSSHHHHHHHHHHHH--TCCE---EEEEGGGTTTC--
T ss_pred             HHhCCcHHHHHHHHHHHHHhhChHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHHc--CCCe---eeCCHHHHHHH--
Confidence            458898887776655432   2100   000112347799999999999999999842  2222   33443322110  


Q ss_pred             HHHHHHHHhCCCCCCcccHHHHHHHHHHhcCCceEEEEecCCCC
Q 036619          258 IAKAIIEGLGKSASGLNEFQSLMSRIQSSIKGKKNFLVLDDVWD  301 (352)
Q Consensus       258 ~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdvw~  301 (352)
                              +    .+ .....+...+.........+|+||++..
T Consensus        89 --------~----~g-~~~~~~r~lf~~A~~~~p~ILfIDEid~  119 (476)
T 2ce7_A           89 --------F----VG-VGAARVRDLFAQAKAHAPCIVFIDEIDA  119 (476)
T ss_dssp             --------C----TT-HHHHHHHHHHHHHHHTCSEEEEEETGGG
T ss_pred             --------H----hc-ccHHHHHHHHHHHHhcCCCEEEEechhh
Confidence                    0    00 0112223334444456789999999955

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=97.22  E-value=0.00076  Score=58.52  Aligned_cols=51  Identities=27%  Similarity=0.227  Sum_probs=33.4

Q ss_pred             CccccccchHHHHHHH---HcCcccc---CCCCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          184 GEVCGRVDEKSELFSK---LLCESSE---QQNGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~---L~~~~~~---~~~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..++|.+..++++.+.   +.....-   +....+-+.|+|++|+||||||+.+.+.
T Consensus        12 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~   68 (257)
T 1lv7_A           12 ADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGE   68 (257)
T ss_dssp             GGSCSCHHHHHHTHHHHHHHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHH
T ss_pred             HHhcCcHHHHHHHHHHHHHHhCHHHHHHcCCCCCCeEEEECcCCCCHHHHHHHHHHH
Confidence            4688988777766544   3221100   0011334779999999999999999874

>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=97.21  E-value=0.0014  Score=59.67  Aligned_cols=85  Identities=18%  Similarity=0.268  Sum_probs=56.5

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCC-----CcccHHHHHHHHH
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSAS-----GLNEFQSLMSRIQ  284 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~-----~~~~~~~~~~~l~  284 (352)
                      .-.++.|+|++|+|||||+..+.....  ..=..++|+.....++..     .++.++....     ...+.+++...+.
T Consensus        60 ~G~i~~I~GppGsGKSTLal~la~~~~--~~gg~VlyId~E~s~~~~-----ra~rlgv~~~~l~i~~~~~~e~~l~~~~  132 (356)
T 3hr8_A           60 RGRIVEIFGQESSGKTTLALHAIAEAQ--KMGGVAAFIDAEHALDPV-----YAKNLGVDLKSLLISQPDHGEQALEIVD  132 (356)
T ss_dssp             TTEEEEEEESTTSSHHHHHHHHHHHHH--HTTCCEEEEESSCCCCHH-----HHHHHTCCGGGCEEECCSSHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHH--hcCCeEEEEecccccchH-----HHHHcCCchhhhhhhhccCHHHHHHHHH
Confidence            457999999999999999988886432  222357888887777654     3445544321     2234556666666


Q ss_pred             HhcC-CceEEEEecCCCC
Q 036619          285 SSIK-GKKNFLVLDDVWD  301 (352)
Q Consensus       285 ~~l~-~kr~LlVlDdvw~  301 (352)
                      ..+. .+.-++|+|.+..
T Consensus       133 ~l~~~~~~dlvVIDSi~~  150 (356)
T 3hr8_A          133 ELVRSGVVDLIVVDSVAA  150 (356)
T ss_dssp             HHHHTSCCSEEEEECTTT
T ss_pred             HHhhhcCCCeEEehHhhh
Confidence            5553 4556999999854

>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=97.17  E-value=0.0034  Score=57.00  Aligned_cols=92  Identities=16%  Similarity=0.256  Sum_probs=58.5

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHhhhhhhc----cCCeEEEEEeCCCCCHHHHHHHHHHHhCCCC------------CC
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYNNDEVKR----NFEKVIWVCVSDTFDQIRIAKAIIEGLGKSA------------SG  272 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~----~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~------------~~  272 (352)
                      +.-.++.|+|.+|+||||||..+........    .-..++|++....++...+.. ++..++...            ..
T Consensus       120 ~~G~i~~I~G~~GsGKTtla~~la~~~~~~~~~gg~~~~vlyi~~E~~~~~~~l~~-~~~~~g~~~~~~l~~l~~~~~~~  198 (343)
T 1v5w_A          120 ESMAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFIDTENTFRPDRLRD-IADRFNVDHDAVLDNVLYARAYT  198 (343)
T ss_dssp             CSSEEEEEECCTTCTHHHHHHHHHHHTTSCBTTTBCCCEEEEEESSSCCCHHHHHH-HHHHTTCCHHHHHHTEEEEECCS
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHhcccccCCCCCeEEEEECCCCCCHHHHHH-HHHHcCCCHHHHHhceeEeecCC
Confidence            4457999999999999999988876422211    234788999988877776543 344444321            11


Q ss_pred             cccHHHHHHHHHHhcC---CceEEEEecCCCC
Q 036619          273 LNEFQSLMSRIQSSIK---GKKNFLVLDDVWD  301 (352)
Q Consensus       273 ~~~~~~~~~~l~~~l~---~kr~LlVlDdvw~  301 (352)
                      .....++...+...+.   .+--|||+|.+..
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            2223344444555553   4566999999853

>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=97.14  E-value=0.0029  Score=56.30  Aligned_cols=85  Identities=11%  Similarity=0.138  Sum_probs=55.5

Q ss_pred             EEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCC-----CcccHHHH-HHHHHHh
Q 036619          213 VISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSAS-----GLNEFQSL-MSRIQSS  286 (352)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~-----~~~~~~~~-~~~l~~~  286 (352)
                      ++-|.|++|+|||||+.++.....-...-..++||+....++..     .+++++....     ...+.+++ ...+...
T Consensus        30 iteI~G~pGsGKTtL~Lq~~~~~~~~g~g~~vlyId~E~s~~~~-----ra~~lGvd~d~llv~~~~~~E~~~l~i~~~l  104 (333)
T 3io5_A           30 LLILAGPSKSFKSNFGLTMVSSYMRQYPDAVCLFYDSEFGITPA-----YLRSMGVDPERVIHTPVQSLEQLRIDMVNQL  104 (333)
T ss_dssp             EEEEEESSSSSHHHHHHHHHHHHHHHCTTCEEEEEESSCCCCHH-----HHHHTTCCGGGEEEEECSBHHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHHhcCCCceEEEEeccchhhHH-----HHHHhCCCHHHeEEEcCCCHHHHHHHHHHHH
Confidence            78999999999999997776543221113578999988888764     2566665432     12345554 3333332


Q ss_pred             --c-CCceEEEEecCCCCC
Q 036619          287 --I-KGKKNFLVLDDVWDG  302 (352)
Q Consensus       287 --l-~~kr~LlVlDdvw~~  302 (352)
                        + .++.-|||+|-+...
T Consensus       105 ~~i~~~~~~lvVIDSI~aL  123 (333)
T 3io5_A          105 DAIERGEKVVVFIDSLGNL  123 (333)
T ss_dssp             HTCCTTCCEEEEEECSTTC
T ss_pred             HHhhccCceEEEEeccccc
Confidence              3 456789999998653

>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=97.10  E-value=0.00069  Score=68.41  Aligned_cols=133  Identities=16%  Similarity=0.224  Sum_probs=73.4

Q ss_pred             CccccccchHHHHHHHHcCccc---cCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHH
Q 036619          184 GEVCGRVDEKSELFSKLLCESS---EQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAK  260 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~---~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~  260 (352)
                      ..++|.+..++.+...+.....   ........+.++|++|+|||+||+.+.+..  .   ...+.++++.......   
T Consensus       458 ~~v~g~~~~~~~l~~~i~~~~~g~~~~~~p~~~~ll~G~~GtGKT~la~~la~~l--~---~~~~~i~~s~~~~~~~---  529 (758)
T 1r6b_X          458 MLVFGQDKAIEALTEAIKMARAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKAL--G---IELLRFDMSEYMERHT---  529 (758)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHHTTCSCTTSCSEEEEEECSTTSSHHHHHHHHHHHH--T---CEEEEEEGGGCSSSSC---
T ss_pred             hhccCHHHHHHHHHHHHHHHhcccCCCCCCceEEEEECCCCCcHHHHHHHHHHHh--c---CCEEEEechhhcchhh---
Confidence            4578888888887776643221   011234578899999999999999998742  1   2334455444222100   


Q ss_pred             HHHHHhCCCCCCcccH---HHHHHHHHHhcCCceEEEEecCCCCCCccChhHHHHhhccCC-----------CCcEEEEe
Q 036619          261 AIIEGLGKSASGLNEF---QSLMSRIQSSIKGKKNFLVLDDVWDGDYNKWQPFFRCLKNGL-----------HGSKILVT  326 (352)
Q Consensus       261 ~i~~~l~~~~~~~~~~---~~~~~~l~~~l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~-----------~gs~IivT  326 (352)
                        ...+.+..++....   ..+...++   .....+|+||++.....+..+.|...+..+.           ....||.|
T Consensus       530 --~~~l~g~~~g~~g~~~~~~l~~~~~---~~~~~vl~lDEi~~~~~~~~~~Ll~~le~~~~~~~~g~~~~~~~~~iI~t  604 (758)
T 1r6b_X          530 --VSRLIGAPPGYVGFDQGGLLTDAVI---KHPHAVLLLDEIEKAHPDVFNILLQVMDNGTLTDNNGRKADFRNVVLVMT  604 (758)
T ss_dssp             --CSSSCCCCSCSHHHHHTTHHHHHHH---HCSSEEEEEETGGGSCHHHHHHHHHHHHHSEEEETTTEEEECTTEEEEEE
T ss_pred             --HhhhcCCCCCCcCccccchHHHHHH---hCCCcEEEEeCccccCHHHHHHHHHHhcCcEEEcCCCCEEecCCeEEEEe
Confidence              00111111111111   11222222   2345799999998776666777777776431           23447777


Q ss_pred             cCC
Q 036619          327 TRN  329 (352)
Q Consensus       327 TR~  329 (352)
                      |-.
T Consensus       605 sN~  607 (758)
T 1r6b_X          605 TNA  607 (758)
T ss_dssp             ECS
T ss_pred             cCc
Confidence            653

>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=97.10  E-value=0.0017  Score=58.35  Aligned_cols=90  Identities=20%  Similarity=0.283  Sum_probs=57.4

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhhhhhhc---------cC-----CeEEEEEeCCCCCHHHHHHHHHHHhCCCCC----
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNNDEVKR---------NF-----EKVIWVCVSDTFDQIRIAKAIIEGLGKSAS----  271 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~---------~F-----~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~----  271 (352)
                      .-.++.|+|.+|+||||||..+..+.....         ..     ..++|++....++..++.. +++.++....    
T Consensus        97 ~g~i~~i~G~~gsGKT~la~~la~~~~l~~~~~~~~~~~~~gg~~~~~v~yi~~e~~~~~~~l~~-~~~~~g~~~~~~~~  175 (322)
T 2i1q_A           97 SQSVTEFAGVFGSGKTQIMHQSCVNLQNPEFLFYDEEAVSKGEVAQPKAVYIDTEGTFRPERIMQ-MAEHAGIDGQTVLD  175 (322)
T ss_dssp             TTEEEEEEESTTSSHHHHHHHHHHHTTCGGGEECCTTTSCTTTTSSEEEEEEESSSCCCHHHHHH-HHHHHTCCHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHhccccccccccccccCCCCCceEEEEECCCCCCHHHHHH-HHHHcCCCHHHHhc
Confidence            357899999999999999988775422111         11     4789999888887776654 3455543210    


Q ss_pred             -----CcccHH---HHHHHHHHhcC--CceEEEEecCCC
Q 036619          272 -----GLNEFQ---SLMSRIQSSIK--GKKNFLVLDDVW  300 (352)
Q Consensus       272 -----~~~~~~---~~~~~l~~~l~--~kr~LlVlDdvw  300 (352)
                           ...+.+   ++...+...+.  .+.-+||+|.+.
T Consensus       176 ~l~~~~~~~~~~~~~~l~~l~~~~~~~~~~~lvVIDsl~  214 (322)
T 2i1q_A          176 NTFVARAYNSDMQMLFAEKIEDLIQEGNNIKLVVIDSLT  214 (322)
T ss_dssp             TEEEEECSSHHHHHHHHHTHHHHHHTTCEEEEEEEECSS
T ss_pred             CEEEEeCCCHHHHHHHHHHHHHHHhhccCccEEEEECcH
Confidence                 112222   34455656554  456699999984

>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=97.09  E-value=0.0021  Score=58.56  Aligned_cols=85  Identities=20%  Similarity=0.219  Sum_probs=55.8

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCC-----CcccHHHHHHHHH
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSAS-----GLNEFQSLMSRIQ  284 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~-----~~~~~~~~~~~l~  284 (352)
                      .-.++.|+|.+|+||||||..+.....  ..=..++|++....++..     .++.++....     ...+.+++...+.
T Consensus        60 ~G~iv~I~G~pGsGKTtLal~la~~~~--~~g~~vlyi~~E~~~~~~-----~a~~lG~~~~~l~i~~~~~~e~~l~~~~  132 (349)
T 2zr9_A           60 RGRVIEIYGPESSGKTTVALHAVANAQ--AAGGIAAFIDAEHALDPE-----YAKKLGVDTDSLLVSQPDTGEQALEIAD  132 (349)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHHH--HTTCCEEEEESSCCCCHH-----HHHHTTCCGGGCEEECCSSHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH--hCCCeEEEEECCCCcCHH-----HHHHcCCCHHHeEEecCCCHHHHHHHHH
Confidence            356899999999999999988876422  222468899988777653     2444443211     1234556556665


Q ss_pred             HhcC-CceEEEEecCCCC
Q 036619          285 SSIK-GKKNFLVLDDVWD  301 (352)
Q Consensus       285 ~~l~-~kr~LlVlDdvw~  301 (352)
                      .... .+.-+||+|.+-.
T Consensus       133 ~l~~~~~~~lIVIDsl~~  150 (349)
T 2zr9_A          133 MLVRSGALDIIVIDSVAA  150 (349)
T ss_dssp             HHHTTTCCSEEEEECGGG
T ss_pred             HHHhcCCCCEEEEcChHh
Confidence            5554 3456999999854

>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=97.07  E-value=0.0025  Score=58.36  Aligned_cols=84  Identities=15%  Similarity=0.213  Sum_probs=55.9

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCC-----CcccHHHHHHHHHH
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSAS-----GLNEFQSLMSRIQS  285 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~-----~~~~~~~~~~~l~~  285 (352)
                      -.++.|.|.+|+||||||..+.....  ..-..++|++....++..     .++.++....     ...+.+++...+..
T Consensus        74 G~li~I~G~pGsGKTtlal~la~~~~--~~g~~vlyi~~E~s~~~~-----~a~~~g~d~~~l~i~~~~~~e~~l~~l~~  146 (366)
T 1xp8_A           74 GRITEIYGPESGGKTTLALAIVAQAQ--KAGGTCAFIDAEHALDPV-----YARALGVNTDELLVSQPDNGEQALEIMEL  146 (366)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHHHH--HTTCCEEEEESSCCCCHH-----HHHHTTCCGGGCEEECCSSHHHHHHHHHH
T ss_pred             CcEEEEEcCCCCChHHHHHHHHHHHH--HCCCeEEEEECCCChhHH-----HHHHcCCCHHHceeecCCcHHHHHHHHHH
Confidence            45788899999999999987776422  223478999998877654     2344443211     12345666666766


Q ss_pred             hcCC-ceEEEEecCCCC
Q 036619          286 SIKG-KKNFLVLDDVWD  301 (352)
Q Consensus       286 ~l~~-kr~LlVlDdvw~  301 (352)
                      .++. .--+||+|.+..
T Consensus       147 l~~~~~~~lVVIDsl~~  163 (366)
T 1xp8_A          147 LVRSGAIDVVVVDSVAA  163 (366)
T ss_dssp             HHTTTCCSEEEEECTTT
T ss_pred             HHhcCCCCEEEEeChHH
Confidence            6643 445999999854

>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=97.04  E-value=0.0014  Score=63.42  Aligned_cols=51  Identities=24%  Similarity=0.286  Sum_probs=34.6

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..++|.++-...+.+.+.-..-.......++.++|++|+||||||+.+...
T Consensus        81 ~di~G~~~vk~~i~~~~~l~~~~~~~~g~~vll~Gp~GtGKTtlar~ia~~  131 (543)
T 3m6a_A           81 EEHHGLEKVKERILEYLAVQKLTKSLKGPILCLAGPPGVGKTSLAKSIAKS  131 (543)
T ss_dssp             HHCSSCHHHHHHHHHHHHHHHHSSSCCSCEEEEESSSSSSHHHHHHHHHHH
T ss_pred             HHhccHHHHHHHHHHHHHHHHhcccCCCCEEEEECCCCCCHHHHHHHHHHh
Confidence            357887777776655442111001123568999999999999999999874

>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=97.04  E-value=0.0029  Score=56.96  Aligned_cols=90  Identities=20%  Similarity=0.268  Sum_probs=57.4

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhhhhhhcc----CCeEEEEEeCCCCCHHHHHHHHHHHhCCCCC---------CcccHH
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNNDEVKRN----FEKVIWVCVSDTFDQIRIAKAIIEGLGKSAS---------GLNEFQ  277 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~----F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~---------~~~~~~  277 (352)
                      -.++.|+|.+|+||||||..+.........    -..++|++....++..++.. +++.++....         ...+.+
T Consensus       107 G~i~~i~G~~GsGKT~la~~la~~~~~~~~~gg~~~~vlyi~~e~~~~~~~l~~-~~~~~g~~~~~~~~~l~~~~~~~~~  185 (324)
T 2z43_A          107 RTMTEFFGEFGSGKTQLCHQLSVNVQLPPEKGGLSGKAVYIDTEGTFRWERIEN-MAKALGLDIDNVMNNIYYIRAINTD  185 (324)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSCEEEEEESSSCCCHHHHHH-HHHHTTCCHHHHHHTEEEEECCSHH
T ss_pred             CcEEEEECCCCCCHhHHHHHHHHHHhcccccCCCCCeEEEEECCCCCCHHHHHH-HHHHhCCCHHHHhccEEEEeCCCHH
Confidence            468899999999999999888764211110    24789999888887776653 4455543210         111222


Q ss_pred             ---HHHHHHHHhcC--CceEEEEecCCCC
Q 036619          278 ---SLMSRIQSSIK--GKKNFLVLDDVWD  301 (352)
Q Consensus       278 ---~~~~~l~~~l~--~kr~LlVlDdvw~  301 (352)
                         ++...+...+.  .+.-+||+|.+..
T Consensus       186 ~~~~~l~~l~~~~~~~~~~~lvVIDsl~~  214 (324)
T 2z43_A          186 HQIAIVDDLQELVSKDPSIKLIVVDSVTS  214 (324)
T ss_dssp             HHHHHHHHHHHHHHHCTTEEEEEETTTTH
T ss_pred             HHHHHHHHHHHHHHhccCCCEEEEeCcHH
Confidence               34455555553  4667999999843

>1g5t_A COB(I)alamin adenosyltransferase; P-loop protein, cobalamin biosynthesis, RECA fold; HET: ATP; 1.80A {Salmonella typhimurium} SCOP: c.37.1.11 PDB: 1g5r_A* 1g64_A*

Probab=97.02  E-value=0.0013  Score=54.38  Aligned_cols=117  Identities=15%  Similarity=0.055  Sum_probs=65.0

Q ss_pred             EEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCC---CCHHHHHHHHHHHh---CCCCC-Cc-------ccHH
Q 036619          212 QVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDT---FDQIRIAKAIIEGL---GKSAS-GL-------NEFQ  277 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~---~~~~~~~~~i~~~l---~~~~~-~~-------~~~~  277 (352)
                      ..|-|++..|.||||+|--..-.  .-.+=-.+.++..-+.   .....++..+.-.+   +..-. ..       ....
T Consensus        29 g~i~v~tG~GkGKTTaA~GlalR--A~g~G~rV~~vQF~Kg~~~~gE~~~l~~L~v~~~~~g~gf~~~~~~~~~~~~~a~  106 (196)
T 1g5t_A           29 GIIIVFTGNGKGKTTAAFGTAAR--AVGHGKNVGVVQFIKGTWPNGERNLLEPHGVEFQVMATGFTWETQNREADTAACM  106 (196)
T ss_dssp             CCEEEEESSSSCHHHHHHHHHHH--HHHTTCCEEEEESSCCSSCCHHHHHHGGGTCEEEECCTTCCCCGGGHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHHH--HHHCCCeEEEEEeeCCCCCccHHHHHHhCCcEEEEcccccccCCCCcHHHHHHHH
Confidence            45667777789999999665542  2233234555544332   22333333321000   00000 00       0122


Q ss_pred             HHHHHHHHhcCCceE-EEEecCCCC---CCccChhHHHHhhccCCCCcEEEEecCCh
Q 036619          278 SLMSRIQSSIKGKKN-FLVLDDVWD---GDYNKWQPFFRCLKNGLHGSKILVTTRNE  330 (352)
Q Consensus       278 ~~~~~l~~~l~~kr~-LlVlDdvw~---~~~~~~~~l~~~l~~~~~gs~IivTTR~~  330 (352)
                      .....+++.+.+.+| |||||++-.   ...-..+.+...+.......-||+|+|..
T Consensus       107 ~~l~~a~~~l~~~~yDlvILDEi~~al~~g~l~~~ev~~~l~~Rp~~~~vIlTGr~a  163 (196)
T 1g5t_A          107 AVWQHGKRMLADPLLDMVVLDELTYMVAYDYLPLEEVISALNARPGHQTVIITGRGC  163 (196)
T ss_dssp             HHHHHHHHHTTCTTCSEEEEETHHHHHHTTSSCHHHHHHHHHTSCTTCEEEEECSSC
T ss_pred             HHHHHHHHHHhcCCCCEEEEeCCCccccCCCCCHHHHHHHHHhCcCCCEEEEECCCC
Confidence            334556666766666 999999832   12245677878887666677799999986

>3lw7_A Adenylate kinase related protein (ADKA-like); AMP, PSI, MCSG, structural genomics, midwest center for structural genomics; HET: AMP; 2.30A {Sulfolobus solfataricus} PDB: 3h0k_A

Probab=97.02  E-value=0.0029  Score=50.87  Aligned_cols=20  Identities=40%  Similarity=0.702  Sum_probs=18.6

Q ss_pred             EEEEEEecCCCcHHHHHHHH
Q 036619          212 QVISLVGLGGIGKTTLAQLA  231 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v  231 (352)
                      .+|.|.|++|+||||+|+.+
T Consensus         2 ~~I~l~G~~GsGKsT~a~~L   21 (179)
T 3lw7_A            2 KVILITGMPGSGKSEFAKLL   21 (179)
T ss_dssp             CEEEEECCTTSCHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHH
Confidence            47899999999999999999

>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=96.92  E-value=0.002  Score=60.94  Aligned_cols=47  Identities=19%  Similarity=0.210  Sum_probs=34.6

Q ss_pred             CccccccchHHHHHHH---HcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          184 GEVCGRVDEKSELFSK---LLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~---L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..++|.++.++.+..+   +....    ...+-+.++|++|+|||+||+.+.+.
T Consensus        37 ~~iiG~~~~~~~l~~~~~~~~~~~----~~~~~iLl~GppGtGKT~la~ala~~   86 (456)
T 2c9o_A           37 SGLVGQENAREACGVIVELIKSKK----MAGRAVLLAGPPGTGKTALALAIAQE   86 (456)
T ss_dssp             TTEESCHHHHHHHHHHHHHHHTTC----CTTCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             hhccCHHHHHHHHHHHHHHHHhCC----CCCCeEEEECCCcCCHHHHHHHHHHH
Confidence            5689999887765443   33322    22355779999999999999999985

>1u94_A RECA protein, recombinase A; homologous recombination, ATPase, DNA repair, DNA binding protein; 1.90A {Escherichia coli} SCOP: c.37.1.11 d.48.1.1 PDB: 1u98_A 1u99_A 1xms_A* 1xmv_A* 2rec_A 2reb_A 1n03_A* 1rea_A 1aa3_A

Probab=96.90  E-value=0.0019  Score=58.86  Aligned_cols=85  Identities=18%  Similarity=0.226  Sum_probs=54.2

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCC-----CcccHHHHHHHHH
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSAS-----GLNEFQSLMSRIQ  284 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~-----~~~~~~~~~~~l~  284 (352)
                      .-.++.|.|.+|+||||||..+.....  ..-..++|++....++...     +..++....     ...+.+++...+.
T Consensus        62 ~G~ii~I~G~pGsGKTtLal~la~~~~--~~g~~vlyid~E~s~~~~~-----a~~~g~~~~~l~i~~~~~~e~~~~~~~  134 (356)
T 1u94_A           62 MGRIVEIYGPESSGKTTLTLQVIAAAQ--REGKTCAFIDAEHALDPIY-----ARKLGVDIDNLLCSQPDTGEQALEICD  134 (356)
T ss_dssp             TTSEEEEECSTTSSHHHHHHHHHHHHH--HTTCCEEEEESSCCCCHHH-----HHHTTCCGGGCEEECCSSHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH--HCCCeEEEEeCCCCccHHH-----HHHcCCChhheeeeCCCCHHHHHHHHH
Confidence            346889999999999999988776432  2224688999888776432     344443211     1123455555555


Q ss_pred             HhcC-CceEEEEecCCCC
Q 036619          285 SSIK-GKKNFLVLDDVWD  301 (352)
Q Consensus       285 ~~l~-~kr~LlVlDdvw~  301 (352)
                      ...+ .+--+||+|.+..
T Consensus       135 ~l~~~~~~~lVVIDsl~~  152 (356)
T 1u94_A          135 ALARSGAVDVIVVDSVAA  152 (356)
T ss_dssp             HHHHHTCCSEEEEECGGG
T ss_pred             HHHhccCCCEEEEcCHHH
Confidence            4442 4455999999854

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=96.89  E-value=0.001  Score=55.44  Aligned_cols=43  Identities=30%  Similarity=0.316  Sum_probs=33.1

Q ss_pred             ccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          189 RVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       189 r~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      |++.++.|.+.+.....   ....+++|+|..|+|||||++.+...
T Consensus         3 ~~~~~~~l~~~~~~~~~---~~~~~i~i~G~~GsGKstl~~~l~~~   45 (201)
T 1rz3_A            3 LRDRIDFLCKTILAIKT---AGRLVLGIDGLSRSGKTTLANQLSQT   45 (201)
T ss_dssp             HHHHHHHHHHHHHTSCC---SSSEEEEEEECTTSSHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhcc---CCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            44566777777765431   34689999999999999999998863

>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=96.88  E-value=0.0048  Score=54.79  Aligned_cols=25  Identities=32%  Similarity=0.224  Sum_probs=21.9

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ...+++++|.+|+||||++..+...
T Consensus       104 ~g~vi~lvG~~GsGKTTl~~~LA~~  128 (296)
T 2px0_A          104 HSKYIVLFGSTGAGKTTTLAKLAAI  128 (296)
T ss_dssp             CSSEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHH
Confidence            3579999999999999999888764

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=96.87  E-value=0.0028  Score=59.12  Aligned_cols=51  Identities=24%  Similarity=0.180  Sum_probs=36.5

Q ss_pred             CccccccchHHHHHHHHcCccc-------cCCCCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          184 GEVCGRVDEKSELFSKLLCESS-------EQQNGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~-------~~~~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .++.|-++.+++|.+.+.-+-.       -+-..++-+.++|++|+|||+||+.+.+.
T Consensus       172 ~digGl~~~k~~l~e~v~~pl~~p~~~~~~g~~~prGiLL~GPPGtGKT~lakAiA~~  229 (428)
T 4b4t_K          172 ADVGGLDMQKQEIREAVELPLVQADLYEQIGIDPPRGVLLYGPPGTGKTMLVKAVANS  229 (428)
T ss_dssp             GGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTTTHHHHHHHHHHH
T ss_pred             HHhccHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCceEEEECCCCCCHHHHHHHHHHH
Confidence            5678888888887665532100       01234566889999999999999999984

>4b4t_J 26S protease regulatory subunit 8 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=96.86  E-value=0.0023  Score=59.00  Aligned_cols=51  Identities=22%  Similarity=0.143  Sum_probs=35.6

Q ss_pred             CccccccchHHHHHHHHcC----ccc---cCCCCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          184 GEVCGRVDEKSELFSKLLC----ESS---EQQNGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~----~~~---~~~~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .++.|-++.+++|.+.+.-    ++-   -+-..++-+.++|++|.|||.||+.+.+.
T Consensus       148 ~dIgGl~~~k~~l~e~v~~Pl~~pe~f~~~gi~~prGvLL~GPPGTGKTllAkAiA~e  205 (405)
T 4b4t_J          148 DMVGGLTKQIKEIKEVIELPVKHPELFESLGIAQPKGVILYGPPGTGKTLLARAVAHH  205 (405)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCCEEEESCSSSSHHHHHHHHHHH
T ss_pred             HHhCCHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCceEEeCCCCCCHHHHHHHHHHh
Confidence            4678888887777655421    110   01233566789999999999999999984

>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=96.78  E-value=0.0056  Score=54.19  Aligned_cols=39  Identities=21%  Similarity=0.107  Sum_probs=27.5

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeC
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVS  250 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs  250 (352)
                      -.++.|+|.+|+|||||++.+........ -..++|+...
T Consensus        35 G~~~~i~G~~G~GKTTl~~~ia~~~~~~~-G~~v~~~~~e   73 (296)
T 1cr0_A           35 GEVIMVTSGSGMGKSTFVRQQALQWGTAM-GKKVGLAMLE   73 (296)
T ss_dssp             TCEEEEEESTTSSHHHHHHHHHHHHHHTS-CCCEEEEESS
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHHHHHHHc-CCeEEEEeCc
Confidence            46899999999999999998887532221 1146666543

>4b4t_M 26S protease regulatory subunit 6A; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=96.75  E-value=0.0021  Score=60.00  Aligned_cols=51  Identities=22%  Similarity=0.214  Sum_probs=36.8

Q ss_pred             CccccccchHHHHHHHHc----Cccc---cCCCCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          184 GEVCGRVDEKSELFSKLL----CESS---EQQNGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~----~~~~---~~~~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .++.|-++.+++|.+.+.    .++-   -+-..++-+.++|++|+|||.||+.+.+.
T Consensus       181 ~digGl~~~k~~l~e~v~~pl~~pe~f~~~g~~~prGvLLyGPPGTGKTllAkAiA~e  238 (434)
T 4b4t_M          181 SDVGGLDKQIEELVEAIVLPMKRADKFKDMGIRAPKGALMYGPPGTGKTLLARACAAQ  238 (434)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCSHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHHH
T ss_pred             HhcCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeeEEECcCCCCHHHHHHHHHHH
Confidence            568888888888776542    2110   01234567889999999999999999984

>1um8_A ATP-dependent CLP protease ATP-binding subunit CL; CLPP binding loop, chaperone; HET: ADP; 2.60A {Helicobacter pylori} SCOP: c.37.1.20

Probab=96.74  E-value=0.0038  Score=57.37  Aligned_cols=24  Identities=38%  Similarity=0.405  Sum_probs=20.9

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ...+.++|++|+|||+||+.+.+.
T Consensus        72 ~~~ill~Gp~GtGKT~la~~la~~   95 (376)
T 1um8_A           72 KSNILLIGPTGSGKTLMAQTLAKH   95 (376)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCCEEEECCCCCCHHHHHHHHHHH
Confidence            345789999999999999999974

>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=96.72  E-value=0.013  Score=51.84  Aligned_cols=55  Identities=16%  Similarity=0.098  Sum_probs=33.5

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHhhhhhhc-cCCeEEEEEeCCCCCHHHHHHHHH
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYNNDEVKR-NFEKVIWVCVSDTFDQIRIAKAII  263 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~-~F~~~~wv~vs~~~~~~~~~~~i~  263 (352)
                      ....+|+|+|..|+||||||+.+........ .......|+...-+-.......+.
T Consensus        29 ~~~~ii~I~G~sGsGKSTla~~L~~~l~~~g~~~~~~~iv~~D~f~~~~~~~~~l~   84 (290)
T 1odf_A           29 KCPLFIFFSGPQGSGKSFTSIQIYNHLMEKYGGEKSIGYASIDDFYLTHEDQLKLN   84 (290)
T ss_dssp             CSCEEEEEECCTTSSHHHHHHHHHHHHHHHHGGGSCEEEEEGGGGBCCHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHhhhcCCCCceEEEeccccccCChHHHHHHh
Confidence            4578999999999999999998876432211 123344445444333333444443

>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=96.67  E-value=0.0038  Score=62.78  Aligned_cols=98  Identities=14%  Similarity=0.127  Sum_probs=56.9

Q ss_pred             CccccccchHHHHHHHHc----Cccc---cCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHH
Q 036619          184 GEVCGRVDEKSELFSKLL----CESS---EQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQI  256 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~----~~~~---~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~  256 (352)
                      .++.|-++.+++|.+.+.    .++-   -+-..++-|.++|++|+|||+||+.+++.  ...+   .+.|+.+.     
T Consensus       204 ~dIgGl~~~~~~l~e~v~~pl~~p~~f~~~g~~~p~GILL~GPPGTGKT~LAraiA~e--lg~~---~~~v~~~~-----  273 (806)
T 3cf2_A          204 DDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANE--TGAF---FFLINGPE-----  273 (806)
T ss_dssp             GGCCSCCTTHHHHHHHHHHHHHCCGGGTSCCCCCCCEEEEECCTTSCHHHHHHHHHTT--TTCE---EEEEEHHH-----
T ss_pred             hhhcCHHHHHHHHHHHHHHHccCHHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHH--hCCe---EEEEEhHH-----
Confidence            457788888877766542    2211   01234567889999999999999999984  2222   23343221     


Q ss_pred             HHHHHHHHHhCCCCCCcccHHHHHHHHHHhcCCceEEEEecCCCC
Q 036619          257 RIAKAIIEGLGKSASGLNEFQSLMSRIQSSIKGKKNFLVLDDVWD  301 (352)
Q Consensus       257 ~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdvw~  301 (352)
                           +...     ........+...+.......+.+|+||++..
T Consensus       274 -----l~sk-----~~gese~~lr~lF~~A~~~~PsIIfIDEiDa  308 (806)
T 3cf2_A          274 -----IMSK-----LAGESESNLRKAFEEAEKNAPAIIFIDELDA  308 (806)
T ss_dssp             -----HHSS-----CTTHHHHHHHHHHHHHTTSCSEEEEEESGGG
T ss_pred             -----hhcc-----cchHHHHHHHHHHHHHHHcCCeEEEEehhcc
Confidence                 1110     0011122233333444467789999999854

>2pze_A Cystic fibrosis transmembrane conductance regulat; NBD, ABC transporter, CFTR, hydrolase; HET: ATP; 1.70A {Homo sapiens} PDB: 2pzg_A* 2pzf_A* 1ckx_A 1cky_A 1ckw_A 1ckz_A

Probab=96.66  E-value=0.019  Score=48.82  Aligned_cols=24  Identities=29%  Similarity=0.470  Sum_probs=21.3

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      -.+++|+|+.|.|||||.+.+..-
T Consensus        34 Ge~~~i~G~nGsGKSTLl~~l~Gl   57 (229)
T 2pze_A           34 GQLLAVAGSTGAGKTSLLMMIMGE   57 (229)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            358999999999999999999863

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=96.63  E-value=0.0018  Score=54.32  Aligned_cols=38  Identities=26%  Similarity=0.334  Sum_probs=28.4

Q ss_pred             HHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          193 KSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       193 ~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .++|.+.+....    ....+++|+|+.|+|||||++.+..-
T Consensus         8 ~~~~~~~~~~~~----~~g~~v~I~G~sGsGKSTl~~~l~~~   45 (208)
T 3c8u_A            8 CQGVLERLDPRQ----PGRQLVALSGAPGSGKSTLSNPLAAA   45 (208)
T ss_dssp             HHHHHHHSCTTC----CSCEEEEEECCTTSCTHHHHHHHHHH
T ss_pred             HHHHHHHHHhcC----CCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            345555554331    45689999999999999999998864

>1mv5_A LMRA, multidrug resistance ABC transporter ATP-binding and permease protein; asymmetric dimer, tetramer, P-glycoprotein; HET: ATP ADP; 3.10A {Lactococcus lactis} SCOP: c.37.1.12

Probab=96.63  E-value=0.019  Score=49.33  Aligned_cols=23  Identities=30%  Similarity=0.424  Sum_probs=21.0

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYN  233 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~  233 (352)
                      -.+++|+|+.|+|||||.+.+..
T Consensus        28 Ge~~~i~G~nGsGKSTLl~~l~G   50 (243)
T 1mv5_A           28 NSIIAFAGPSGGGKSTIFSLLER   50 (243)
T ss_dssp             TEEEEEECCTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHhc
Confidence            46899999999999999999875

>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET: ADP; 3.90A {Thermus thermophilus}

Probab=96.61  E-value=0.012  Score=56.12  Aligned_cols=51  Identities=29%  Similarity=0.281  Sum_probs=33.3

Q ss_pred             CccccccchHHHHHHHH---cCcccc---CCCCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          184 GEVCGRVDEKSELFSKL---LCESSE---QQNGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L---~~~~~~---~~~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .+++|.++.+.++.+..   .....-   +-.-.+-+.|+|++|+||||||+.+...
T Consensus        31 ~dv~G~~~~k~~l~~lv~~l~~~~~~~~lg~~ip~GvLL~GppGtGKTtLaraIa~~   87 (499)
T 2dhr_A           31 KDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGE   87 (499)
T ss_dssp             TSSCSCHHHHHHHHHHHHHHHCGGGTTTTSCCCCSEEEEECSSSSSHHHHHHHHHHH
T ss_pred             HHcCCcHHHHHHHHHHHHHhhchhhhhhccCCCCceEEEECCCCCCHHHHHHHHHHH
Confidence            46889887766665543   221100   0011223889999999999999999974

>4b4t_H 26S protease regulatory subunit 7 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=96.59  E-value=0.0023  Score=59.87  Aligned_cols=51  Identities=25%  Similarity=0.193  Sum_probs=36.0

Q ss_pred             CccccccchHHHHHHHHc----Cccc---cCCCCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          184 GEVCGRVDEKSELFSKLL----CESS---EQQNGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~----~~~~---~~~~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .++.|-++.+++|.+.+.    .++-   -+-..++-|.++|++|+|||.||+.+.+.
T Consensus       209 ~DIgGl~~~k~~L~e~V~~pl~~pe~f~~~Gi~pprGILLyGPPGTGKTlLAkAiA~e  266 (467)
T 4b4t_H          209 SDVGGCKDQIEKLREVVELPLLSPERFATLGIDPPKGILLYGPPGTGKTLCARAVANR  266 (467)
T ss_dssp             SSCTTCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCSEEEECSCTTSSHHHHHHHHHHH
T ss_pred             HHhccHHHHHHHHHHHHHHHhcCHHHHHHCCCCCCCceEeeCCCCCcHHHHHHHHHhc
Confidence            467888888887766532    1110   01234667789999999999999999984

>1jr3_D DNA polymerase III, delta subunit; processivity, processivity clamp, clamp loader, AAA+ ATPase, transferase; HET: DNA; 2.70A {Escherichia coli} SCOP: a.80.1.1 c.37.1.20 PDB: 1jqj_C* 1xxh_A* 1xxi_A* 3glf_A* 3glg_A* 3glh_A* 3gli_A*

Probab=96.54  E-value=0.026  Score=50.97  Aligned_cols=119  Identities=9%  Similarity=0.005  Sum_probs=75.3

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCcccHHHHHHHHHH-hcCC
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSASGLNEFQSLMSRIQS-SIKG  289 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~-~l~~  289 (352)
                      ..+..++|+.|.||++.++.+..... ...|+....+.+....+..                     ++.+.+.. -+-+
T Consensus        18 ~~~yl~~G~e~~~~~~~~~~l~~~~~-~~~~~~~~~~~~~~~~~~~---------------------~l~~~~~~~plf~   75 (343)
T 1jr3_D           18 RAAYLLLGNDPLLLQESQDAVRQVAA-AQGFEEHHTFSIDPNTDWN---------------------AIFSLCQAMSLFA   75 (343)
T ss_dssp             CSEEEEEESCHHHHHHHHHHHHHHHH-HHTCCEEEEEECCTTCCHH---------------------HHHHHHHHHHHCC
T ss_pred             CcEEEEECCcHHHHHHHHHHHHHHHH-hCCCCeeEEEEecCCCCHH---------------------HHHHHhcCcCCcc
Confidence            56888999999999999988887422 2345432222333333333                     33333322 1245


Q ss_pred             ceEEEEecCCCC-CCccChhHHHHhhccCCCCcEEEEecCC-------hHHHHHhCC-CCeeeCCCCCCCc
Q 036619          290 KKNFLVLDDVWD-GDYNKWQPFFRCLKNGLHGSKILVTTRN-------ESVARMMGS-TDIISIEQLAEEE  351 (352)
Q Consensus       290 kr~LlVlDdvw~-~~~~~~~~l~~~l~~~~~gs~IivTTR~-------~~va~~~~~-~~~~~l~~L~~~e  351 (352)
                      .+-++|+|++.. ...+.++.|...+....+++.+|++|..       ..+...+.. ...++..++++++
T Consensus        76 ~~kvvii~~~~~kl~~~~~~aLl~~le~p~~~~~~il~~~~~~~~~~~~k~~~~i~sr~~~~~~~~l~~~~  146 (343)
T 1jr3_D           76 SRQTLLLLLPENGPNAAINEQLLTLTGLLHDDLLLIVRGNKLSKAQENAAWFTALANRSVQVTCQTPEQAQ  146 (343)
T ss_dssp             SCEEEEEECCSSCCCTTHHHHHHHHHTTCBTTEEEEEEESCCCTTTTTSHHHHHHTTTCEEEEECCCCTTH
T ss_pred             CCeEEEEECCCCCCChHHHHHHHHHHhcCCCCeEEEEEcCCCChhhHhhHHHHHHHhCceEEEeeCCCHHH
Confidence            677888999976 5556788898888876667777766532       345555443 5678888887654

>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=96.53  E-value=0.013  Score=53.28  Aligned_cols=92  Identities=24%  Similarity=0.308  Sum_probs=54.5

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHhhhhhhccC----CeEEEEEeCCCCCHHHHHHHHHHHhCCCC------------CC
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNF----EKVIWVCVSDTFDQIRIAKAIIEGLGKSA------------SG  272 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F----~~~~wv~vs~~~~~~~~~~~i~~~l~~~~------------~~  272 (352)
                      +.-.++.|+|+.|+|||||+..+..........    ..++|++....+....+ ..+.+..+...            ..
T Consensus       129 ~~G~i~~I~G~~GsGKTTL~~~l~~~~~~~~~~Gg~~G~vi~i~~e~~~~~~~i-~~i~q~~~~~~~~v~~ni~~~~~~~  207 (349)
T 1pzn_A          129 ETQAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTENTFRPERI-REIAQNRGLDPDEVLKHIYVARAFN  207 (349)
T ss_dssp             ESSEEEEEEESTTSSHHHHHHHHHHHTTSCGGGTSCSCEEEEEESSSCCCHHHH-HHHHHTTTCCHHHHGGGEEEEECCS
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHhccchhcCCCCCeEEEEeCCCCCCHHHH-HHHHHHcCCCHHHHhhCEEEEecCC
Confidence            346899999999999999999888642111111    24588887766544433 33444333211            00


Q ss_pred             cccHHHHHHHHHHhcC------CceEEEEecCCCC
Q 036619          273 LNEFQSLMSRIQSSIK------GKKNFLVLDDVWD  301 (352)
Q Consensus       273 ~~~~~~~~~~l~~~l~------~kr~LlVlDdvw~  301 (352)
                      .....++...+...+.      .+.-|||||.+-.
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            1112334445555553      4677999999854

>2orw_A Thymidine kinase; TMTK, TP4A, transferase; HET: 4TA; 1.50A {Thermotoga maritima} PDB: 2qpo_A 2qq0_A* 2qqe_A*

Probab=96.47  E-value=0.00084  Score=55.27  Aligned_cols=107  Identities=13%  Similarity=0.024  Sum_probs=51.4

Q ss_pred             EEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCCC--CCcccHHHHHHHHHHhcCC
Q 036619          212 QVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSA--SGLNEFQSLMSRIQSSIKG  289 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~--~~~~~~~~~~~~l~~~l~~  289 (352)
                      .++.|+|+.|+||||++..+....... .. .++.+......  ......+...++...  ....+.    ..+.+.+.+
T Consensus         4 ~i~vi~G~~gsGKTT~ll~~~~~~~~~-g~-~v~~~~~~~d~--r~~~~~i~s~~g~~~~~~~~~~~----~~~~~~~~~   75 (184)
T 2orw_A            4 KLTVITGPMYSGKTTELLSFVEIYKLG-KK-KVAVFKPKIDS--RYHSTMIVSHSGNGVEAHVIERP----EEMRKYIEE   75 (184)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHHHHHT-TC-EEEEEEEC-------CCCEECC----CEECEEESSG----GGGGGGCCT
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHHHC-CC-eEEEEeecccc--ccCcccEEecCCCceeeEEECCH----HHHHHHhcC
Confidence            477899999999999995555432222 22 23333322110  000000000111100  001111    122233344


Q ss_pred             ceEEEEecCCCCCCccChhHHHHhhccCCCCcEEEEecCC
Q 036619          290 KKNFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKILVTTRN  329 (352)
Q Consensus       290 kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTTR~  329 (352)
                      +.-+|++|.+..-+. .|......+.+.  |..|++|.++
T Consensus        76 ~~dvviIDE~Q~~~~-~~~~~l~~l~~~--~~~Vi~~Gl~  112 (184)
T 2orw_A           76 DTRGVFIDEVQFFNP-SLFEVVKDLLDR--GIDVFCAGLD  112 (184)
T ss_dssp             TEEEEEECCGGGSCT-THHHHHHHHHHT--TCEEEEEEES
T ss_pred             CCCEEEEECcccCCH-HHHHHHHHHHHC--CCCEEEEeec
Confidence            566999999977643 355544434333  6779988774

>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=96.46  E-value=0.015  Score=53.90  Aligned_cols=91  Identities=16%  Similarity=0.243  Sum_probs=53.9

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhhhhhhc----cCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCC---------CcccH
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNNDEVKR----NFEKVIWVCVSDTFDQIRIAKAIIEGLGKSAS---------GLNEF  276 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~----~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~---------~~~~~  276 (352)
                      .-.++.|+|++|+|||||+..++-......    .-..++|++....++...+. .+++.++....         ...+.
T Consensus       177 ~Gei~~I~G~sGsGKTTLl~~la~~~~~p~~~Gg~~~~viyid~E~~~~~~rl~-~~a~~~gl~~~~vleni~~~~~~~~  255 (400)
T 3lda_A          177 TGSITELFGEFRTGKSQLCHTLAVTCQIPLDIGGGEGKCLYIDTEGTFRPVRLV-SIAQRFGLDPDDALNNVAYARAYNA  255 (400)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSSCCCHHHHH-HHHHHTTCCHHHHHHTEEEEECCSH
T ss_pred             CCcEEEEEcCCCCChHHHHHHHHHHhccCcccCCCCCcEEEEeCCCccCHHHHH-HHHHHcCCChHhHhhcEEEeccCCh
Confidence            346899999999999999987653211111    23468889887776665543 35555553211         01112


Q ss_pred             ---HHHHHHHHHhc-CCceEEEEecCCCC
Q 036619          277 ---QSLMSRIQSSI-KGKKNFLVLDDVWD  301 (352)
Q Consensus       277 ---~~~~~~l~~~l-~~kr~LlVlDdvw~  301 (352)
                         ..+...+...+ ..+.-+||+|.+-.
T Consensus       256 ~~~~~~l~~~~~~l~~~~~~llVIDs~t~  284 (400)
T 3lda_A          256 DHQLRLLDAAAQMMSESRFSLIVVDSVMA  284 (400)
T ss_dssp             HHHHHHHHHHHHHHHHSCEEEEEEETGGG
T ss_pred             HHHHHHHHHHHHHHHhcCCceEEecchhh
Confidence               22333333333 34677999999754

>1in4_A RUVB, holliday junction DNA helicase RUVB; AAA+-class ATPase, winged-helix domain, ATP hydrolysis, walker A, walker B, sensor 1, sensor 2; HET: ADP; 1.60A {Thermotoga maritima} SCOP: a.4.5.11 c.37.1.20 PDB: 1in5_A* 1in6_A* 1in8_A* 1in7_A* 1j7k_A*

Probab=96.44  E-value=0.0016  Score=59.01  Aligned_cols=50  Identities=30%  Similarity=0.368  Sum_probs=34.4

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..++|.+..++.+...+..... ....+..+.|+|++|+||||||+.+.+.
T Consensus        25 ~~~~g~~~~~~~l~~~i~~~~~-~~~~~~~~ll~Gp~G~GKTTLa~~ia~~   74 (334)
T 1in4_A           25 DEFIGQENVKKKLSLALEAAKM-RGEVLDHVLLAGPPGLGKTTLAHIIASE   74 (334)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHH-HTCCCCCEEEESSTTSSHHHHHHHHHHH
T ss_pred             HHccCcHHHHHHHHHHHHHHHh-cCCCCCeEEEECCCCCcHHHHHHHHHHH
Confidence            3577877666666555532210 0123467899999999999999999984

>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups, carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}

Probab=96.43  E-value=0.01  Score=53.11  Aligned_cols=45  Identities=13%  Similarity=0.155  Sum_probs=32.0

Q ss_pred             ccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHh
Q 036619          187 CGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYN  233 (352)
Q Consensus       187 ~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~  233 (352)
                      +|....+..+...++....  ...+.+++|.|+.|+|||||++.+..
T Consensus        70 ~~~~~~l~~~~~~~l~~~~--~~~p~iigI~GpsGSGKSTl~~~L~~  114 (321)
T 3tqc_A           70 VTARQTLQQATYQFLGKPE--PKVPYIIGIAGSVAVGKSTTSRVLKA  114 (321)
T ss_dssp             HHHHHHHHHHHHHHHTCCC--CCCCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             hcchHHHHHHHHHHhccCC--CCCCEEEEEECCCCCCHHHHHHHHHH
Confidence            4444455555555554431  25678999999999999999998875

>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=96.39  E-value=0.0022  Score=52.70  Aligned_cols=24  Identities=33%  Similarity=0.389  Sum_probs=21.6

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..++.|+|++|+|||||++.+...
T Consensus         9 g~~i~l~G~~GsGKSTl~~~La~~   32 (191)
T 1zp6_A            9 GNILLLSGHPGSGKSTIAEALANL   32 (191)
T ss_dssp             TEEEEEEECTTSCHHHHHHHHHTC
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhc
Confidence            468999999999999999999863

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=96.35  E-value=0.008  Score=52.69  Aligned_cols=21  Identities=43%  Similarity=0.534  Sum_probs=19.7

Q ss_pred             EEEEecCCCcHHHHHHHHHhh
Q 036619          214 ISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       214 i~I~G~~GiGKTtLa~~v~~~  234 (352)
                      +.|+|++|+||||||+.+...
T Consensus        47 vlL~Gp~GtGKTtLakala~~   67 (274)
T 2x8a_A           47 VLLAGPPGCGKTLLAKAVANE   67 (274)
T ss_dssp             EEEESSTTSCHHHHHHHHHHH
T ss_pred             EEEECCCCCcHHHHHHHHHHH
Confidence            889999999999999999974

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=96.28  E-value=0.0025  Score=51.62  Aligned_cols=22  Identities=32%  Similarity=0.418  Sum_probs=20.4

Q ss_pred             EEEEEEecCCCcHHHHHHHHHh
Q 036619          212 QVISLVGLGGIGKTTLAQLAYN  233 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~  233 (352)
                      .+|.|.|++|+||||+|+.+..
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            5789999999999999999986

>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=96.27  E-value=0.0022  Score=51.56  Aligned_cols=23  Identities=26%  Similarity=0.146  Sum_probs=20.5

Q ss_pred             EEEEEEecCCCcHHHHHHHHHhh
Q 036619          212 QVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .+|.|.|+.|+||||+++.+...
T Consensus         2 ~~i~l~G~~GsGKsT~~~~L~~~   24 (173)
T 3kb2_A            2 TLIILEGPDCCFKSTVAAKLSKE   24 (173)
T ss_dssp             CEEEEECSSSSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            47899999999999999998864

>2r6a_A DNAB helicase, replicative helicase; replication, DNAB; 2.90A {Geobacillus stearothermophilus} PDB: 2r6c_A 2r6d_A 2r6e_A 2vyf_A 2vye_A

Probab=96.25  E-value=0.56  Score=43.98  Aligned_cols=89  Identities=12%  Similarity=0.084  Sum_probs=53.2

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHH-hC----------------------
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEG-LG----------------------  267 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~-l~----------------------  267 (352)
                      -.++.|.|.+|+|||||+..+..+.... .-..++|++...  +...+...++.. .+                      
T Consensus       203 G~liiI~G~pG~GKTtl~l~ia~~~~~~-~g~~Vl~~s~E~--s~~~l~~r~~~~~~~~~~~~l~~g~l~~~~~~~~~~a  279 (454)
T 2r6a_A          203 SDLIIVAARPSVGKTAFALNIAQNVATK-TNENVAIFSLEM--SAQQLVMRMLCAEGNINAQNLRTGKLTPEDWGKLTMA  279 (454)
T ss_dssp             TCEEEEECCTTSCHHHHHHHHHHHHHHH-SSCCEEEEESSS--CHHHHHHHHHHHHHTCCHHHHHTSCCCHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHHHh-CCCcEEEEECCC--CHHHHHHHHHHHHcCCCHHHHhcCCCCHHHHHHHHHH
Confidence            4688899999999999998888753322 223577776543  334444443321 11                      


Q ss_pred             -----CC-----CCCcccHHHHHHHHHHhcC-CceEEEEecCCCCC
Q 036619          268 -----KS-----ASGLNEFQSLMSRIQSSIK-GKKNFLVLDDVWDG  302 (352)
Q Consensus       268 -----~~-----~~~~~~~~~~~~~l~~~l~-~kr~LlVlDdvw~~  302 (352)
                           ..     .....+..++...++.... .+.-+||+|.+...
T Consensus       280 ~~~l~~~~l~i~d~~~~s~~~i~~~~~~l~~~~~~~livID~l~~~  325 (454)
T 2r6a_A          280 MGSLSNAGIYIDDTPSIRVSDIRAKCRRLKQESGLGMIVIDYLQLI  325 (454)
T ss_dssp             HHHHHSSCEEEECCTTCCHHHHHHHHHHHHTTTCCCEEEEECGGGS
T ss_pred             HHHHhcCCEEEECCCCCCHHHHHHHHHHHHHHcCCCEEEEccHHHh
Confidence                 00     1112245666666666553 34569999988553

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=96.21  E-value=0.0025  Score=52.94  Aligned_cols=24  Identities=38%  Similarity=0.412  Sum_probs=21.4

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..+|.|+|++|+||||+++.+...
T Consensus        25 ~~~i~l~G~~GsGKsTl~~~La~~   48 (199)
T 3vaa_A           25 MVRIFLTGYMGAGKTTLGKAFARK   48 (199)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHH
Confidence            468999999999999999999863

>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=96.20  E-value=0.0025  Score=51.70  Aligned_cols=23  Identities=22%  Similarity=0.265  Sum_probs=20.6

Q ss_pred             EEEEEEecCCCcHHHHHHHHHhh
Q 036619          212 QVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .+|.|.|++|+||||+|+.+...
T Consensus         4 ~~i~l~G~~GsGKST~a~~La~~   26 (178)
T 1qhx_A            4 RMIILNGGSSAGKSGIVRCLQSV   26 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHh
Confidence            57889999999999999999863

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=96.20  E-value=0.0028  Score=51.79  Aligned_cols=24  Identities=17%  Similarity=0.426  Sum_probs=21.4

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      -.+++|+|+.|+|||||++.+...
T Consensus         5 g~~i~i~GpsGsGKSTL~~~L~~~   28 (180)
T 1kgd_A            5 RKTLVLLGAHGVGRRHIKNTLITK   28 (180)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhh
Confidence            468999999999999999999863

>4b4t_I 26S protease regulatory subunit 4 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=96.20  E-value=0.0039  Score=57.86  Aligned_cols=51  Identities=22%  Similarity=0.197  Sum_probs=36.0

Q ss_pred             CccccccchHHHHHHHHcC----ccc---cCCCCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          184 GEVCGRVDEKSELFSKLLC----ESS---EQQNGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~----~~~---~~~~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .++.|-++.+++|.+.+.-    ++-   -+-..++-|.++|++|.|||.||+.+.+.
T Consensus       182 ~DIgGld~~k~~L~e~v~~Pl~~pe~f~~~Gi~~prGvLLyGPPGTGKTlLAkAiA~e  239 (437)
T 4b4t_I          182 SDIGGLESQIQEIKESVELPLTHPELYEEMGIKPPKGVILYGAPGTGKTLLAKAVANQ  239 (437)
T ss_dssp             GGTCSCHHHHHHHHHHHHHHHHCCHHHHHHTCCCCSEEEEESSTTTTHHHHHHHHHHH
T ss_pred             eecCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCCCceECCCCchHHHHHHHHHHH
Confidence            4677888887777665421    110   01234567889999999999999999984

>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=96.16  E-value=0.015  Score=54.64  Aligned_cols=98  Identities=15%  Similarity=0.116  Sum_probs=54.1

Q ss_pred             HHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCC-HHHHHHHHHHHhC-------
Q 036619          196 LFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFD-QIRIAKAIIEGLG-------  267 (352)
Q Consensus       196 l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~-~~~~~~~i~~~l~-------  267 (352)
                      .++.|..-..     -..++|+|..|+|||||++.+..+.... +-+.++++.+.+..+ ...++.++...-.       
T Consensus       141 ~ID~L~pi~k-----Gq~~~i~G~sGvGKTtL~~~l~~~~~~~-~~~i~V~~~iGerttev~el~~~l~~~~~l~~tvvv  214 (473)
T 1sky_E          141 VVDLLAPYIK-----GGKIGLFGGAGVGKTVLIQELIHNIAQE-HGGISVFAGVGERTREGNDLYHEMKDSGVISKTAMV  214 (473)
T ss_dssp             HHHHHSCEET-----TCEEEEECCSSSCHHHHHHHHHHHHHHH-TCCCEEEEEESSCHHHHHHHHHHHHHTSGGGGEEEE
T ss_pred             HHHHHhhhcc-----CCEEEEECCCCCCccHHHHHHHhhhhhc-cCcEEEEeeeccCchHHHHHHHHhhhcCCcceeEEE
Confidence            4566644331     2357899999999999999988753322 234556666666543 3444444443200       


Q ss_pred             -CCCCCcccHHH----HHHHHHHhc---CCceEEEEecCC
Q 036619          268 -KSASGLNEFQS----LMSRIQSSI---KGKKNFLVLDDV  299 (352)
Q Consensus       268 -~~~~~~~~~~~----~~~~l~~~l---~~kr~LlVlDdv  299 (352)
                       ...........    ..-.+.+++   ++++.||++||+
T Consensus       215 ~~~~~d~pg~r~~~~~~~ltiAEyFrd~~G~~VLl~~D~i  254 (473)
T 1sky_E          215 FGQMNEPPGARMRVALTGLTMAEYFRDEQGQDGLLFIDNI  254 (473)
T ss_dssp             EECTTSCHHHHHHHHHHHHHHHHHHHHHSCCEEEEEEECT
T ss_pred             EEcCCCCHHHHHHHHHHHHHHHHHHHHhcCCcEEEEeccH
Confidence             00011000111    111233333   589999999999

>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=96.15  E-value=0.0035  Score=52.05  Aligned_cols=25  Identities=40%  Similarity=0.352  Sum_probs=22.4

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ...+|.|+|+.|+|||||++.+...
T Consensus        24 ~g~~i~l~G~sGsGKSTl~~~La~~   48 (200)
T 3uie_A           24 KGCVIWVTGLSGSGKSTLACALNQM   48 (200)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHH
Confidence            3579999999999999999999874

>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=96.13  E-value=0.034  Score=51.91  Aligned_cols=25  Identities=28%  Similarity=0.356  Sum_probs=21.9

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .+.+|.++|.+|+||||++..+...
T Consensus        99 ~p~vIlivG~~G~GKTTt~~kLA~~  123 (443)
T 3dm5_A           99 KPTILLMVGIQGSGKTTTVAKLARY  123 (443)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCeEEEEECcCCCCHHHHHHHHHHH
Confidence            4789999999999999999877753

>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=96.13  E-value=0.0062  Score=57.61  Aligned_cols=22  Identities=27%  Similarity=0.492  Sum_probs=20.0

Q ss_pred             EEEEEecCCCcHHHHHHHHHhh
Q 036619          213 VISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .+.|.|.+|+||||++..+...
T Consensus        47 ~~li~G~aGTGKT~ll~~~~~~   68 (459)
T 3upu_A           47 HVTINGPAGTGATTLTKFIIEA   68 (459)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHHHH
Confidence            7889999999999999888874

>2xxa_A Signal recognition particle protein; protein transport, RNA/RNA binding protein, hydrolase, gtpas; HET: GCP; 3.94A {Escherichia coli} PDB: 2j28_9

Probab=96.11  E-value=0.06  Score=50.30  Aligned_cols=26  Identities=31%  Similarity=0.277  Sum_probs=22.3

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..+++|.++|.+|+||||++..+...
T Consensus        98 ~~~~vI~ivG~~GvGKTT~a~~LA~~  123 (433)
T 2xxa_A           98 QPPAVVLMAGLQGAGKTTSVGKLGKF  123 (433)
T ss_dssp             SSSEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            35789999999999999999877754

>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=96.10  E-value=0.0042  Score=56.75  Aligned_cols=50  Identities=28%  Similarity=0.254  Sum_probs=34.9

Q ss_pred             ccccccchHHHHHHHHcCc-------c--ccCCCCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          185 EVCGRVDEKSELFSKLLCE-------S--SEQQNGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       185 ~~~gr~~~~~~l~~~L~~~-------~--~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .++|.+..++.+...+...       .  .........+.++|++|+|||++|+.+.+.
T Consensus        16 ~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~~~~vll~GppGtGKT~la~~ia~~   74 (363)
T 3hws_A           16 YVIGQEQAKKVLAVAVYNHYKRLRNGDTSNGVELGKSNILLIGPTGSGKTLLAETLARL   74 (363)
T ss_dssp             HCCSCHHHHHHHHHHHHHHHHHHHTTSCSSSCCCCCCCEEEECCTTSSHHHHHHHHHHH
T ss_pred             hccCHHHHHHHHHHHHHHHHhhhccccccccccCCCCeEEEECCCCCCHHHHHHHHHHH
Confidence            3688888888877766210       0  000123456789999999999999999974

>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=96.10  E-value=0.0039  Score=51.13  Aligned_cols=25  Identities=32%  Similarity=0.323  Sum_probs=21.9

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ...+|.|.|++|+||||+++.+...
T Consensus         4 ~~~~I~l~G~~GsGKST~~~~L~~~   28 (193)
T 2rhm_A            4 TPALIIVTGHPATGKTTLSQALATG   28 (193)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHH
Confidence            3578999999999999999999863

>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=96.10  E-value=0.0039  Score=56.86  Aligned_cols=113  Identities=12%  Similarity=0.181  Sum_probs=61.4

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCcccHHHHHHHHHHhcCCc
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSASGLNEFQSLMSRIQSSIKGK  290 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~k  290 (352)
                      -.+++|+|+.|+|||||.+.+....  .......+ +++.++....  .......+..... ..+.......|...|...
T Consensus       123 ~g~i~I~GptGSGKTTlL~~l~g~~--~~~~~~~i-~t~ed~~e~~--~~~~~~~v~q~~~-~~~~~~~~~~La~aL~~~  196 (356)
T 3jvv_A          123 RGLVLVTGPTGSGKSTTLAAMLDYL--NNTKYHHI-LTIEDPIEFV--HESKKCLVNQREV-HRDTLGFSEALRSALRED  196 (356)
T ss_dssp             SEEEEEECSTTSCHHHHHHHHHHHH--HHHCCCEE-EEEESSCCSC--CCCSSSEEEEEEB-TTTBSCHHHHHHHHTTSC
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhcc--cCCCCcEE-EEccCcHHhh--hhccccceeeeee-ccccCCHHHHHHHHhhhC
Confidence            3589999999999999999887632  21111122 2222221100  0000000000000 001123345788888888


Q ss_pred             eEEEEecCCCCCCccChhHHHHhhccCCCCcEEEEecCChHHHH
Q 036619          291 KNFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKILVTTRNESVAR  334 (352)
Q Consensus       291 r~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTTR~~~va~  334 (352)
                      .=+|++|.+-+  .+.++.+.....   .|.-||+||...+.+.
T Consensus       197 PdvillDEp~d--~e~~~~~~~~~~---~G~~vl~t~H~~~~~~  235 (356)
T 3jvv_A          197 PDIILVGEMRD--LETIRLALTAAE---TGHLVFGTLHTTSAAK  235 (356)
T ss_dssp             CSEEEESCCCS--HHHHHHHHHHHH---TTCEEEEEESCSSHHH
T ss_pred             cCEEecCCCCC--HHHHHHHHHHHh---cCCEEEEEEccChHHH
Confidence            88999999953  244555444432   3666999998876554

>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=96.10  E-value=0.024  Score=50.43  Aligned_cols=26  Identities=35%  Similarity=0.331  Sum_probs=22.8

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ....++.|+|++|+||||++..+...
T Consensus       102 ~~~~vi~ivG~~GsGKTTl~~~LA~~  127 (306)
T 1vma_A          102 EPPFVIMVVGVNGTGKTTSCGKLAKM  127 (306)
T ss_dssp             SSCEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCCeEEEEEcCCCChHHHHHHHHHHH
Confidence            34689999999999999999888864

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=96.09  E-value=0.0027  Score=51.25  Aligned_cols=23  Identities=35%  Similarity=0.429  Sum_probs=20.7

Q ss_pred             EEEEEEecCCCcHHHHHHHHHhh
Q 036619          212 QVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .+|.|+|+.|+|||||++.+...
T Consensus         5 ~~i~l~G~~GsGKSTl~~~La~~   27 (173)
T 1kag_A            5 RNIFLVGPMGAGKSTIGRQLAQQ   27 (173)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH
Confidence            47899999999999999999863

>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=96.07  E-value=0.008  Score=54.97  Aligned_cols=97  Identities=10%  Similarity=0.055  Sum_probs=52.2

Q ss_pred             HHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhh-ccCCeEEEEEeCCCCCHHHHHHHHHHHhCCC---
Q 036619          194 SELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVK-RNFEKVIWVCVSDTFDQIRIAKAIIEGLGKS---  269 (352)
Q Consensus       194 ~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~-~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~---  269 (352)
                      -+.++.+..-.     .-..++|+|.+|+|||||++.+.+..... ..+. ++++-+.+......   ++.+.+...   
T Consensus       162 iraID~~~pi~-----rGQr~~IvG~sG~GKTtLl~~Iar~i~~~~~~v~-~I~~lIGER~~Ev~---~~~~~~~~~vV~  232 (422)
T 3ice_A          162 ARVLDLASPIG-----RGQRGLIVAPPKAGKTMLLQNIAQSIAYNHPDCV-LMVLLIDERPEEVT---EMQRLVKGEVVA  232 (422)
T ss_dssp             HHHHHHHSCCB-----TTCEEEEECCSSSSHHHHHHHHHHHHHHHCTTSE-EEEEEESSCHHHHH---HHHTTCSSEEEE
T ss_pred             ceeeeeeeeec-----CCcEEEEecCCCCChhHHHHHHHHHHhhcCCCee-EEEEEecCChHHHH---HHHHHhCeEEEE
Confidence            35666666543     23578999999999999999887642211 1233 33466665443221   233333211   


Q ss_pred             -CCCcccHH-----HHHHHHHHhc--CCceEEEEecCC
Q 036619          270 -ASGLNEFQ-----SLMSRIQSSI--KGKKNFLVLDDV  299 (352)
Q Consensus       270 -~~~~~~~~-----~~~~~l~~~l--~~kr~LlVlDdv  299 (352)
                       ..+.....     ...-.+.+++  +++..||++||+
T Consensus       233 atadep~~~r~~~a~~alt~AEyfrd~G~dVLil~Dsl  270 (422)
T 3ice_A          233 STFDEPASRHVQVAEMVIEKAKRLVEHKKDVIILLDSI  270 (422)
T ss_dssp             ECTTSCHHHHHHHHHHHHHHHHHHHHTSCEEEEEEECH
T ss_pred             eCCCCCHHHHHHHHHHHHHHHHHHHhcCCCEEEEEeCc
Confidence             01111011     1111122333  689999999998

>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=96.06  E-value=0.0044  Score=50.08  Aligned_cols=25  Identities=24%  Similarity=0.445  Sum_probs=21.9

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ...++.|+|+.|+|||||++.+...
T Consensus         7 ~g~~i~l~G~~GsGKSTl~~~l~~~   31 (175)
T 1knq_A            7 DHHIYVLMGVSGSGKSAVASEVAHQ   31 (175)
T ss_dssp             TSEEEEEECSTTSCHHHHHHHHHHH
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHh
Confidence            3578999999999999999998863

>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=96.05  E-value=0.022  Score=51.82  Aligned_cols=57  Identities=19%  Similarity=0.228  Sum_probs=35.2

Q ss_pred             HHHHHHhcCCceEEEEecCCCCC-CccChhHHHHhhccC--CCCcEEEEecCChHHHHHh
Q 036619          280 MSRIQSSIKGKKNFLVLDDVWDG-DYNKWQPFFRCLKNG--LHGSKILVTTRNESVARMM  336 (352)
Q Consensus       280 ~~~l~~~l~~kr~LlVlDdvw~~-~~~~~~~l~~~l~~~--~~gs~IivTTR~~~va~~~  336 (352)
                      .-.|...|..+.=+|++|.--+. |...-..+...+..-  ..|..||++|.+-+++..+
T Consensus       171 RVaIArAL~~~P~lLLlDEPTs~LD~~~~~~i~~lL~~l~~~~g~Tii~vTHdl~~~~~~  230 (366)
T 3tui_C          171 RVAIARALASNPKVLLCDQATSALDPATTRSILELLKDINRRLGLTILLITHEMDVVKRI  230 (366)
T ss_dssp             HHHHHHHTTTCCSEEEEESTTTTSCHHHHHHHHHHHHHHHHHSCCEEEEEESCHHHHHHH
T ss_pred             HHHHHHHHhcCCCEEEEECCCccCCHHHHHHHHHHHHHHHHhCCCEEEEEecCHHHHHHh
Confidence            34455667777888999987443 222233344444421  2377799999998777654

>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=96.05  E-value=0.079  Score=49.40  Aligned_cols=25  Identities=40%  Similarity=0.280  Sum_probs=22.1

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ...++.++|.+|+||||++..+...
T Consensus        96 ~~~vI~lvG~~GsGKTTt~~kLA~~  120 (433)
T 3kl4_A           96 LPFIIMLVGVQGSGKTTTAGKLAYF  120 (433)
T ss_dssp             SSEEEEECCCTTSCHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHH
Confidence            4789999999999999999888764

>2r44_A Uncharacterized protein; putative ATPase, structural genomics, joint center for struc genomics, JCSG; HET: MSE PG4; 2.00A {Cytophaga hutchinsonii atcc 33406}

Probab=96.03  E-value=0.0036  Score=56.37  Aligned_cols=43  Identities=21%  Similarity=0.170  Sum_probs=35.1

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..++|++..+..+...+...        .-+.++|++|+|||+||+.+.+.
T Consensus        27 ~~i~g~~~~~~~l~~~l~~~--------~~vll~G~pGtGKT~la~~la~~   69 (331)
T 2r44_A           27 KVVVGQKYMINRLLIGICTG--------GHILLEGVPGLAKTLSVNTLAKT   69 (331)
T ss_dssp             TTCCSCHHHHHHHHHHHHHT--------CCEEEESCCCHHHHHHHHHHHHH
T ss_pred             cceeCcHHHHHHHHHHHHcC--------CeEEEECCCCCcHHHHHHHHHHH
Confidence            45889999888888877642        24779999999999999999873

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=96.03  E-value=0.0069  Score=53.47  Aligned_cols=40  Identities=20%  Similarity=0.296  Sum_probs=27.8

Q ss_pred             HHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          194 SELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       194 ~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ++++..++.... ......+|.|.|++|+||||+|+.+...
T Consensus        17 ~~~~~~~l~~~~-~~~~~~livl~G~sGsGKSTla~~L~~~   56 (287)
T 1gvn_B           17 NDNLEELIQGKK-AVESPTAFLLGGQPGSGKTSLRSAIFEE   56 (287)
T ss_dssp             HHHHHHHHTTCC-CCSSCEEEEEECCTTSCTHHHHHHHHHH
T ss_pred             HHHHHHHhcccc-CCCCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            344444443321 2245688999999999999999999863

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=96.03  E-value=0.0042  Score=51.90  Aligned_cols=25  Identities=40%  Similarity=0.330  Sum_probs=22.2

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ...+++|+|+.|+|||||++.+..-
T Consensus         5 ~~~~i~i~G~~GsGKSTl~~~l~~~   29 (211)
T 3asz_A            5 KPFVIGIAGGTASGKTTLAQALART   29 (211)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHHH
Confidence            4578999999999999999999874

>3bh0_A DNAB-like replicative helicase; ATPase, replication; 2.35A {Bacillus phage SPP1}

Probab=96.02  E-value=0.069  Score=47.64  Aligned_cols=51  Identities=16%  Similarity=0.137  Sum_probs=34.6

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHH
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIE  264 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~  264 (352)
                      .-.++.|.|.+|+||||||..+..+.... . ..++|++..  .+...+...++.
T Consensus        67 ~G~l~li~G~pG~GKTtl~l~ia~~~a~~-g-~~vl~~slE--~s~~~l~~R~~~  117 (315)
T 3bh0_A           67 RRNFVLIAARPSMGKTAFALKQAKNMSDN-D-DVVNLHSLE--MGKKENIKRLIV  117 (315)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHHHHHTT-T-CEEEEEESS--SCHHHHHHHHHH
T ss_pred             CCcEEEEEeCCCCCHHHHHHHHHHHHHHc-C-CeEEEEECC--CCHHHHHHHHHH
Confidence            34688899999999999998877653222 2 567777765  344555555443

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=96.02  E-value=0.0042  Score=50.88  Aligned_cols=23  Identities=22%  Similarity=0.375  Sum_probs=20.8

Q ss_pred             EEEEEEecCCCcHHHHHHHHHhh
Q 036619          212 QVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .+|.|.|++|+||||+++.+...
T Consensus         2 ~~I~i~G~~GsGKsT~~~~L~~~   24 (194)
T 1nks_A            2 KIGIVTGIPGVGKSTVLAKVKEI   24 (194)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            47899999999999999999874

>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=96.02  E-value=0.0027  Score=55.29  Aligned_cols=51  Identities=24%  Similarity=0.233  Sum_probs=34.6

Q ss_pred             CccccccchHHHHHHHHcCcccc------CCCCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          184 GEVCGRVDEKSELFSKLLCESSE------QQNGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~------~~~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..++|.+..++.+.+.+..-...      +....+-+.|+|++|+|||+||+.+++.
T Consensus        11 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~   67 (268)
T 2r62_A           11 KDMAGNEEAKEEVVEIVDFLKYPERYANLGAKIPKGVLLVGPPGTGKTLLAKAVAGE   67 (268)
T ss_dssp             TTSSSCTTTHHHHHHHHHHHHCHHHHHHHSCCCCSCCCCBCSSCSSHHHHHHHHHHH
T ss_pred             HHhCCcHHHHHHHHHHHHHHHChHHHHHCCCCCCceEEEECCCCCcHHHHHHHHHHH
Confidence            46899988888877655310000      0011233679999999999999999984

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=96.00  E-value=0.0036  Score=51.98  Aligned_cols=24  Identities=29%  Similarity=0.488  Sum_probs=21.6

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..+++|+|+.|+|||||++.+...
T Consensus        29 g~~i~l~G~~GsGKSTl~~~L~~~   52 (200)
T 4eun_A           29 TRHVVVMGVSGSGKTTIAHGVADE   52 (200)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHh
Confidence            568999999999999999999864

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=96.00  E-value=0.0038  Score=51.80  Aligned_cols=24  Identities=21%  Similarity=0.322  Sum_probs=21.2

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..+++|+|+.|+|||||++.+...
T Consensus         7 g~ii~l~Gp~GsGKSTl~~~L~~~   30 (205)
T 3tr0_A            7 ANLFIISAPSGAGKTSLVRALVKA   30 (205)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CcEEEEECcCCCCHHHHHHHHHhh
Confidence            358999999999999999999863

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=95.99  E-value=0.0057  Score=52.87  Aligned_cols=41  Identities=22%  Similarity=0.236  Sum_probs=29.0

Q ss_pred             HHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          193 KSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       193 ~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .+.++..++.... ......+|.|+|++|+||||+|+.+...
T Consensus        15 ~~~~~~~~~~~~~-~~~~~~~i~l~G~~GsGKSTla~~L~~~   55 (253)
T 2p5t_B           15 LARNLRSLTRGKK-SSKQPIAILLGGQSGAGKTTIHRIKQKE   55 (253)
T ss_dssp             HHHHHHHHHTTCC-CCSSCEEEEEESCGGGTTHHHHHHHHHH
T ss_pred             HHHHHHHHHccCC-cccCCeEEEEECCCCCCHHHHHHHHHHh
Confidence            3444444554332 2345689999999999999999999863

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=95.98  E-value=0.0034  Score=50.85  Aligned_cols=23  Identities=35%  Similarity=0.690  Sum_probs=20.0

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYN  233 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~  233 (352)
                      ..+++|+|+.|+|||||++.++.
T Consensus         9 gei~~l~G~nGsGKSTl~~~~~~   31 (171)
T 4gp7_A            9 LSLVVLIGSSGSGKSTFAKKHFK   31 (171)
T ss_dssp             SEEEEEECCTTSCHHHHHHHHSC
T ss_pred             CEEEEEECCCCCCHHHHHHHHcc
Confidence            47899999999999999996543

>3tau_A Guanylate kinase, GMP kinase; structural genomics, center for structural genomics of infec diseases, csgid, putative guanylate kinase; HET: MSE; 2.05A {Listeria monocytogenes}

Probab=95.98  E-value=0.004  Score=52.15  Aligned_cols=25  Identities=28%  Similarity=0.485  Sum_probs=22.0

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ...+++|+|+.|+|||||++.+...
T Consensus         7 ~g~~i~l~GpsGsGKsTl~~~L~~~   31 (208)
T 3tau_A            7 RGLLIVLSGPSGVGKGTVREAVFKD   31 (208)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHS
T ss_pred             CCcEEEEECcCCCCHHHHHHHHHhh
Confidence            3568999999999999999999864

>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=95.97  E-value=0.005  Score=50.96  Aligned_cols=25  Identities=32%  Similarity=0.389  Sum_probs=22.6

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHh
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYN  233 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~  233 (352)
                      .+..+|+|+|+.|+||||+++.+..
T Consensus         6 ~~~~~I~i~G~~GsGKST~~~~La~   30 (203)
T 1uf9_A            6 KHPIIIGITGNIGSGKSTVAALLRS   30 (203)
T ss_dssp             CCCEEEEEEECTTSCHHHHHHHHHH
T ss_pred             cCceEEEEECCCCCCHHHHHHHHHH
Confidence            4568999999999999999999886

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=95.97  E-value=0.0037  Score=51.01  Aligned_cols=24  Identities=38%  Similarity=0.459  Sum_probs=21.0

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .+.|.|+|++|+||||+|+.+...
T Consensus         5 ~~~i~l~G~~GsGKst~a~~La~~   28 (185)
T 3trf_A            5 LTNIYLIGLMGAGKTSVGSQLAKL   28 (185)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHH
Confidence            457889999999999999999763

>2ewv_A Twitching motility protein PILT; pilus retraction motor, ATPase, hexameric PILT, protein TRAN; HET: ADP; 2.80A {Aquifex aeolicus} PDB: 2eww_A* 2gsz_A*

Probab=95.96  E-value=0.019  Score=52.72  Aligned_cols=112  Identities=12%  Similarity=0.156  Sum_probs=56.7

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCcccHHHHHHHHHHhcCCc
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSASGLNEFQSLMSRIQSSIKGK  290 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~k  290 (352)
                      -.+++|+|+.|+|||||.+.+....... .-..+.++.-.-.+....   .+ ..+.....+. +...+...++..|...
T Consensus       136 g~~i~ivG~~GsGKTTll~~l~~~~~~~-~~g~I~~~e~~~e~~~~~---~~-~~v~Q~~~g~-~~~~~~~~l~~~L~~~  209 (372)
T 2ewv_A          136 MGLILVTGPTGSGKSTTIASMIDYINQT-KSYHIITIEDPIEYVFKH---KK-SIVNQREVGE-DTKSFADALRAALRED  209 (372)
T ss_dssp             SEEEEEECSSSSSHHHHHHHHHHHHHHH-SCCEEEEEESSCCSCCCC---SS-SEEEEEEBTT-TBSCSHHHHHHHTTSC
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhcCcC-CCcEEEEecccHhhhhcc---Cc-eEEEeeecCC-CHHHHHHHHHHHhhhC
Confidence            4689999999999999999988642211 012233333111100000   00 0000000000 0112245667777667


Q ss_pred             eEEEEecCCCCCCccChhHHHHhhccCCCCcEEEEecCChHHH
Q 036619          291 KNFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKILVTTRNESVA  333 (352)
Q Consensus       291 r~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTTR~~~va  333 (352)
                      .=+|++|.+-+.  +....   ++.....|.-|+.|+...++.
T Consensus       210 pd~illdE~~d~--e~~~~---~l~~~~~g~~vi~t~H~~~~~  247 (372)
T 2ewv_A          210 PDVIFVGEMRDL--ETVET---ALRAAETGHLVFGTLHTNTAI  247 (372)
T ss_dssp             CSEEEESCCCSH--HHHHH---HHHHHTTTCEEEECCCCCSHH
T ss_pred             cCEEEECCCCCH--HHHHH---HHHHHhcCCEEEEEECcchHH
Confidence            778999998532  32322   222223466788888876544

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=95.94  E-value=0.0033  Score=52.21  Aligned_cols=24  Identities=21%  Similarity=0.403  Sum_probs=21.4

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..+|.|.|+.|+||||||+.+...
T Consensus        18 ~~~I~l~G~~GsGKSTla~~L~~~   41 (202)
T 3t61_A           18 PGSIVVMGVSGSGKSSVGEAIAEA   41 (202)
T ss_dssp             SSCEEEECSTTSCHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHH
Confidence            468999999999999999999864

>2bdt_A BH3686; alpha-beta protein, structural genomics, PSI, protein struct initiative, northeast structural genomics consortium, NESG, function; 2.40A {Bacillus halodurans} SCOP: c.37.1.25

Probab=95.93  E-value=0.0046  Score=50.71  Aligned_cols=22  Identities=23%  Similarity=0.406  Sum_probs=20.1

Q ss_pred             EEEEEEecCCCcHHHHHHHHHh
Q 036619          212 QVISLVGLGGIGKTTLAQLAYN  233 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~  233 (352)
                      .++.|+|+.|+|||||++.+..
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

>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=95.93  E-value=0.039  Score=51.37  Aligned_cols=24  Identities=42%  Similarity=0.325  Sum_probs=21.2

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..++.++|.+|+||||++..+...
T Consensus        98 ~~vi~i~G~~GsGKTT~~~~LA~~  121 (425)
T 2ffh_A           98 RNLWFLVGLQGSGKTTTAAKLALY  121 (425)
T ss_dssp             SEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHH
Confidence            578999999999999999888764

>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=95.91  E-value=0.0055  Score=51.06  Aligned_cols=26  Identities=31%  Similarity=0.385  Sum_probs=22.6

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ....+|+|+|+.|+|||||++.+...
T Consensus        19 ~~~~~i~i~G~~GsGKSTl~~~L~~~   44 (207)
T 2qt1_A           19 SKTFIIGISGVTNSGKTTLAKNLQKH   44 (207)
T ss_dssp             CCCEEEEEEESTTSSHHHHHHHHHTT
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHh
Confidence            34679999999999999999998863

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=95.90  E-value=0.0045  Score=51.40  Aligned_cols=24  Identities=29%  Similarity=0.491  Sum_probs=21.3

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..+++|+|+.|+|||||++.+...
T Consensus         6 g~~i~l~G~~GsGKSTl~~~L~~~   29 (207)
T 2j41_A            6 GLLIVLSGPSGVGKGTVRKRIFED   29 (207)
T ss_dssp             CCEEEEECSTTSCHHHHHHHHHHC
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHh
Confidence            468999999999999999998764

>1ye8_A Protein THEP1, hypothetical UPF0334 kinase-like protein AQ_1292; mixed alpha-beta protein, rossman fold, signaling protein, transferase; 1.40A {Aquifex aeolicus} SCOP: c.37.1.11

Probab=95.90  E-value=0.0046  Score=50.50  Aligned_cols=23  Identities=35%  Similarity=0.419  Sum_probs=20.4

Q ss_pred             EEEEEecCCCcHHHHHHHHHhhh
Q 036619          213 VISLVGLGGIGKTTLAQLAYNND  235 (352)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~~  235 (352)
                      .++|+|+.|+|||||++.+....
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            57899999999999999998754

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=95.87  E-value=0.0057  Score=50.72  Aligned_cols=26  Identities=27%  Similarity=0.363  Sum_probs=22.7

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ....+|.|.|+.|+||||+++.+...
T Consensus        13 ~~~~~I~l~G~~GsGKsT~~~~L~~~   38 (203)
T 1ukz_A           13 DQVSVIFVLGGPGAGKGTQCEKLVKD   38 (203)
T ss_dssp             TTCEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHH
Confidence            44678999999999999999999863

>3umf_A Adenylate kinase; rossmann fold, transferase; 2.05A {Schistosoma mansoni}

Probab=95.85  E-value=0.0054  Score=51.76  Aligned_cols=26  Identities=27%  Similarity=0.276  Sum_probs=23.6

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .+.++|.|.|++|+||+|.|+.+...
T Consensus        27 ~k~kiI~llGpPGsGKgTqa~~L~~~   52 (217)
T 3umf_A           27 AKAKVIFVLGGPGSGKGTQCEKLVQK   52 (217)
T ss_dssp             TSCEEEEEECCTTCCHHHHHHHHHHH
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHHHH
Confidence            56789999999999999999999875

>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=95.85  E-value=0.049  Score=48.92  Aligned_cols=26  Identities=38%  Similarity=0.363  Sum_probs=22.9

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ....+++|+|+.|+|||||++.+...
T Consensus       127 ~~g~vi~lvG~nGaGKTTll~~Lag~  152 (328)
T 3e70_C          127 EKPYVIMFVGFNGSGKTTTIAKLANW  152 (328)
T ss_dssp             CSSEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            34689999999999999999988864

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=95.84  E-value=0.0054  Score=50.30  Aligned_cols=24  Identities=25%  Similarity=0.242  Sum_probs=21.2

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..+|.|.|++|+||||+|+.+...
T Consensus         3 ~~~I~l~G~~GsGKsT~a~~L~~~   26 (196)
T 1tev_A            3 PLVVFVLGGPGAGKGTQCARIVEK   26 (196)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHH
Confidence            468999999999999999998763

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=95.81  E-value=0.0054  Score=53.10  Aligned_cols=23  Identities=22%  Similarity=0.141  Sum_probs=20.6

Q ss_pred             EEEEEEecCCCcHHHHHHHHHhh
Q 036619          212 QVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .++.|+|++|+||||||+.+...
T Consensus         2 ~li~I~G~~GSGKSTla~~La~~   24 (253)
T 2ze6_A            2 LLHLIYGPTCSGKTDMAIQIAQE   24 (253)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCcCHHHHHHHHHhc
Confidence            47899999999999999999864

>1kht_A Adenylate kinase; phosphotransferase, signaling protein, transferase; HET: AMP; 2.50A {Methanococcus voltae} SCOP: c.37.1.1 PDB: 3h86_B* 1ki9_A

Probab=95.80  E-value=0.0052  Score=50.23  Aligned_cols=23  Identities=43%  Similarity=0.738  Sum_probs=20.8

Q ss_pred             EEEEEEecCCCcHHHHHHHHHhh
Q 036619          212 QVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .+|.|.|++|+||||+++.+...
T Consensus         4 ~~I~i~G~~GsGKsT~~~~L~~~   26 (192)
T 1kht_A            4 KVVVVTGVPGVGSTTSSQLAMDN   26 (192)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            57899999999999999999874

>2if2_A Dephospho-COA kinase; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative, northeast structural genomics consortium, NESG; 3.00A {Aquifex aeolicus}

Probab=95.80  E-value=0.0054  Score=50.91  Aligned_cols=22  Identities=41%  Similarity=0.498  Sum_probs=19.9

Q ss_pred             EEEEEEecCCCcHHHHHHHHHh
Q 036619          212 QVISLVGLGGIGKTTLAQLAYN  233 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~  233 (352)
                      .+|+|+|+.|+||||+++.+..
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            3689999999999999999875

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=95.79  E-value=0.0055  Score=50.35  Aligned_cols=24  Identities=29%  Similarity=0.329  Sum_probs=21.4

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..+|.|.|++|+||||+++.+...
T Consensus         9 ~~~I~l~G~~GsGKsT~~~~La~~   32 (196)
T 2c95_A            9 TNIIFVVGGPGSGKGTQCEKIVQK   32 (196)
T ss_dssp             SCEEEEEECTTSSHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHH
Confidence            468999999999999999999863

>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman fold, hydro; HET: ADP; 2.91A {Escherichia coli}

Probab=95.78  E-value=0.0063  Score=58.05  Aligned_cols=43  Identities=19%  Similarity=0.153  Sum_probs=34.9

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..++|.+..++.+...+...        .-+.|+|++|+|||+||+.+.+.
T Consensus        22 ~~ivGq~~~i~~l~~al~~~--------~~VLL~GpPGtGKT~LAraLa~~   64 (500)
T 3nbx_X           22 KGLYERSHAIRLCLLAALSG--------ESVFLLGPPGIAKSLIARRLKFA   64 (500)
T ss_dssp             TTCSSCHHHHHHHHHHHHHT--------CEEEEECCSSSSHHHHHHHGGGG
T ss_pred             hhhHHHHHHHHHHHHHHhcC--------CeeEeecCchHHHHHHHHHHHHH
Confidence            35889988888887777542        24679999999999999999974

>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=95.78  E-value=0.0058  Score=52.79  Aligned_cols=26  Identities=15%  Similarity=0.132  Sum_probs=22.4

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ....+|+|.|+.|+||||+|+.+...
T Consensus        20 ~~~~iI~I~G~~GSGKST~a~~L~~~   45 (252)
T 1uj2_A           20 GEPFLIGVSGGTASGKSSVCAKIVQL   45 (252)
T ss_dssp             -CCEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCcEEEEEECCCCCCHHHHHHHHHHH
Confidence            45679999999999999999998763

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=95.78  E-value=0.0053  Score=50.78  Aligned_cols=22  Identities=27%  Similarity=0.421  Sum_probs=20.0

Q ss_pred             EEEEEecCCCcHHHHHHHHHhh
Q 036619          213 VISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .|.|.|+.|+||||+++.+...
T Consensus         2 ~I~i~G~~GsGKsT~~~~L~~~   23 (205)
T 2jaq_A            2 KIAIFGTVGAGKSTISAEISKK   23 (205)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHH
T ss_pred             EEEEECCCccCHHHHHHHHHHh
Confidence            5889999999999999999874

>1cke_A CK, MSSA, protein (cytidine monophosphate kinase); nucleotide monophosphate kinase,, transferase; 1.75A {Escherichia coli} SCOP: c.37.1.1 PDB: 1kdo_A* 1kdp_A* 1kdr_A* 1kdt_A* 2cmk_A* 2fem_A 2feo_A*

Probab=95.77  E-value=0.0052  Score=51.88  Aligned_cols=23  Identities=35%  Similarity=0.476  Sum_probs=20.5

Q ss_pred             EEEEEEecCCCcHHHHHHHHHhh
Q 036619          212 QVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .+|+|+|+.|+||||+++.+...
T Consensus         6 ~~i~i~G~~GsGKSTl~~~L~~~   28 (227)
T 1cke_A            6 PVITIDGPSGAGKGTLCKAMAEA   28 (227)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            57999999999999999988753

>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=95.75  E-value=0.0047  Score=50.20  Aligned_cols=24  Identities=42%  Similarity=0.517  Sum_probs=21.0

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..+|.|+|++|+||||+++.+...
T Consensus        11 ~~~i~i~G~~GsGKst~~~~l~~~   34 (180)
T 3iij_A           11 LPNILLTGTPGVGKTTLGKELASK   34 (180)
T ss_dssp             CCCEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCeEEEEeCCCCCHHHHHHHHHHH
Confidence            457889999999999999999864

>1g8p_A Magnesium-chelatase 38 kDa subunit; parallel beta sheet, P-loop, rossman fold, AAA+, photosynthesis, metal transport; 2.10A {Rhodobacter capsulatus} SCOP: c.37.1.20 PDB: 2x31_G

Probab=95.75  E-value=0.0044  Score=56.08  Aligned_cols=45  Identities=20%  Similarity=0.225  Sum_probs=32.2

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..++|.+..+..+...+....      ..-+.|+|++|+|||+||+.+.+.
T Consensus        24 ~~i~G~~~~~~~l~~~~~~~~------~~~vLl~G~~GtGKT~la~~la~~   68 (350)
T 1g8p_A           24 SAIVGQEDMKLALLLTAVDPG------IGGVLVFGDRGTGKSTAVRALAAL   68 (350)
T ss_dssp             GGSCSCHHHHHHHHHHHHCGG------GCCEEEECCGGGCTTHHHHHHHHH
T ss_pred             hhccChHHHHHHHHHHhhCCC------CceEEEECCCCccHHHHHHHHHHh
Confidence            458898876665544444322      122789999999999999999874

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=95.74  E-value=0.0042  Score=51.59  Aligned_cols=24  Identities=29%  Similarity=0.480  Sum_probs=20.5

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .++++|+|+.|+|||||++.+...
T Consensus         4 g~~i~lvGpsGaGKSTLl~~L~~~   27 (198)
T 1lvg_A            4 PRPVVLSGPSGAGKSTLLKKLFQE   27 (198)
T ss_dssp             -CCEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhh
Confidence            357899999999999999998763

>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=95.73  E-value=0.0059  Score=49.95  Aligned_cols=25  Identities=28%  Similarity=0.347  Sum_probs=21.7

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ....|.|+|+.|+||||+++.+...
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            3468999999999999999998863

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=95.72  E-value=0.0045  Score=51.56  Aligned_cols=24  Identities=25%  Similarity=0.480  Sum_probs=21.4

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..+|.|+|++|+|||||++.+...
T Consensus        12 ~~~i~l~G~sGsGKsTl~~~L~~~   35 (204)
T 2qor_A           12 IPPLVVCGPSGVGKGTLIKKVLSE   35 (204)
T ss_dssp             CCCEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHh
Confidence            568899999999999999998764

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=95.72  E-value=0.0055  Score=49.19  Aligned_cols=26  Identities=35%  Similarity=0.420  Sum_probs=21.3

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ....+|.|.|+.|+||||+++.+...
T Consensus         5 ~~~~~i~l~G~~GsGKSTva~~La~~   30 (168)
T 1zuh_A            5 HHMQHLVLIGFMGSGKSSLAQELGLA   30 (168)
T ss_dssp             ---CEEEEESCTTSSHHHHHHHHHHH
T ss_pred             cccceEEEECCCCCCHHHHHHHHHHH
Confidence            34679999999999999999999863

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=95.71  E-value=0.0071  Score=49.29  Aligned_cols=24  Identities=29%  Similarity=0.282  Sum_probs=21.2

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ...|.|.|++|+||||+++.+...
T Consensus         4 g~~I~l~G~~GsGKST~~~~La~~   27 (186)
T 3cm0_A            4 GQAVIFLGPPGAGKGTQASRLAQE   27 (186)
T ss_dssp             EEEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHH
Confidence            457899999999999999999863

>4a1f_A DNAB helicase, replicative DNA helicase; hydrolase, DNA replication, ATPase; HET: FLC; 2.50A {Helicobacter pylori}

Probab=95.71  E-value=0.034  Score=50.14  Aligned_cols=50  Identities=12%  Similarity=0.046  Sum_probs=34.0

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHH
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIE  264 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~  264 (352)
                      -.++.|.|.+|+||||||..+..+...  +=..++|++..  .+...+...++.
T Consensus        46 G~LiiIaG~pG~GKTt~al~ia~~~a~--~g~~Vl~fSlE--ms~~ql~~Rlls   95 (338)
T 4a1f_A           46 GSLVIIGARPSMGKTSLMMNMVLSALN--DDRGVAVFSLE--MSAEQLALRALS   95 (338)
T ss_dssp             TCEEEEEECTTSCHHHHHHHHHHHHHH--TTCEEEEEESS--SCHHHHHHHHHH
T ss_pred             CcEEEEEeCCCCCHHHHHHHHHHHHHH--cCCeEEEEeCC--CCHHHHHHHHHH
Confidence            468889999999999999888765333  22356666653  455555555543

>1jjv_A Dephospho-COA kinase; P-loop nucleotide-binding fold, structure 2 function project, S2F, structural genomics, transferase; HET: ATP; 2.00A {Haemophilus influenzae} SCOP: c.37.1.1

Probab=95.70  E-value=0.0064  Score=50.57  Aligned_cols=22  Identities=41%  Similarity=0.517  Sum_probs=20.1

Q ss_pred             EEEEEEecCCCcHHHHHHHHHh
Q 036619          212 QVISLVGLGGIGKTTLAQLAYN  233 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~  233 (352)
                      .+|+|+|+.|+||||+++.+..
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            4799999999999999999975

>3tlx_A Adenylate kinase 2; structural genomics, structural genomics consortium, SGC, RO fold, transferase, ATP binding, phosphorylation; HET: ADP ATP AMP; 2.75A {Plasmodium falciparum}

Probab=95.70  E-value=0.0082  Score=51.57  Aligned_cols=25  Identities=20%  Similarity=0.080  Sum_probs=22.2

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ...+|.|.|++|+||||+|+.+.+.
T Consensus        28 ~~~~I~l~G~~GsGKsT~a~~L~~~   52 (243)
T 3tlx_A           28 PDGRYIFLGAPGSGKGTQSLNLKKS   52 (243)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHH
Confidence            4678999999999999999999864

>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=95.69  E-value=0.0056  Score=52.63  Aligned_cols=23  Identities=30%  Similarity=0.326  Sum_probs=21.1

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYN  233 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~  233 (352)
                      ..+++|+|+.|+|||||++.+..
T Consensus        27 ~~~i~l~G~~GsGKSTl~k~La~   49 (246)
T 2bbw_A           27 LLRAVILGPPGSGKGTVCQRIAQ   49 (246)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            46899999999999999999984

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=95.69  E-value=0.0076  Score=49.26  Aligned_cols=25  Identities=40%  Similarity=0.364  Sum_probs=22.3

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ...+|.|.|++|+||||+++.+...
T Consensus        12 ~~~~i~l~G~~GsGKsT~~~~L~~~   36 (186)
T 2yvu_A           12 KGIVVWLTGLPGSGKTTIATRLADL   36 (186)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHH
Confidence            4578999999999999999999875

>3a4m_A L-seryl-tRNA(SEC) kinase; P-loop motif, walker A motif, ATP binding motif, ATP- binding, nucleotide-binding, transferase; HET: ADP; 1.79A {Methanocaldococcus jannaschii} PDB: 3a4l_A* 3a4n_A 3am1_A* 3add_A* 3adc_A* 3adb_A*

Probab=95.68  E-value=0.0067  Score=52.69  Aligned_cols=24  Identities=33%  Similarity=0.535  Sum_probs=21.5

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..+|.|.|++|+||||+|+.+...
T Consensus         4 ~~lIvl~G~pGSGKSTla~~La~~   27 (260)
T 3a4m_A            4 IMLIILTGLPGVGKSTFSKNLAKI   27 (260)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHHH
Confidence            468999999999999999999863

>1qf9_A UMP/CMP kinase, protein (uridylmonophosphate/cytidylmonophosphate kinase); nucleoside monophosphate kinase, NMP kinase; HET: ADP C5P; 1.70A {Dictyostelium discoideum} SCOP: c.37.1.1 PDB: 1uke_A* 2ukd_A* 3ukd_A* 4ukd_A* 5ukd_A*

Probab=95.67  E-value=0.0086  Score=48.93  Aligned_cols=24  Identities=25%  Similarity=0.260  Sum_probs=21.6

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..+|.|.|++|+||||+|+.+...
T Consensus         6 ~~~I~l~G~~GsGKsT~~~~L~~~   29 (194)
T 1qf9_A            6 PNVVFVLGGPGSGKGTQCANIVRD   29 (194)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHH
Confidence            478999999999999999999863

>2cdn_A Adenylate kinase; phosphoryl transfer, associative mechanism, ATP-binding, nucleotide biosynthesis, nucleotide-binding, transferase; HET: ADP; 1.9A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1p4s_A

Probab=95.66  E-value=0.0071  Score=50.13  Aligned_cols=25  Identities=28%  Similarity=0.235  Sum_probs=21.8

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ...+|.|.|++|+||||+|+.+...
T Consensus        19 ~~~~I~l~G~~GsGKST~a~~La~~   43 (201)
T 2cdn_A           19 SHMRVLLLGPPGAGKGTQAVKLAEK   43 (201)
T ss_dssp             SCCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHH
Confidence            3568999999999999999999864

>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=95.64  E-value=0.098  Score=44.33  Aligned_cols=90  Identities=19%  Similarity=0.293  Sum_probs=47.5

Q ss_pred             EEEEEEecCCCcHHHHHHHHHhhhhh-hccC-CeEEEEEeCCCCCHHHHHHHHHHHhCCCCC---------------Cc-
Q 036619          212 QVISLVGLGGIGKTTLAQLAYNNDEV-KRNF-EKVIWVCVSDTFDQIRIAKAIIEGLGKSAS---------------GL-  273 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~-~~~F-~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~---------------~~-  273 (352)
                      ..+.|.|..|+||||+.....-+... .... ...+.+......-...+...+...++....               .. 
T Consensus        77 ~~~~i~g~TGsGKTt~~~~~~~~~~~~~~~~~~~~~l~~~p~~~la~q~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~  156 (235)
T 3llm_A           77 SVVIIRGATGCGKTTQVPQFILDDFIQNDRAAECNIVVTQPRRISAVSVAERVAFERGEEPGKSCGYSVRFESILPRPHA  156 (235)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHHHHHHHTTCGGGCEEEEEESSHHHHHHHHHHHHHTTTCCTTSSEEEEETTEEECCCSSS
T ss_pred             CEEEEEeCCCCCcHHhHHHHHhcchhhcCCCCceEEEEeccchHHHHHHHHHHHHHhccccCceEEEeechhhccCCCCC
Confidence            46889999999999877544432222 2222 223333333333333444555544432210               00 


Q ss_pred             ----ccHHHHHHHHHHhcCCceEEEEecCCCCC
Q 036619          274 ----NEFQSLMSRIQSSIKGKKNFLVLDDVWDG  302 (352)
Q Consensus       274 ----~~~~~~~~~l~~~l~~kr~LlVlDdvw~~  302 (352)
                          ...+.+...+...+.+-+ +||+|.++..
T Consensus       157 ~Ivv~Tpg~l~~~l~~~l~~~~-~lVlDEah~~  188 (235)
T 3llm_A          157 SIMFCTVGVLLRKLEAGIRGIS-HVIVDEIHER  188 (235)
T ss_dssp             EEEEEEHHHHHHHHHHCCTTCC-EEEECCTTSC
T ss_pred             eEEEECHHHHHHHHHhhhcCCc-EEEEECCccC
Confidence                134566666666554443 7899999763

>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=95.63  E-value=0.0072  Score=54.02  Aligned_cols=26  Identities=23%  Similarity=0.221  Sum_probs=23.0

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ....+++|+|+.|+|||||++.+..-
T Consensus        88 ~~g~ivgI~G~sGsGKSTL~~~L~gl  113 (312)
T 3aez_A           88 PVPFIIGVAGSVAVGKSTTARVLQAL  113 (312)
T ss_dssp             CCCEEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCchHHHHHHHHHhh
Confidence            45689999999999999999998863

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=95.62  E-value=0.0075  Score=50.17  Aligned_cols=24  Identities=29%  Similarity=0.394  Sum_probs=21.5

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..+|.|.|++|+||||+++.+...
T Consensus         4 ~~~I~i~G~~GsGKsT~~~~L~~~   27 (213)
T 2plr_A            4 GVLIAFEGIDGSGKSSQATLLKDW   27 (213)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHHH
Confidence            368999999999999999999874

>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=95.61  E-value=0.043  Score=51.88  Aligned_cols=26  Identities=35%  Similarity=0.432  Sum_probs=22.7

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ....+++|+|..|+|||||++.+...
T Consensus       291 ~~GeVI~LVGpNGSGKTTLl~~LAgl  316 (503)
T 2yhs_A          291 KAPFVILMVGVNGVGKTTTIGKLARQ  316 (503)
T ss_dssp             CTTEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             cCCeEEEEECCCcccHHHHHHHHHHH
Confidence            34679999999999999999998864

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=95.61  E-value=0.0056  Score=49.54  Aligned_cols=23  Identities=35%  Similarity=0.543  Sum_probs=20.3

Q ss_pred             EEEEEEecCCCcHHHHHHHHHhh
Q 036619          212 QVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .+|.|.|++|+||||+|+.+...
T Consensus         5 ~~i~i~G~~GsGKsTla~~La~~   27 (175)
T 1via_A            5 KNIVFIGFMGSGKSTLARALAKD   27 (175)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHH
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHH
Confidence            35889999999999999999864

>1xjc_A MOBB protein homolog; structural genomics, midwest center for structural GEN PSI, protein structure initiative, MCSG; 2.10A {Geobacillus stearothermophilus} SCOP: c.37.1.10

Probab=95.60  E-value=0.0067  Score=48.98  Aligned_cols=25  Identities=32%  Similarity=0.344  Sum_probs=21.8

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ...++.|+|..|+|||||+..+...
T Consensus         3 ~~~~i~i~G~sGsGKTTl~~~L~~~   27 (169)
T 1xjc_A            3 AMNVWQVVGYKHSGKTTLMEKWVAA   27 (169)
T ss_dssp             -CCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHh
Confidence            4678999999999999999998874

>2r8r_A Sensor protein; KDPD, PFAM02702, MCSG, structural genomics, protein structure initiative, midwest center for structural genomics, kinase; 2.30A {Pseudomonas syringae PV}

Probab=95.60  E-value=0.002  Score=54.49  Aligned_cols=104  Identities=18%  Similarity=0.285  Sum_probs=55.8

Q ss_pred             EEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCC----------CcccHHHHHHH
Q 036619          213 VISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSAS----------GLNEFQSLMSR  282 (352)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~----------~~~~~~~~~~~  282 (352)
                      .|.+.|.||+||||+|..+.... ....++ +..+.+....+...  ..++..+...+.          ...++..+   
T Consensus         8 ~I~~~~kgGvGKTt~a~~la~~l-~~~G~~-V~v~d~D~q~~~~~--~al~~gl~~~~~~~~~~~~~~~~e~~l~~~---   80 (228)
T 2r8r_A            8 KVFLGAAPGVGKTYAMLQAAHAQ-LRQGVR-VMAGVVETHGRAET--EALLNGLPQQPLLRTEYRGMTLEEMDLDAL---   80 (228)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHHH-HHTTCC-EEEEECCCTTCHHH--HHHHTTSCBCCCEEEEETTEEEEECCHHHH---
T ss_pred             EEEEECCCCCcHHHHHHHHHHHH-HHCCCC-EEEEEeCCCCChhH--HHHhcCccccCcceeecCCcccccccHHHH---
Confidence            46688999999999997777642 333443 34444444333321  122232222110          01122221   


Q ss_pred             HHHhcCCceEEEEecCCCCCC------ccChhHHHHhhccCCCCcEEEEecCCh
Q 036619          283 IQSSIKGKKNFLVLDDVWDGD------YNKWQPFFRCLKNGLHGSKILVTTRNE  330 (352)
Q Consensus       283 l~~~l~~kr~LlVlDdvw~~~------~~~~~~l~~~l~~~~~gs~IivTTR~~  330 (352)
                          +..+.=++|+|++-..+      ..-|..+...++.   |.-|+.|+..+
T Consensus        81 ----L~~~pdlvIVDElG~~~~~~~r~~~~~qDV~~~l~s---gidVitT~Nlq  127 (228)
T 2r8r_A           81 ----LKAAPSLVLVDELAHTNAPGSRHTKRWQDIQELLAA---GIDVYTTVNVQ  127 (228)
T ss_dssp             ----HHHCCSEEEESCTTCBCCTTCSSSBHHHHHHHHHHT---TCEEEEEEEGG
T ss_pred             ----HhcCCCEEEEeCCCCCCcccchhHHHHHHHHHHHcC---CCCEEEEcccc
Confidence                22244599999876431      1257777665554   55688888744

>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=95.59  E-value=0.0056  Score=50.31  Aligned_cols=22  Identities=32%  Similarity=0.519  Sum_probs=19.3

Q ss_pred             EEEEEecCCCcHHHHHHHHHhh
Q 036619          213 VISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .|.|+|+.|+|||||++.+...
T Consensus         3 pIVi~GPSG~GK~Tl~~~L~~~   24 (186)
T 1ex7_A            3 PIVISGPSGTGKSTLLKKLFAE   24 (186)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHh
Confidence            4779999999999999998763

>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=95.59  E-value=0.046  Score=51.52  Aligned_cols=99  Identities=16%  Similarity=0.083  Sum_probs=61.1

Q ss_pred             HHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCC-HHHHHHHHHHHhCCC----
Q 036619          195 ELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFD-QIRIAKAIIEGLGKS----  269 (352)
Q Consensus       195 ~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~-~~~~~~~i~~~l~~~----  269 (352)
                      +.++.|..-.     +-.-++|+|..|+|||+|+..+.++. .+.+-+.++++-+.+... +..+.+++...-...    
T Consensus       154 rvID~l~pig-----kGqr~gIfgg~GvGKT~L~~~l~~~~-a~~~~~v~V~~~iGER~rEv~e~~~~~~~~~~l~~~~l  227 (498)
T 1fx0_B          154 KVVNLLAPYR-----RGGKIGLFGGAGVGKTVLIMELINNI-AKAHGGVSVFGGVGERTREGNDLYMEMKESGVINEQNI  227 (498)
T ss_dssp             TTHHHHSCCC-----TTCCEEEEECSSSSHHHHHHHHHHHT-TTTCSSCEEEEEESCCSHHHHHHHHHHHHTTSSCSSTT
T ss_pred             eEeeeecccc-----cCCeEEeecCCCCCchHHHHHHHHHH-HhhCCCEEEEEEcccCcHHHHHHHHhhhcccccccccc
Confidence            4566665433     23467899999999999998888752 234557888888877654 556666666532111    


Q ss_pred             ---CC-------Cccc-----HHHHHHHHHHhc---CCceEEEEecCC
Q 036619          270 ---AS-------GLNE-----FQSLMSRIQSSI---KGKKNFLVLDDV  299 (352)
Q Consensus       270 ---~~-------~~~~-----~~~~~~~l~~~l---~~kr~LlVlDdv  299 (352)
                         ..       +...     .....-.+.+++   +++..||++||+
T Consensus       228 ~~~rtvvV~~t~d~p~~~R~~~~~~altiAEyfrd~~G~dVLl~~Dsi  275 (498)
T 1fx0_B          228 AESKVALVYGQMNEPPGARMRVGLTALTMAEYFRDVNEQDVLLFIDNI  275 (498)
T ss_dssp             CCCCEEEEEECTTSCHHHHTTHHHHHHHTHHHHTTTSCCEEEEEEECS
T ss_pred             cccceEEEEeCCCCCHHHHHHHHHHHHHHHHHHHHhcCCcEEEEeccH
Confidence               00       0000     112223344555   468999999998

>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=95.59  E-value=0.0068  Score=50.60  Aligned_cols=24  Identities=25%  Similarity=0.387  Sum_probs=21.2

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      -.+++|+|+.|+|||||++.+..-
T Consensus        20 Gei~~l~GpnGsGKSTLl~~l~gl   43 (207)
T 1znw_A           20 GRVVVLSGPSAVGKSTVVRCLRER   43 (207)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhh
Confidence            468999999999999999988753

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=95.58  E-value=0.0068  Score=49.94  Aligned_cols=24  Identities=25%  Similarity=0.344  Sum_probs=21.4

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..+|.|.|++|+||||+|+.+...
T Consensus        12 ~~~I~l~G~~GsGKsT~a~~L~~~   35 (199)
T 2bwj_A           12 CKIIFIIGGPGSGKGTQCEKLVEK   35 (199)
T ss_dssp             SCEEEEEECTTSSHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHH
Confidence            368999999999999999999874

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=95.58  E-value=0.008  Score=51.63  Aligned_cols=25  Identities=20%  Similarity=0.182  Sum_probs=22.0

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ...+++|.|+.|+|||||++.+...
T Consensus        24 ~g~iigI~G~~GsGKSTl~k~L~~~   48 (245)
T 2jeo_A           24 RPFLIGVSGGTASGKSTVCEKIMEL   48 (245)
T ss_dssp             CSEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHH
Confidence            3578999999999999999988763

>1j8m_F SRP54, signal recognition 54 kDa protein; signaling protein; 2.00A {Acidianus ambivalens} SCOP: a.24.13.1 c.37.1.10 PDB: 1j8y_F

Probab=95.55  E-value=0.059  Score=47.70  Aligned_cols=24  Identities=46%  Similarity=0.386  Sum_probs=21.3

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..++.++|.+|+||||++..+...
T Consensus        98 ~~vi~i~G~~G~GKTT~~~~la~~  121 (297)
T 1j8m_F           98 PYVIMLVGVQGTGKTTTAGKLAYF  121 (297)
T ss_dssp             SEEEEEECSSCSSTTHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHH
Confidence            679999999999999999888764

>1aky_A Adenylate kinase; ATP:AMP phosphotransferase, myokinase, transferase (phosphotransferase); HET: AP5; 1.63A {Saccharomyces cerevisiae} SCOP: c.37.1.1 g.41.2.1 PDB: 2aky_A* 3aky_A* 1dvr_A*

Probab=95.54  E-value=0.0071  Score=50.95  Aligned_cols=24  Identities=29%  Similarity=0.254  Sum_probs=21.3

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ...|.|.|++|+||||+|+.+...
T Consensus         4 ~~~I~l~G~~GsGKsT~a~~La~~   27 (220)
T 1aky_A            4 SIRMVLIGPPGAGKGTQAPNLQER   27 (220)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHH
Confidence            467899999999999999999864

>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=95.52  E-value=0.0052  Score=50.08  Aligned_cols=22  Identities=36%  Similarity=0.474  Sum_probs=19.8

Q ss_pred             EEEEEecCCCcHHHHHHHHHhh
Q 036619          213 VISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      +|.|.|++|+||||+|+.+...
T Consensus         4 ~I~l~G~~GsGKsT~a~~La~~   25 (184)
T 2iyv_A            4 KAVLVGLPGSGKSTIGRRLAKA   25 (184)
T ss_dssp             SEEEECSTTSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            5889999999999999999863

>1htw_A HI0065; nucleotide-binding fold, structural genomics, structure 2 function project, S2F, unknown function; HET: ADP; 1.70A {Haemophilus influenzae} SCOP: c.37.1.18 PDB: 1fl9_A

Probab=95.52  E-value=0.0095  Score=47.55  Aligned_cols=24  Identities=33%  Similarity=0.313  Sum_probs=21.6

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      -.+++|+|+.|.|||||.+.+..-
T Consensus        33 Ge~v~L~G~nGaGKTTLlr~l~g~   56 (158)
T 1htw_A           33 AIMVYLNGDLGAGKTTLTRGMLQG   56 (158)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHh
Confidence            468999999999999999999864

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=95.52  E-value=0.005  Score=50.03  Aligned_cols=24  Identities=29%  Similarity=0.303  Sum_probs=17.3

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..+|.|.|++|+||||+|+.+...
T Consensus         5 ~~~I~l~G~~GsGKST~a~~La~~   28 (183)
T 2vli_A            5 SPIIWINGPFGVGKTHTAHTLHER   28 (183)
T ss_dssp             CCEEEEECCC----CHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHh
Confidence            468999999999999999999763

>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function; HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*

Probab=95.51  E-value=0.012  Score=53.15  Aligned_cols=43  Identities=23%  Similarity=0.195  Sum_probs=28.6

Q ss_pred             cchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          190 VDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       190 ~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      +.-.+++++.+...-.  ......|.|+|++|+||||+++.+...
T Consensus         5 ~~L~~~il~~l~~~i~--~g~~~~i~l~G~~G~GKTTl~~~la~~   47 (359)
T 2ga8_A            5 HKLADDVLQLLDNRIE--DNYRVCVILVGSPGSGKSTIAEELCQI   47 (359)
T ss_dssp             HHHHHHHHHHHHHTTT--TCSCEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhc--cCCeeEEEEECCCCCcHHHHHHHHHHH
Confidence            3444555555532211  134567889999999999999988764

>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=95.48  E-value=0.056  Score=51.62  Aligned_cols=89  Identities=15%  Similarity=0.070  Sum_probs=52.7

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCC--------------------
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKS--------------------  269 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~--------------------  269 (352)
                      .-.++.|.|.+|+||||||..+..+.... +=..++|++...  +...+...++......                    
T Consensus       241 ~G~l~li~G~pG~GKT~lal~~a~~~a~~-~g~~vl~~s~E~--s~~~l~~r~~~~~~~~~~~~~~~~~~g~l~~~~~~~  317 (503)
T 1q57_A          241 GGEVIMVTSGSGMVMSTFVRQQALQWGTA-MGKKVGLAMLEE--SVEETAEDLIGLHNRVRLRQSDSLKREIIENGKFDQ  317 (503)
T ss_dssp             TTCEEEEEESSCHHHHHHHHHHHHHHTTT-SCCCEEEEESSS--CHHHHHHHHHHHHTTSCCTTCHHHHHHHHHTSHHHH
T ss_pred             CCeEEEEeecCCCCchHHHHHHHHHHHHh-cCCcEEEEeccC--CHHHHHHHHHHHHcCCChhhccccccCCCCHHHHHH
Confidence            34678899999999999998877653222 123577776644  4455555443221110                    


Q ss_pred             ---------------CCCcccHHHHHHHHHHhcC-CceEEEEecCCCC
Q 036619          270 ---------------ASGLNEFQSLMSRIQSSIK-GKKNFLVLDDVWD  301 (352)
Q Consensus       270 ---------------~~~~~~~~~~~~~l~~~l~-~kr~LlVlDdvw~  301 (352)
                                     .....+.+++...++.... .+--+||+|.+..
T Consensus       318 ~~~~~~~~~~l~i~~~~~~~~~~~i~~~i~~~~~~~~~~lvVID~l~~  365 (503)
T 1q57_A          318 WFDELFGNDTFHLYDSFAEAETDRLLAKLAYMRSGLGCDVIILDHISI  365 (503)
T ss_dssp             HHHHHHTTTCEEEECCC---CHHHHHHHHHHHHHTTCCSEEEEECTTC
T ss_pred             HHHHHhccCCEEEECCCCCCCHHHHHHHHHHHHHhcCCCEEEEccchh
Confidence                           0111345666666666543 3445999999854

>2pez_A Bifunctional 3'-phosphoadenosine 5'- phosphosulfate synthetase 1 (PAPS synthetase...; NMP-kinase fold, protein in complex with nucleic acid; HET: GGZ DAT; 1.40A {Homo sapiens} PDB: 2pey_A* 2ax4_A*

Probab=95.48  E-value=0.0094  Score=48.36  Aligned_cols=25  Identities=32%  Similarity=0.320  Sum_probs=21.8

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ...+|.|.|+.|+||||+++.+...
T Consensus         4 ~g~~i~l~G~~GsGKST~~~~L~~~   28 (179)
T 2pez_A            4 RGCTVWLTGLSGAGKTTVSMALEEY   28 (179)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHH
Confidence            3568899999999999999999874

>3fwy_A Light-independent protochlorophyllide reductase I ATP-binding protein; BCHL, electron donor, DPOR, Fe protein, nitrogenase; HET: ADP; 1.63A {Rhodobacter sphaeroides 2}

Probab=95.47  E-value=0.0084  Score=53.63  Aligned_cols=41  Identities=24%  Similarity=0.329  Sum_probs=28.0

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCC
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSD  251 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~  251 (352)
                      ++.+||+|.|-||+||||.+-.+.--  ....=..+.=|.+..
T Consensus        46 ~~aKVIAIaGKGGVGKTTtavNLA~a--LA~~GkkVllID~Dp   86 (314)
T 3fwy_A           46 TGAKVFAVYGKGGIGKSTTSSNLSAA--FSILGKRVLQIGCDP   86 (314)
T ss_dssp             -CCEEEEEECSTTSSHHHHHHHHHHH--HHHTTCCEEEEEESS
T ss_pred             CCceEEEEECCCccCHHHHHHHHHHH--HHHCCCeEEEEecCC
Confidence            35799999999999999999777652  222222455566553

>2grj_A Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosphocoenzyme kinase, structural genomics, joint center for structural GE JCSG; HET: ADP COD; 2.60A {Thermotoga maritima}

Probab=95.46  E-value=0.011  Score=48.94  Aligned_cols=26  Identities=31%  Similarity=0.442  Sum_probs=23.1

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ....+|+|.|+.|+||||+++.+...
T Consensus        10 ~~~~iIgltG~~GSGKSTva~~L~~~   35 (192)
T 2grj_A           10 HHHMVIGVTGKIGTGKSTVCEILKNK   35 (192)
T ss_dssp             CCEEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             ccceEEEEECCCCCCHHHHHHHHHHh
Confidence            45789999999999999999998863

>3ney_A 55 kDa erythrocyte membrane protein; structural genomics consortium, SGC, 55 kDa erythrocyte MEMB protein; 2.26A {Homo sapiens} SCOP: c.37.1.0

Probab=95.45  E-value=0.0092  Score=49.48  Aligned_cols=25  Identities=20%  Similarity=0.575  Sum_probs=21.9

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..+++.|+|+.|+|||||++.+...
T Consensus        18 ~g~~ivl~GPSGaGKsTL~~~L~~~   42 (197)
T 3ney_A           18 GRKTLVLIGASGVGRSHIKNALLSQ   42 (197)
T ss_dssp             SCCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCCEEEEECcCCCCHHHHHHHHHhh
Confidence            3578999999999999999998864

>1nn5_A Similar to deoxythymidylate kinase (thymidylate K; P-loop, D4TMP, transferase; HET: 2DT ANP; 1.50A {Homo sapiens} SCOP: c.37.1.1 PDB: 1e2e_A* 1e2d_A* 1e2g_A* 1e2q_A* 1e99_A* 1e9a_A* 1e9b_A* 1nmx_A* 1nmz_A* 1nn0_A* 1nn1_A* 1e2f_A* 1nn3_A* 2xx3_A* 1e9c_A* 1e9d_A* 1e9e_A* 1e98_A* 1nmy_A* 1e9f_A*

Probab=95.44  E-value=0.0089  Score=49.87  Aligned_cols=24  Identities=25%  Similarity=0.279  Sum_probs=21.7

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..+|.|.|+.|+||||+++.+...
T Consensus         9 ~~~I~l~G~~GsGKsT~~~~L~~~   32 (215)
T 1nn5_A            9 GALIVLEGVDRAGKSTQSRKLVEA   32 (215)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHH
Confidence            468999999999999999999874

>1e6c_A Shikimate kinase; phosphoryl transfer, ADP, shikimate pathway, P-loop protein, transferase; 1.8A {Erwinia chrysanthemi} SCOP: c.37.1.2 PDB: 1shk_A 2shk_A*

Probab=95.42  E-value=0.0065  Score=48.86  Aligned_cols=23  Identities=30%  Similarity=0.364  Sum_probs=20.4

Q ss_pred             EEEEEEecCCCcHHHHHHHHHhh
Q 036619          212 QVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .+|.|.|+.|+||||+|+.+...
T Consensus         3 ~~I~l~G~~GsGKsT~a~~La~~   25 (173)
T 1e6c_A            3 EPIFMVGARGCGMTTVGRELARA   25 (173)
T ss_dssp             CCEEEESCTTSSHHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHHH
Confidence            36889999999999999999863

>1rj9_A FTSY, signal recognition protein; SRP-GTPase domain, heterodimer, nucleotide twinning, protein complex, protein transport; HET: GCP; 1.90A {Thermus aquaticus} SCOP: a.24.13.1 c.37.1.10 PDB: 2q9c_A* 2q9b_A* 2q9a_A* 1okk_D* 2xkv_D 2iyl_D* 2cnw_D* 2j7p_D*

Probab=95.41  E-value=0.0084  Score=53.37  Aligned_cols=25  Identities=32%  Similarity=0.377  Sum_probs=22.0

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ...+++|+|+.|+|||||++.+..-
T Consensus       101 ~g~vi~lvG~nGsGKTTll~~Lagl  125 (304)
T 1rj9_A          101 KGRVVLVVGVNGVGKTTTIAKLGRY  125 (304)
T ss_dssp             SSSEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHH
Confidence            4579999999999999999988754

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=95.41  E-value=0.014  Score=49.15  Aligned_cols=25  Identities=32%  Similarity=0.477  Sum_probs=21.9

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ...+|.|+|.+|+|||||+..+...
T Consensus        37 ~~~~i~ivG~~gvGKTtl~~~l~~~   61 (226)
T 2hf9_A           37 GVVAFDFMGAIGSGKTLLIEKLIDN   61 (226)
T ss_dssp             TCEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHH
Confidence            4688899999999999999888764

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=95.40  E-value=0.032  Score=61.27  Aligned_cols=84  Identities=18%  Similarity=0.219  Sum_probs=56.0

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCC-----CcccHHHHHHHHH
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSAS-----GLNEFQSLMSRIQ  284 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~-----~~~~~~~~~~~l~  284 (352)
                      ..+++.|+|++|+|||+||.++....  ...=..++|+.+...++...     ++.++....     .....++....++
T Consensus      1426 ~g~~vll~GppGtGKT~LA~ala~ea--~~~G~~v~Fi~~e~~~~~l~-----a~~~G~dl~~l~v~~~~~~E~~l~~~~ 1498 (2050)
T 3cmu_A         1426 MGRIVEIYGPESSGKTTLTLQVIAAA--QREGKTCAFIDAEHALDPIY-----ARKLGVDIDNLLCSQPDTGEQALEICD 1498 (2050)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHHHHH--HTTTCCEEEECTTSCCCHHH-----HHHTTCCTTTCEEECCSSHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH--HHcCCcEEEEEcccccCHHH-----HHHcCCCchhceeecCChHHHHHHHHH
Confidence            45788999999999999998887642  22334678888888777655     344442211     1223345556666


Q ss_pred             Hhc-CCceEEEEecCCC
Q 036619          285 SSI-KGKKNFLVLDDVW  300 (352)
Q Consensus       285 ~~l-~~kr~LlVlDdvw  300 (352)
                      ... +.+.-+||+|.+.
T Consensus      1499 ~lvr~~~~~lVVIDsi~ 1515 (2050)
T 3cmu_A         1499 ALARSGAVDVIVVDSVA 1515 (2050)
T ss_dssp             HHHHHTCCSEEEESCGG
T ss_pred             HHHhcCCCCEEEEcChh
Confidence            554 3566799999984

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=95.40  E-value=0.17  Score=48.06  Aligned_cols=26  Identities=38%  Similarity=0.387  Sum_probs=21.0

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ....+|+|+|.+|+||||++..+...
T Consensus        99 ~~~~vI~ivG~~GvGKTTl~~kLA~~  124 (504)
T 2j37_W           99 GKQNVIMFVGLQGSGKTTTCSKLAYY  124 (504)
T ss_dssp             S--EEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            35789999999999999999887753

>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=95.39  E-value=0.096  Score=49.14  Aligned_cols=65  Identities=23%  Similarity=0.196  Sum_probs=44.9

Q ss_pred             HHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCC-HHHHHHHHHHH
Q 036619          195 ELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFD-QIRIAKAIIEG  265 (352)
Q Consensus       195 ~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~-~~~~~~~i~~~  265 (352)
                      +.++.|..-.     +-.-++|+|.+|+|||+|+..+.++. .+.+-+.++++-+.+... +..+.+++...
T Consensus       142 r~ID~l~pig-----kGQr~~Ifgg~G~GKT~L~~~i~~~~-~~~~~~v~V~~~iGER~rEv~e~~~~~~~~  207 (482)
T 2ck3_D          142 KVVDLLAPYA-----KGGKIGLFGGAGVGKTVLIMELINNV-AKAHGGYSVFAGVGERTREGNDLYHEMIES  207 (482)
T ss_dssp             HHHHHHSCEE-----TTCEEEEEECTTSSHHHHHHHHHHHT-TTTCSSEEEEEEESCCHHHHHHHHHHHHHH
T ss_pred             EEEecccccc-----cCCeeeeecCCCCChHHHHHHHHHhh-HhhCCCEEEEEECCCcchHHHHHHHHhhhc
Confidence            5677776533     23568899999999999999888752 234446677777777553 45666666654

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=95.39  E-value=0.0068  Score=51.14  Aligned_cols=24  Identities=29%  Similarity=0.495  Sum_probs=21.2

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      -.+++|+|+.|+|||||++.+...
T Consensus        23 G~~~~lvGpsGsGKSTLl~~L~g~   46 (218)
T 1z6g_A           23 IYPLVICGPSGVGKGTLIKKLLNE   46 (218)
T ss_dssp             CCCEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhh
Confidence            467999999999999999998863

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=95.38  E-value=0.0092  Score=47.71  Aligned_cols=22  Identities=32%  Similarity=0.409  Sum_probs=19.9

Q ss_pred             EEEEEecCCCcHHHHHHHHHhh
Q 036619          213 VISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .|.|.|+.|+||||+|+.+...
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~   23 (168)
T 2pt5_A            2 RIYLIGFMCSGKSTVGSLLSRS   23 (168)
T ss_dssp             EEEEESCTTSCHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            5889999999999999999873

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=95.37  E-value=0.0091  Score=48.86  Aligned_cols=22  Identities=41%  Similarity=0.643  Sum_probs=20.1

Q ss_pred             EEEEEecCCCcHHHHHHHHHhh
Q 036619          213 VISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      +|.|.|+.|+||||+++.+.+.
T Consensus         2 ~I~l~G~~GsGKsT~~~~L~~~   23 (195)
T 2pbr_A            2 LIAFEGIDGSGKTTQAKKLYEY   23 (195)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            6889999999999999999874

>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=95.37  E-value=0.034  Score=50.08  Aligned_cols=107  Identities=16%  Similarity=0.141  Sum_probs=56.2

Q ss_pred             EEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCcccHHHHHHHHHHhcCCce
Q 036619          212 QVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSASGLNEFQSLMSRIQSSIKGKK  291 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~kr  291 (352)
                      .+++|+|+.|.|||||.+.+..-.   ..-...+.+.-......... .   +.++... +  ........|...|..+.
T Consensus       172 ~~v~i~G~~GsGKTTll~~l~g~~---~~~~g~i~i~~~~e~~~~~~-~---~~i~~~~-g--gg~~~r~~la~aL~~~p  241 (330)
T 2pt7_A          172 KNVIVCGGTGSGKTTYIKSIMEFI---PKEERIISIEDTEEIVFKHH-K---NYTQLFF-G--GNITSADCLKSCLRMRP  241 (330)
T ss_dssp             CCEEEEESTTSCHHHHHHHGGGGS---CTTSCEEEEESSCCCCCSSC-S---SEEEEEC-B--TTBCHHHHHHHHTTSCC
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC---cCCCcEEEECCeeccccccc-h---hEEEEEe-C--CChhHHHHHHHHhhhCC
Confidence            478999999999999999998742   12233444442221110000 0   0000000 0  11122345566677777


Q ss_pred             EEEEecCCCCCCccChhHHHHhhccCCCCcEEEEecCChHHH
Q 036619          292 NFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKILVTTRNESVA  333 (352)
Q Consensus       292 ~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTTR~~~va  333 (352)
                      =+|+||.+-..  +.++.+ ..+..+  +.-+|+||...+..
T Consensus       242 ~ilildE~~~~--e~~~~l-~~~~~g--~~tvi~t~H~~~~~  278 (330)
T 2pt7_A          242 DRIILGELRSS--EAYDFY-NVLCSG--HKGTLTTLHAGSSE  278 (330)
T ss_dssp             SEEEECCCCST--HHHHHH-HHHHTT--CCCEEEEEECSSHH
T ss_pred             CEEEEcCCChH--HHHHHH-HHHhcC--CCEEEEEEcccHHH
Confidence            88999998553  344433 333332  22367777665443

>1zu4_A FTSY; GTPase, signal recognition particle, SRP, receptor, protein transport; 1.95A {Mycoplasma mycoides} PDB: 1zu5_A

Probab=95.34  E-value=0.067  Score=47.85  Aligned_cols=26  Identities=42%  Similarity=0.528  Sum_probs=22.5

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ....+++|+|.+|+||||++..+...
T Consensus       103 ~~~~vI~ivG~~G~GKTT~~~~LA~~  128 (320)
T 1zu4_A          103 NRLNIFMLVGVNGTGKTTSLAKMANY  128 (320)
T ss_dssp             TSCEEEEEESSTTSSHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            34689999999999999999888764

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=95.34  E-value=0.0091  Score=50.55  Aligned_cols=24  Identities=25%  Similarity=0.317  Sum_probs=21.3

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ...|.|.|++|+||||+++.+...
T Consensus         7 ~~~I~l~G~~GsGKsT~a~~La~~   30 (227)
T 1zd8_A            7 LLRAVIMGAPGSGKGTVSSRITTH   30 (227)
T ss_dssp             CCEEEEEECTTSSHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHH
Confidence            467899999999999999999863

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=95.33  E-value=0.0091  Score=51.58  Aligned_cols=23  Identities=35%  Similarity=0.442  Sum_probs=20.8

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYN  233 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~  233 (352)
                      ..+|+|+|+.|+|||||++.+..
T Consensus        27 g~~I~I~G~~GsGKSTl~k~La~   49 (252)
T 4e22_A           27 APVITVDGPSGAGKGTLCKALAE   49 (252)
T ss_dssp             SCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            46899999999999999999984

>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=95.33  E-value=0.019  Score=51.12  Aligned_cols=25  Identities=28%  Similarity=0.319  Sum_probs=22.3

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHh
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYN  233 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~  233 (352)
                      ....+++|+|+.|+|||||++.+..
T Consensus        78 ~~g~iigI~G~~GsGKSTl~~~L~~  102 (308)
T 1sq5_A           78 RIPYIISIAGSVAVGKSTTARVLQA  102 (308)
T ss_dssp             CCCEEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHH
Confidence            3467999999999999999999886

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=95.32  E-value=0.0096  Score=49.58  Aligned_cols=24  Identities=29%  Similarity=0.338  Sum_probs=21.8

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..+|.|.|+.|+||||+++.+...
T Consensus        10 ~~~I~l~G~~GsGKST~~~~L~~~   33 (212)
T 2wwf_A           10 GKFIVFEGLDRSGKSTQSKLLVEY   33 (212)
T ss_dssp             SCEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHH
Confidence            468999999999999999999874

>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=95.31  E-value=0.011  Score=51.89  Aligned_cols=25  Identities=44%  Similarity=0.707  Sum_probs=22.0

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHh
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYN  233 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~  233 (352)
                      ....+|+|.|+.|+||||+|+.+..
T Consensus        73 ~~~~iI~I~G~~GSGKSTva~~La~   97 (281)
T 2f6r_A           73 SGLYVLGLTGISGSGKSSVAQRLKN   97 (281)
T ss_dssp             TTCEEEEEEECTTSCHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHH
Confidence            3468999999999999999999873

>1gtv_A TMK, thymidylate kinase; transferase, transferase (ATP:TMP phosphotransferase); HET: TYD TMP; 1.55A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1g3u_A* 1gsi_A* 1mrn_A* 1mrs_A* 1n5i_A* 1n5j_A* 1n5k_A* 1n5l_A* 1w2g_A* 1w2h_A*

Probab=95.31  E-value=0.0055  Score=51.19  Aligned_cols=22  Identities=32%  Similarity=0.530  Sum_probs=20.1

Q ss_pred             EEEEEecCCCcHHHHHHHHHhh
Q 036619          213 VISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      +|+|.|+.|+||||+++.+...
T Consensus         2 ~I~i~G~~GsGKsTl~~~L~~~   23 (214)
T 1gtv_A            2 LIAIEGVDGAGKRTLVEKLSGA   23 (214)
T ss_dssp             EEEEEEEEEEEHHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHHH
Confidence            6899999999999999998864

>4a74_A DNA repair and recombination protein RADA; hydrolase, recombinase; HET: DNA ANP; 1.48A {Pyrococcus furiosus} PDB: 4a6x_A* 4a6p_A* 4a7o_A*

Probab=95.30  E-value=0.011  Score=49.85  Aligned_cols=48  Identities=27%  Similarity=0.300  Sum_probs=32.7

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhhhhhh---c-cCCeEEEEEeCCCCCHHH
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNNDEVK---R-NFEKVIWVCVSDTFDQIR  257 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~---~-~F~~~~wv~vs~~~~~~~  257 (352)
                      .-.+++|+|+.|+|||||++.+.......   . .-...+|+.....+....
T Consensus        24 ~G~~~~l~G~nGsGKSTll~~l~g~~~~~~~~g~~~~~~i~~~~~~~~~~~~   75 (231)
T 4a74_A           24 TQAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTENTFRPER   75 (231)
T ss_dssp             SSEEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSCEEEEEESSSCCCHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHhcccccCCCCCEEEEEECCCCCCHHH
Confidence            35799999999999999999997632111   0 134578887665544433

>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=95.27  E-value=0.009  Score=51.49  Aligned_cols=21  Identities=43%  Similarity=0.615  Sum_probs=19.7

Q ss_pred             EEEEecCCCcHHHHHHHHHhh
Q 036619          214 ISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       214 i~I~G~~GiGKTtLa~~v~~~  234 (352)
                      +.|+|++|+|||||++.++..
T Consensus        52 ~ll~G~~G~GKTtl~~~i~~~   72 (254)
T 1ixz_A           52 VLLVGPPGVGKTHLARAVAGE   72 (254)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            889999999999999999974

>2q6t_A DNAB replication FORK helicase; hydrolase; 2.90A {Thermus aquaticus}

Probab=95.26  E-value=0.11  Score=48.78  Aligned_cols=88  Identities=10%  Similarity=0.077  Sum_probs=53.0

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCC---------------------
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKS---------------------  269 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~---------------------  269 (352)
                      -.++.|.|.+|+||||||..+..+.... +=..++|++..  .+...+...++.....-                     
T Consensus       200 G~l~ii~G~pg~GKT~lal~ia~~~a~~-~g~~vl~~slE--~~~~~l~~R~~~~~~~i~~~~l~~g~l~~~~~~~~~~a  276 (444)
T 2q6t_A          200 GSLNIIAARPAMGKTAFALTIAQNAALK-EGVGVGIYSLE--MPAAQLTLRMMCSEARIDMNRVRLGQLTDRDFSRLVDV  276 (444)
T ss_dssp             TCEEEEEECTTSCHHHHHHHHHHHHHHT-TCCCEEEEESS--SCHHHHHHHHHHHHTTCCTTTCCGGGCCHHHHHHHHHH
T ss_pred             CcEEEEEeCCCCCHHHHHHHHHHHHHHh-CCCeEEEEECC--CCHHHHHHHHHHHHcCCCHHHHhCCCCCHHHHHHHHHH
Confidence            4688899999999999998887653322 22357777664  34455555554322110                     


Q ss_pred             ------------CCCcccHHHHHHHHHHhcC-CceEEEEecCCCC
Q 036619          270 ------------ASGLNEFQSLMSRIQSSIK-GKKNFLVLDDVWD  301 (352)
Q Consensus       270 ------------~~~~~~~~~~~~~l~~~l~-~kr~LlVlDdvw~  301 (352)
                                  .....+..++...+++... .+.-+||+|-+..
T Consensus       277 ~~~l~~~~l~i~d~~~~s~~~l~~~~~~l~~~~~~~lIvID~l~~  321 (444)
T 2q6t_A          277 ASRLSEAPIYIDDTPDLTLMEVRARARRLVSQNQVGLIIIDYLQL  321 (444)
T ss_dssp             HHHHHTSCEEEECCTTCBHHHHHHHHHHHHHHSCCCEEEEECGGG
T ss_pred             HHHHhcCCEEEECCCCCCHHHHHHHHHHHHHHcCCCEEEEcChhh
Confidence                        0111245566666665542 3455999998854

>1s96_A Guanylate kinase, GMP kinase; E.coli, dimer, SAD, transferase; 2.00A {Escherichia coli} SCOP: c.37.1.1 PDB: 2an9_A* 2anb_A* 2anc_A 2f3r_A* 2f3t_A*

Probab=95.25  E-value=0.01  Score=50.19  Aligned_cols=25  Identities=20%  Similarity=0.224  Sum_probs=22.0

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .-.+++|+|+.|+|||||.+.+...
T Consensus        15 ~G~ii~l~GpsGsGKSTLlk~L~g~   39 (219)
T 1s96_A           15 QGTLYIVSAPSGAGKSSLIQALLKT   39 (219)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhcc
Confidence            3568999999999999999998864

>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=95.22  E-value=0.013  Score=49.02  Aligned_cols=24  Identities=38%  Similarity=0.311  Sum_probs=21.7

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..+|.|.|+.|+||||+++.+...
T Consensus        25 ~~~i~~~G~~GsGKsT~~~~l~~~   48 (211)
T 1m7g_A           25 GLTIWLTGLSASGKSTLAVELEHQ   48 (211)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHH
Confidence            578999999999999999999874

>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=95.22  E-value=0.094  Score=46.31  Aligned_cols=24  Identities=42%  Similarity=0.325  Sum_probs=21.4

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..+++|+|.+|+||||++..+...
T Consensus        98 ~~~i~i~g~~G~GKTT~~~~la~~  121 (295)
T 1ls1_A           98 RNLWFLVGLQGSGKTTTAAKLALY  121 (295)
T ss_dssp             SEEEEEECCTTTTHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHH
Confidence            578999999999999999988864

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=95.20  E-value=0.012  Score=52.26  Aligned_cols=25  Identities=36%  Similarity=0.348  Sum_probs=22.2

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ...+++|+|+.|+|||||++.+...
T Consensus        99 ~g~vi~lvG~nGsGKTTll~~Lag~  123 (302)
T 3b9q_A           99 KPAVIMIVGVNGGGKTTSLGKLAHR  123 (302)
T ss_dssp             SCEEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHH
Confidence            4679999999999999999988764

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=95.20  E-value=0.015  Score=48.63  Aligned_cols=25  Identities=28%  Similarity=0.438  Sum_probs=22.1

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ...++.|+|.+|+|||||+..+...
T Consensus        29 ~~~~i~i~G~~g~GKTTl~~~l~~~   53 (221)
T 2wsm_A           29 GTVAVNIMGAIGSGKTLLIERTIER   53 (221)
T ss_dssp             TCEEEEEEECTTSCHHHHHHHHHHH
T ss_pred             CceEEEEEcCCCCCHHHHHHHHHHH
Confidence            4689999999999999999888764

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=95.19  E-value=0.016  Score=47.22  Aligned_cols=26  Identities=27%  Similarity=0.275  Sum_probs=21.7

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .....|.|+|.+|+|||||...+...
T Consensus        46 ~~~~~i~vvG~~g~GKSsll~~l~~~   71 (193)
T 2ged_A           46 SYQPSIIIAGPQNSGKTSLLTLLTTD   71 (193)
T ss_dssp             CCCCEEEEECCTTSSHHHHHHHHHHS
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcC
Confidence            34557889999999999999888764

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=95.17  E-value=0.0097  Score=50.17  Aligned_cols=24  Identities=21%  Similarity=0.205  Sum_probs=21.2

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ...|.|.|++|+||||+++.+...
T Consensus         5 ~~~I~l~G~~GsGKsT~~~~La~~   28 (222)
T 1zak_A            5 PLKVMISGAPASGKGTQCELIKTK   28 (222)
T ss_dssp             SCCEEEEESTTSSHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHH
Confidence            457889999999999999999874

>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=95.17  E-value=0.012  Score=48.70  Aligned_cols=24  Identities=29%  Similarity=0.260  Sum_probs=21.3

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ...|.|.|+.|+||||+++.+...
T Consensus         4 ~~~I~l~G~~GsGKsT~~~~L~~~   27 (204)
T 2v54_A            4 GALIVFEGLDKSGKTTQCMNIMES   27 (204)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHT
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHH
Confidence            357899999999999999999874

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=95.16  E-value=0.012  Score=49.35  Aligned_cols=22  Identities=41%  Similarity=0.508  Sum_probs=19.5

Q ss_pred             EEEEEecCCCcHHHHHHHHHhh
Q 036619          213 VISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .|.|.|++|+||||+|+.+...
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~   23 (216)
T 3fb4_A            2 NIVLMGLPGAGKGTQAEQIIEK   23 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            4789999999999999999764

>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=95.16  E-value=0.014  Score=49.01  Aligned_cols=23  Identities=30%  Similarity=0.365  Sum_probs=20.7

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYN  233 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~  233 (352)
                      ..+|+|.|+.|+||||+++.+..
T Consensus         4 ~~~I~i~G~~GSGKST~~~~L~~   26 (218)
T 1vht_A            4 RYIVALTGGIGSGKSTVANAFAD   26 (218)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            46899999999999999999864

>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11

Probab=95.13  E-value=0.0099  Score=49.00  Aligned_cols=23  Identities=39%  Similarity=0.392  Sum_probs=20.5

Q ss_pred             EEEEEecCCCcHHHHHHHHHhhh
Q 036619          213 VISLVGLGGIGKTTLAQLAYNND  235 (352)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~~  235 (352)
                      +++|+|+.|+|||||.+.+....
T Consensus         3 ~i~i~G~nG~GKTTll~~l~g~~   25 (189)
T 2i3b_A            3 HVFLTGPPGVGKTTLIHKASEVL   25 (189)
T ss_dssp             CEEEESCCSSCHHHHHHHHHHHH
T ss_pred             EEEEECCCCChHHHHHHHHHhhc
Confidence            68899999999999999988754

>2onk_A Molybdate/tungstate ABC transporter, ATP-binding protein; membrane protein; 3.10A {Archaeoglobus fulgidus} SCOP: c.37.1.12

Probab=95.11  E-value=0.012  Score=50.55  Aligned_cols=24  Identities=25%  Similarity=0.378  Sum_probs=21.5

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHh
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYN  233 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~  233 (352)
                      .. .+++|+|+.|+|||||.+.+..
T Consensus        23 ~~-e~~~liG~nGsGKSTLl~~l~G   46 (240)
T 2onk_A           23 GR-DYCVLLGPTGAGKSVFLELIAG   46 (240)
T ss_dssp             CS-SEEEEECCTTSSHHHHHHHHHT
T ss_pred             CC-EEEEEECCCCCCHHHHHHHHhC
Confidence            34 7899999999999999999875

>3l0o_A Transcription termination factor RHO; helicase, RHO factor, RNA capture mechanism, ATP-binding, hydrolase, nucleotide-binding, RN binding; 2.35A {Thermotoga maritima}

Probab=95.10  E-value=0.059  Score=49.23  Aligned_cols=56  Identities=16%  Similarity=-0.004  Sum_probs=35.8

Q ss_pred             chHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhh-ccCCeEEEEEeCCC
Q 036619          191 DEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVK-RNFEKVIWVCVSDT  252 (352)
Q Consensus       191 ~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~-~~F~~~~wv~vs~~  252 (352)
                      .---+.++.|..-.     .-..++|+|.+|+|||+|+..+.+..... ..+. ++++-+.+.
T Consensus       160 ~tGiraID~l~Pig-----rGQR~lIfg~~g~GKT~Ll~~Ia~~i~~~~~dv~-~V~~lIGER  216 (427)
T 3l0o_A          160 IYSTRLIDLFAPIG-----KGQRGMIVAPPKAGKTTILKEIANGIAENHPDTI-RIILLIDER  216 (427)
T ss_dssp             CHHHHHHHHHSCCB-----TTCEEEEEECTTCCHHHHHHHHHHHHHHHCTTSE-EEEEECSCC
T ss_pred             hccchhhhhccccc-----CCceEEEecCCCCChhHHHHHHHHHHhhcCCCeE-EEEEEeccC
Confidence            33456778776533     23467899999999999999888753221 1232 345555543

>2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding protein; structural genomics; 1.70A {Aquifex aeolicus} PDB: 2pcl_A

Probab=95.10  E-value=0.012  Score=49.96  Aligned_cols=52  Identities=15%  Similarity=0.190  Sum_probs=31.3

Q ss_pred             HHHHhcCCceEEEEecCCCCC-CccChhHHHHhhccC-CCCcEEEEecCChHHH
Q 036619          282 RIQSSIKGKKNFLVLDDVWDG-DYNKWQPFFRCLKNG-LHGSKILVTTRNESVA  333 (352)
Q Consensus       282 ~l~~~l~~kr~LlVlDdvw~~-~~~~~~~l~~~l~~~-~~gs~IivTTR~~~va  333 (352)
                      .|...|-.++=+|+||.--.. |...-..+...+..- ..|..||++|.+.+.+
T Consensus       150 ~laral~~~p~lllLDEPt~~LD~~~~~~~~~~l~~l~~~g~tvi~vtHd~~~~  203 (224)
T 2pcj_A          150 AIARALANEPILLFADEPTGNLDSANTKRVMDIFLKINEGGTSIVMVTHERELA  203 (224)
T ss_dssp             HHHHHTTTCCSEEEEESTTTTCCHHHHHHHHHHHHHHHHTTCEEEEECSCHHHH
T ss_pred             HHHHHHHcCCCEEEEeCCCCCCCHHHHHHHHHHHHHHHHCCCEEEEEcCCHHHH
Confidence            345556667779999987443 222233344444321 1266799999998766

>3p32_A Probable GTPase RV1496/MT1543; structural genomics, seattle structural genomics center for infectious disease, ssgcid, MEAB, MMAA; HET: GDP PGE; 1.90A {Mycobacterium tuberculosis} PDB: 3md0_A* 4gt1_A* 3nxs_A* 3tk1_A*

Probab=95.10  E-value=0.021  Score=51.96  Aligned_cols=38  Identities=24%  Similarity=0.401  Sum_probs=28.1

Q ss_pred             HHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          193 KSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       193 ~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ...++..+....    ....+|+|+|.+|+|||||+..+...
T Consensus        65 ~~~~~~~~~~~~----~~~~~I~i~G~~G~GKSTl~~~L~~~  102 (355)
T 3p32_A           65 AQQLLLRLLPDS----GNAHRVGITGVPGVGKSTAIEALGMH  102 (355)
T ss_dssp             HHHHHHHHGGGC----CCSEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             HHHHHHHhHhhc----CCceEEEEECCCCCCHHHHHHHHHHH
Confidence            445555554333    45789999999999999999887653

>1tf7_A KAIC; homohexamer, hexamer, circadian clock protein; HET: ATP; 2.80A {Synechococcus SP} SCOP: c.37.1.11 c.37.1.11 PDB: 3s1a_A* 1u9i_A* 2gbl_A* 3dvl_A* 3k0a_A* 3k09_A* 3jzm_A* 3k0e_A* 4dug_A* 3ua2_A* 3k0c_A* 3k0f_A*

Probab=95.10  E-value=0.021  Score=54.95  Aligned_cols=116  Identities=14%  Similarity=0.052  Sum_probs=59.5

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCC---------------CCCcc
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKS---------------ASGLN  274 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~---------------~~~~~  274 (352)
                      .-.++.|+|..|+|||||++.++......  =..++++.....  ...+...+ ..++..               .+..-
T Consensus       280 ~G~i~~i~G~~GsGKSTLl~~l~g~~~~~--G~~vi~~~~ee~--~~~l~~~~-~~~g~~~~~~~~~g~~~~~~~~p~~L  354 (525)
T 1tf7_A          280 KDSIILATGATGTGKTLLVSRFVENACAN--KERAILFAYEES--RAQLLRNA-YSWGMDFEEMERQNLLKIVCAYPESA  354 (525)
T ss_dssp             SSCEEEEEECTTSSHHHHHHHHHHHHHTT--TCCEEEEESSSC--HHHHHHHH-HTTSCCHHHHHHTTSEEECCCCGGGS
T ss_pred             CCcEEEEEeCCCCCHHHHHHHHHHHHHhC--CCCEEEEEEeCC--HHHHHHHH-HHcCCCHHHHHhCCCEEEEEeccccC
Confidence            34789999999999999999988643221  123455544332  33333322 112111               01111


Q ss_pred             cHHHHH-HHHHHhcCCceEEEEecCCCCCCcc-----ChhHHHHhhcc-CCCCcEEEEecCCh
Q 036619          275 EFQSLM-SRIQSSIKGKKNFLVLDDVWDGDYN-----KWQPFFRCLKN-GLHGSKILVTTRNE  330 (352)
Q Consensus       275 ~~~~~~-~~l~~~l~~kr~LlVlDdvw~~~~~-----~~~~l~~~l~~-~~~gs~IivTTR~~  330 (352)
                      +..+.+ ..+...+..+.-+||||-+..-+..     ....+...+.. ...|..||+||.+.
T Consensus       355 S~g~~q~~~~a~~l~~~p~llilDp~~~Ld~~~~~~~~~~~i~~ll~~l~~~g~tvilvsh~~  417 (525)
T 1tf7_A          355 GLEDHLQIIKSEINDFKPARIAIDSLSALARGVSNNAFRQFVIGVTGYAKQEEITGLFTNTSD  417 (525)
T ss_dssp             CHHHHHHHHHHHHHTTCCSEEEEECHHHHTSSSCHHHHHHHHHHHHHHHHHTTCEEEEEEECS
T ss_pred             CHHHHHHHHHHHHHhhCCCEEEEcChHHHHhhCChHHHHHHHHHHHHHHHhCCCEEEEEECcc
Confidence            233333 3344555677789999954322222     22222222221 12366788887664

>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB); structural genomics, PSI, protein structure initiative; 2.10A {Archaeoglobus fulgidus}

Probab=95.08  E-value=0.0075  Score=48.85  Aligned_cols=23  Identities=35%  Similarity=0.406  Sum_probs=20.8

Q ss_pred             EEEEEEecCCCcHHHHHHHHHhh
Q 036619          212 QVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .+++|+|..|+|||||++.+..-
T Consensus         3 ~~v~IvG~SGsGKSTL~~~L~~~   25 (171)
T 2f1r_A            3 LILSIVGTSDSGKTTLITRMMPI   25 (171)
T ss_dssp             CEEEEEESCHHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            57999999999999999998864

>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=95.06  E-value=0.012  Score=50.40  Aligned_cols=53  Identities=21%  Similarity=0.253  Sum_probs=31.9

Q ss_pred             HHHHhcCCceEEEEecCCCCC-CccChhHHHHhhccC--CCCcEEEEecCChHHHH
Q 036619          282 RIQSSIKGKKNFLVLDDVWDG-DYNKWQPFFRCLKNG--LHGSKILVTTRNESVAR  334 (352)
Q Consensus       282 ~l~~~l~~kr~LlVlDdvw~~-~~~~~~~l~~~l~~~--~~gs~IivTTR~~~va~  334 (352)
                      .|...|-.++=+|+||.--.. |...-..+...+..-  ..|..||++|.+.+++.
T Consensus       155 ~iAral~~~p~llllDEPts~LD~~~~~~i~~~l~~l~~~~g~tvi~vtHd~~~~~  210 (235)
T 3tif_A          155 AIARALANNPPIILADQPTWALDSKTGEKIMQLLKKLNEEDGKTVVVVTHDINVAR  210 (235)
T ss_dssp             HHHHHHTTCCSEEEEESTTTTSCHHHHHHHHHHHHHHHHHHCCEEEEECSCHHHHT
T ss_pred             HHHHHHHcCCCEEEEeCCcccCCHHHHHHHHHHHHHHHHHcCCEEEEEcCCHHHHH
Confidence            344555566778999987443 222233444444432  22677999999988764

>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=95.06  E-value=0.013  Score=49.09  Aligned_cols=22  Identities=32%  Similarity=0.447  Sum_probs=19.4

Q ss_pred             EEEEEecCCCcHHHHHHHHHhh
Q 036619          213 VISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .|.|.|++|+||||+|+.+...
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~   23 (216)
T 3dl0_A            2 NLVLMGLPGAGKGTQGERIVEK   23 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            4789999999999999999763

>2r2a_A Uncharacterized protein; zonular occludens toxin, structural genomics, APC84050.2, PS protein structure initiative; HET: MSE; 1.82A {Neisseria meningitidis MC58}

Probab=95.00  E-value=0.042  Score=45.56  Aligned_cols=22  Identities=23%  Similarity=0.235  Sum_probs=18.0

Q ss_pred             eEEEEEEecCCCcHHHHHHHHH
Q 036619          211 LQVISLVGLGGIGKTTLAQLAY  232 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~  232 (352)
                      ..+..|.|.+|.|||++|....
T Consensus         5 ~mi~l~tG~pGsGKT~~a~~~~   26 (199)
T 2r2a_A            5 AEICLITGTPGSGKTLKMVSMM   26 (199)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHH
T ss_pred             eeEEEEEeCCCCCHHHHHHHHH
Confidence            3477899999999999996643

>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II}

Probab=94.97  E-value=0.013  Score=49.23  Aligned_cols=24  Identities=25%  Similarity=0.365  Sum_probs=20.9

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ...|.|.|++|+||||+|+.+...
T Consensus         5 ~~~I~l~G~~GsGKsT~a~~La~~   28 (217)
T 3be4_A            5 KHNLILIGAPGSGKGTQCEFIKKE   28 (217)
T ss_dssp             CCEEEEEECTTSSHHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHH
Confidence            356889999999999999999874

>3e1s_A Exodeoxyribonuclease V, subunit RECD; alpha and beta protein, ATP-binding, nucleotide-binding, HYD; 2.20A {Deinococcus radiodurans} PDB: 3gp8_A 3gpl_A*

Probab=94.94  E-value=0.019  Score=55.85  Aligned_cols=23  Identities=26%  Similarity=0.385  Sum_probs=20.2

Q ss_pred             EEEEEEecCCCcHHHHHHHHHhh
Q 036619          212 QVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      +++.|.|.+|+||||++..+...
T Consensus       205 ~~~~I~G~pGTGKTt~i~~l~~~  227 (574)
T 3e1s_A          205 RLVVLTGGPGTGKSTTTKAVADL  227 (574)
T ss_dssp             SEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHH
Confidence            57789999999999999888764

>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM: PF02562, ST genomics, PSI-2, protein structure initiative; 2.35A {Corynebacterium glutamicum atcc 13032}

Probab=94.94  E-value=0.011  Score=49.40  Aligned_cols=23  Identities=30%  Similarity=0.304  Sum_probs=20.7

Q ss_pred             EEEEEEecCCCcHHHHHHHHHhh
Q 036619          212 QVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .+++|+|+.|+|||||.+.+..-
T Consensus        23 e~~~liG~nGsGKSTLl~~l~Gl   45 (208)
T 3b85_A           23 TIVFGLGPAGSGKTYLAMAKAVQ   45 (208)
T ss_dssp             SEEEEECCTTSSTTHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhcC
Confidence            47899999999999999998864

>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography, emerald biostructures, ATP-binding, cytoplasm, nucleotide-binding; HET: 5GP; 1.95A {Anaplasma phagocytophilum}

Probab=94.93  E-value=0.0089  Score=50.76  Aligned_cols=22  Identities=32%  Similarity=0.341  Sum_probs=16.3

Q ss_pred             eEEEEEEecCCCcHHHHHHHHH
Q 036619          211 LQVISLVGLGGIGKTTLAQLAY  232 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~  232 (352)
                      ..+++|+|+.|+|||||++.+.
T Consensus        27 G~ii~l~Gp~GsGKSTl~~~L~   48 (231)
T 3lnc_A           27 GVILVLSSPSGCGKTTVANKLL   48 (231)
T ss_dssp             CCEEEEECSCC----CHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHH
Confidence            3689999999999999999998

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=94.92  E-value=0.013  Score=51.29  Aligned_cols=50  Identities=28%  Similarity=0.310  Sum_probs=31.6

Q ss_pred             CccccccchHHHHHHHHcCccc-------cCCCCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          184 GEVCGRVDEKSELFSKLLCESS-------EQQNGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~-------~~~~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..++|.+..+.++.+....-..       +-..... +.|+|++|+|||||++.+...
T Consensus        40 ~~i~g~~~~~~~l~~l~~~~~~~~~l~~~~~~~~~g-vll~Gp~GtGKTtl~~~i~~~   96 (278)
T 1iy2_A           40 KDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKG-VLLVGPPGVGKTHLARAVAGE   96 (278)
T ss_dssp             GGSSSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCCE-EEEECCTTSSHHHHHHHHHHH
T ss_pred             HHhCChHHHHHHHHHHHHHHHCHHHHHHcCCCCCCe-EEEECCCcChHHHHHHHHHHH
Confidence            4577877666655443321100       0001123 889999999999999999974

>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=94.90  E-value=0.014  Score=48.69  Aligned_cols=22  Identities=27%  Similarity=0.407  Sum_probs=19.9

Q ss_pred             EEEEEecCCCcHHHHHHHHHhh
Q 036619          213 VISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      +|.|.|++|+||+|+|+.+...
T Consensus         2 ~Iil~GpPGsGKgTqa~~La~~   23 (206)
T 3sr0_A            2 ILVFLGPPGAGKGTQAKRLAKE   23 (206)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            5789999999999999999875

>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=94.86  E-value=0.14  Score=49.72  Aligned_cols=24  Identities=38%  Similarity=0.487  Sum_probs=21.1

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      -.+++|+|+.|.|||||++.+..-
T Consensus       369 G~~~~ivG~sGsGKSTll~~l~g~  392 (582)
T 3b5x_A          369 GKTVALVGRSGSGKSTIANLFTRF  392 (582)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcC
Confidence            468999999999999999998753

>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=94.84  E-value=0.016  Score=49.17  Aligned_cols=26  Identities=23%  Similarity=0.095  Sum_probs=22.8

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ....+|+|.|+.|+|||||++.+...
T Consensus        18 ~~g~~i~i~G~~GsGKSTl~~~L~~~   43 (230)
T 2vp4_A           18 TQPFTVLIEGNIGSGKTTYLNHFEKY   43 (230)
T ss_dssp             CCCEEEEEECSTTSCHHHHHHTTGGG
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHhc
Confidence            44679999999999999999998863

>2cbz_A Multidrug resistance-associated protein 1; ABC proteins, MRP1/ABCC1, nucleotide-binding domain, ATP- binding, hydrolysis, transport; HET: ATP; 1.5A {Homo sapiens}

Probab=94.84  E-value=0.014  Score=49.86  Aligned_cols=24  Identities=25%  Similarity=0.387  Sum_probs=21.4

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      -.+++|+|+.|+|||||.+.+..-
T Consensus        31 Ge~~~i~G~nGsGKSTLl~~l~Gl   54 (237)
T 2cbz_A           31 GALVAVVGQVGCGKSSLLSALLAE   54 (237)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcC
Confidence            358999999999999999999863

>1b0u_A Histidine permease; ABC transporter, transport protein; HET: ATP; 1.50A {Salmonella typhimurium} SCOP: c.37.1.12

Probab=94.84  E-value=0.014  Score=50.72  Aligned_cols=23  Identities=35%  Similarity=0.450  Sum_probs=20.8

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYN  233 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~  233 (352)
                      -.+++|+|+.|+|||||.+.+..
T Consensus        32 Ge~~~liG~nGsGKSTLlk~l~G   54 (262)
T 1b0u_A           32 GDVISIIGSSGSGKSTFLRCINF   54 (262)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHhc
Confidence            46899999999999999999875

>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=94.84  E-value=0.014  Score=51.09  Aligned_cols=23  Identities=35%  Similarity=0.436  Sum_probs=20.6

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYN  233 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~  233 (352)
                      -.+++|+|+.|+|||||.+.+..
T Consensus        34 Ge~~~iiGpnGsGKSTLl~~l~G   56 (275)
T 3gfo_A           34 GEVTAILGGNGVGKSTLFQNFNG   56 (275)
T ss_dssp             TSEEEEECCTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHc
Confidence            35899999999999999999875

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=94.83  E-value=0.017  Score=52.54  Aligned_cols=25  Identities=36%  Similarity=0.348  Sum_probs=22.3

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ...+++|+|+.|+|||||++.+...
T Consensus       156 ~g~vi~lvG~nGsGKTTll~~Lag~  180 (359)
T 2og2_A          156 KPAVIMIVGVNGGGKTTSLGKLAHR  180 (359)
T ss_dssp             SSEEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCeEEEEEcCCCChHHHHHHHHHhh
Confidence            4689999999999999999988764

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=94.77  E-value=0.013  Score=50.65  Aligned_cols=22  Identities=36%  Similarity=0.576  Sum_probs=20.3

Q ss_pred             EEEEEEecCCCcHHHHHHHHHh
Q 036619          212 QVISLVGLGGIGKTTLAQLAYN  233 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~  233 (352)
                      .+|.|+|+.|+||||+++.+..
T Consensus        49 ~~i~l~G~~GsGKSTl~~~La~   70 (250)
T 3nwj_A           49 RSMYLVGMMGSGKTTVGKIMAR   70 (250)
T ss_dssp             CCEEEECSTTSCHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            4789999999999999999986

>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=94.77  E-value=0.015  Score=49.78  Aligned_cols=23  Identities=35%  Similarity=0.485  Sum_probs=20.8

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYN  233 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~  233 (352)
                      -.+++|+|+.|+|||||.+.++.
T Consensus        32 Ge~~~l~G~nGsGKSTLl~~l~G   54 (240)
T 1ji0_A           32 GQIVTLIGANGAGKTTTLSAIAG   54 (240)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHhC
Confidence            35899999999999999999876

>3ake_A Cytidylate kinase; CMP kinase, CMP complex, open conformation, nucleotide metab transferase; HET: C5P; 1.50A {Thermus thermophilus} PDB: 3akc_A* 3akd_A*

Probab=94.75  E-value=0.017  Score=47.77  Aligned_cols=22  Identities=18%  Similarity=0.374  Sum_probs=20.2

Q ss_pred             EEEEEecCCCcHHHHHHHHHhh
Q 036619          213 VISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      +|+|.|+.|+||||+++.+...
T Consensus         4 ~i~i~G~~GsGKst~~~~la~~   25 (208)
T 3ake_A            4 IVTIDGPSASGKSSVARRVAAA   25 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHh
Confidence            8999999999999999998763

>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=94.75  E-value=0.016  Score=49.34  Aligned_cols=24  Identities=21%  Similarity=0.321  Sum_probs=21.4

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..+|.|.|++|+||||+++.+...
T Consensus         9 ~~~i~i~G~~GsGKsTla~~la~~   32 (233)
T 3r20_A            9 SLVVAVDGPAGTGKSSVSRGLARA   32 (233)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHH
Confidence            468999999999999999998863

>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=94.74  E-value=0.015  Score=50.31  Aligned_cols=23  Identities=30%  Similarity=0.433  Sum_probs=20.7

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYN  233 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~  233 (352)
                      -.+++|+|+.|+|||||.+.+..
T Consensus        33 Ge~~~liG~nGsGKSTLlk~l~G   55 (257)
T 1g6h_A           33 GDVTLIIGPNGSGKSTLINVITG   55 (257)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHhC
Confidence            35899999999999999999875

>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=94.74  E-value=0.019  Score=47.06  Aligned_cols=24  Identities=33%  Similarity=0.475  Sum_probs=21.2

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .-.++|+|..|+|||||.+.+...
T Consensus        29 ~~kv~lvG~~g~GKSTLl~~l~~~   52 (191)
T 1oix_A           29 LFKVVLIGDSGVGKSNLLSRFTRN   52 (191)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECcCCCCHHHHHHHHhcC
Confidence            567899999999999999988764

>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=94.74  E-value=0.017  Score=49.84  Aligned_cols=23  Identities=35%  Similarity=0.512  Sum_probs=21.0

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYN  233 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~  233 (352)
                      -.+++|+|+.|+|||||.+.+..
T Consensus        29 Ge~~~l~G~nGsGKSTLlk~l~G   51 (250)
T 2d2e_A           29 GEVHALMGPNGAGKSTLGKILAG   51 (250)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHT
T ss_pred             CCEEEEECCCCCCHHHHHHHHhC
Confidence            35899999999999999999987

>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=94.72  E-value=0.016  Score=50.53  Aligned_cols=23  Identities=30%  Similarity=0.564  Sum_probs=20.8

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYN  233 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~  233 (352)
                      -.+++|+|+.|+|||||.+.+..
T Consensus        37 Ge~~~liG~nGsGKSTLl~~l~G   59 (266)
T 4g1u_C           37 GEMVAIIGPNGAGKSTLLRLLTG   59 (266)
T ss_dssp             TCEEEEECCTTSCHHHHHHHHTS
T ss_pred             CCEEEEECCCCCcHHHHHHHHhc
Confidence            36899999999999999999875

>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=94.71  E-value=0.016  Score=50.40  Aligned_cols=23  Identities=26%  Similarity=0.381  Sum_probs=20.9

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYN  233 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~  233 (352)
                      -.+++|+|+.|+|||||.+.+..
T Consensus        50 Gei~~liG~NGsGKSTLlk~l~G   72 (263)
T 2olj_A           50 GEVVVVIGPSGSGKSTFLRCLNL   72 (263)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTT
T ss_pred             CCEEEEEcCCCCcHHHHHHHHHc
Confidence            46899999999999999999875

>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=94.70  E-value=0.018  Score=46.76  Aligned_cols=24  Identities=25%  Similarity=0.425  Sum_probs=21.7

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..++.|+|..|+|||||++.+...
T Consensus         6 ~~~i~i~G~sGsGKTTl~~~l~~~   29 (174)
T 1np6_A            6 IPLLAFAAWSGTGKTTLLKKLIPA   29 (174)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHH
T ss_pred             ceEEEEEeCCCCCHHHHHHHHHHh
Confidence            578999999999999999988864

>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=94.68  E-value=0.019  Score=47.98  Aligned_cols=22  Identities=36%  Similarity=0.351  Sum_probs=19.6

Q ss_pred             EEEEEecCCCcHHHHHHHHHhh
Q 036619          213 VISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .|.|.|++|+||||+|+.+...
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~   23 (214)
T 1e4v_A            2 RIILLGAPVAGKGTQAQFIMEK   23 (214)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            4789999999999999999864

>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=94.65  E-value=0.018  Score=50.18  Aligned_cols=53  Identities=11%  Similarity=0.103  Sum_probs=32.6

Q ss_pred             HHHhcCCceEEEEecCCCCC-CccChhHHHHhhccC-CCCcEEEEecCChHHHHH
Q 036619          283 IQSSIKGKKNFLVLDDVWDG-DYNKWQPFFRCLKNG-LHGSKILVTTRNESVARM  335 (352)
Q Consensus       283 l~~~l~~kr~LlVlDdvw~~-~~~~~~~l~~~l~~~-~~gs~IivTTR~~~va~~  335 (352)
                      |...|-.++-+|+||.--.. |...-..+...+..- ..|..||++|.+.+.+..
T Consensus       175 iAraL~~~p~lLlLDEPts~LD~~~~~~l~~~l~~l~~~g~tviivtHd~~~~~~  229 (267)
T 2zu0_C          175 ILQMAVLEPELCILDESDSGLDIDALKVVADGVNSLRDGKRSFIIVTHYQRILDY  229 (267)
T ss_dssp             HHHHHHHCCSEEEEESTTTTCCHHHHHHHHHHHHTTCCSSCEEEEECSSGGGGGT
T ss_pred             HHHHHHhCCCEEEEeCCCCCCCHHHHHHHHHHHHHHHhcCCEEEEEeeCHHHHHh
Confidence            34444556668999987543 323344455555542 347779999998776543

>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=94.64  E-value=0.014  Score=49.05  Aligned_cols=122  Identities=16%  Similarity=0.150  Sum_probs=62.2

Q ss_pred             EEEEEEecCCCcHHHHHHHHHhhhhhh-c--cC---------CeEEEEEeCC----CCCHHH----------------HH
Q 036619          212 QVISLVGLGGIGKTTLAQLAYNNDEVK-R--NF---------EKVIWVCVSD----TFDQIR----------------IA  259 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~-~--~F---------~~~~wv~vs~----~~~~~~----------------~~  259 (352)
                      .+++|+|+.|+|||||.+.++.-.... .  .|         ..+.++.-..    ..++.+                -.
T Consensus        36 e~~~iiG~NGsGKSTLlk~l~Gl~~p~~G~I~~~g~~~~~~~~~i~~v~q~~~~~~~~tv~enl~~~~~~~~~~~~~~~~  115 (214)
T 1sgw_A           36 NVVNFHGPNGIGKTTLLKTISTYLKPLKGEIIYNGVPITKVKGKIFFLPEEIIVPRKISVEDYLKAVASLYGVKVNKNEI  115 (214)
T ss_dssp             CCEEEECCTTSSHHHHHHHHTTSSCCSEEEEEETTEEGGGGGGGEEEECSSCCCCTTSBHHHHHHHHHHHTTCCCCHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCCCeEEEECCEEhhhhcCcEEEEeCCCcCCCCCCHHHHHHHHHHhcCCchHHHHH
Confidence            578999999999999999987631110 0  00         1133332111    112211                12


Q ss_pred             HHHHHHhCCCCCC-----cccHHHHHHHHHHhcCCceEEEEecCCCCC-CccChhHHHHhhccC-CCCcEEEEecCChHH
Q 036619          260 KAIIEGLGKSASG-----LNEFQSLMSRIQSSIKGKKNFLVLDDVWDG-DYNKWQPFFRCLKNG-LHGSKILVTTRNESV  332 (352)
Q Consensus       260 ~~i~~~l~~~~~~-----~~~~~~~~~~l~~~l~~kr~LlVlDdvw~~-~~~~~~~l~~~l~~~-~~gs~IivTTR~~~v  332 (352)
                      ..+++.++.....     .+.-+.-.-.|...|-.++=+|+||.--.. |...-..+...+... ..|..||++|.+.+.
T Consensus       116 ~~~l~~~gl~~~~~~~~~LSgGqkqrv~laraL~~~p~lllLDEPts~LD~~~~~~l~~~l~~~~~~g~tiiivtHd~~~  195 (214)
T 1sgw_A          116 MDALESVEVLDLKKKLGELSQGTIRRVQLASTLLVNAEIYVLDDPVVAIDEDSKHKVLKSILEILKEKGIVIISSREELS  195 (214)
T ss_dssp             HHHHHHTTCCCTTSBGGGSCHHHHHHHHHHHHTTSCCSEEEEESTTTTSCTTTHHHHHHHHHHHHHHHSEEEEEESSCCT
T ss_pred             HHHHHHcCCCcCCCChhhCCHHHHHHHHHHHHHHhCCCEEEEECCCcCCCHHHHHHHHHHHHHHHhCCCEEEEEeCCHHH
Confidence            3344444432211     111222223344555667778999987543 334444555555432 125568888877554


Q ss_pred             H
Q 036619          333 A  333 (352)
Q Consensus       333 a  333 (352)
                      +
T Consensus       196 ~  196 (214)
T 1sgw_A          196 Y  196 (214)
T ss_dssp             T
T ss_pred             H
Confidence            3

>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=94.63  E-value=0.017  Score=49.70  Aligned_cols=24  Identities=42%  Similarity=0.549  Sum_probs=21.1

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      -.+++|+|+.|+|||||.+.+..-
T Consensus        35 Ge~~~i~G~nGsGKSTLl~~l~Gl   58 (247)
T 2ff7_A           35 GEVIGIVGRSGSGKSTLTKLIQRF   58 (247)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcC
Confidence            358999999999999999998753

>3d3q_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2; 2.70A {Staphylococcus epidermidis atcc 12228}

Probab=94.62  E-value=0.02  Score=51.56  Aligned_cols=23  Identities=30%  Similarity=0.326  Sum_probs=21.0

Q ss_pred             EEEEEEecCCCcHHHHHHHHHhh
Q 036619          212 QVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .+|.|.|+.|+||||||..+...
T Consensus         8 ~lI~I~GptgSGKTtla~~La~~   30 (340)
T 3d3q_A            8 FLIVIVGPTASGKTELSIEVAKK   30 (340)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHH
T ss_pred             ceEEEECCCcCcHHHHHHHHHHH
Confidence            58999999999999999998864

>1ak2_A Adenylate kinase isoenzyme-2; nucleoside monophosphate kinase, phosphotransferase; 1.92A {Bos taurus} SCOP: c.37.1.1 g.41.2.1 PDB: 2ak2_A 2c9y_A*

Probab=94.61  E-value=0.02  Score=48.67  Aligned_cols=24  Identities=33%  Similarity=0.217  Sum_probs=21.2

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ...|.|.|+.|+||||+|+.+...
T Consensus        16 ~~~I~l~G~~GsGKsT~a~~La~~   39 (233)
T 1ak2_A           16 GVRAVLLGPPGAGKGTQAPKLAKN   39 (233)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHH
Confidence            457889999999999999999874

>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=94.61  E-value=0.018  Score=49.93  Aligned_cols=23  Identities=30%  Similarity=0.491  Sum_probs=20.9

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYN  233 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~  233 (352)
                      -.+++|+|+.|+|||||.+.++.
T Consensus        41 Gei~~l~G~NGsGKSTLlk~l~G   63 (256)
T 1vpl_A           41 GEIFGLIGPNGAGKTTTLRIIST   63 (256)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTT
T ss_pred             CcEEEEECCCCCCHHHHHHHHhc
Confidence            36899999999999999999976

>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase; HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A* 3l0p_A*

Probab=94.59  E-value=0.02  Score=48.37  Aligned_cols=22  Identities=32%  Similarity=0.424  Sum_probs=19.7

Q ss_pred             EEEEEecCCCcHHHHHHHHHhh
Q 036619          213 VISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .|.|.|++|+||||+++.+...
T Consensus         2 ~I~l~G~~GsGKsT~a~~La~~   23 (223)
T 2xb4_A            2 NILIFGPNGSGKGTQGNLVKDK   23 (223)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            5789999999999999999864

>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP; 2.37A {Humulus lupulus}

Probab=94.58  E-value=0.024  Score=50.98  Aligned_cols=24  Identities=25%  Similarity=0.362  Sum_probs=21.6

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..+|.|+|+.|+|||||+..+...
T Consensus        40 ~~lIvI~GPTgsGKTtLa~~LA~~   63 (339)
T 3a8t_A           40 EKLLVLMGATGTGKSRLSIDLAAH   63 (339)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHTT
T ss_pred             CceEEEECCCCCCHHHHHHHHHHH
Confidence            468999999999999999999874

>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=94.56  E-value=0.033  Score=52.04  Aligned_cols=51  Identities=22%  Similarity=0.277  Sum_probs=35.0

Q ss_pred             CccccccchHHHHHHHHcCc--------cccCCCCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          184 GEVCGRVDEKSELFSKLLCE--------SSEQQNGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~--------~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..++|.++.++.|...+...        ........+-+.++|++|+||||+|+.+...
T Consensus        15 ~~IvGqe~ak~~l~~av~~~~~r~~~~~~~~~~~~~~~iLl~GppGtGKT~lar~lA~~   73 (444)
T 1g41_A           15 QHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKL   73 (444)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHHHHSCTTTTTTCCCCCEEEECCTTSSHHHHHHHHHHH
T ss_pred             HHhCCHHHHHHHHHHHHHHHHhhhccccccccccCCceEEEEcCCCCCHHHHHHHHHHH
Confidence            45788888777776655321        0000113456889999999999999999874

>2ixe_A Antigen peptide transporter 1; ABC ATPase, hydrolase; HET: ATP; 2.0A {Rattus norvegicus} PDB: 2ixg_A* 2ixf_A* 1jj7_A*

Probab=94.56  E-value=0.018  Score=50.30  Aligned_cols=52  Identities=21%  Similarity=0.260  Sum_probs=32.6

Q ss_pred             HHHhcCCceEEEEecCCCCC-CccChhHHHHhhccCC--CCcEEEEecCChHHHH
Q 036619          283 IQSSIKGKKNFLVLDDVWDG-DYNKWQPFFRCLKNGL--HGSKILVTTRNESVAR  334 (352)
Q Consensus       283 l~~~l~~kr~LlVlDdvw~~-~~~~~~~l~~~l~~~~--~gs~IivTTR~~~va~  334 (352)
                      |...|-.++-+|+||.--.. |...-..+...+....  .|..||++|.+.+.+.
T Consensus       167 lAraL~~~p~lllLDEPts~LD~~~~~~i~~~l~~~~~~~g~tviivtHd~~~~~  221 (271)
T 2ixe_A          167 LARALIRKPRLLILDNATSALDAGNQLRVQRLLYESPEWASRTVLLITQQLSLAE  221 (271)
T ss_dssp             HHHHHTTCCSEEEEESTTTTCCHHHHHHHHHHHHHCTTTTTSEEEEECSCHHHHT
T ss_pred             HHHHHhcCCCEEEEECCccCCCHHHHHHHHHHHHHHHhhcCCEEEEEeCCHHHHH
Confidence            44455566778899987543 2233444555555432  3777999999877664

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=94.52  E-value=0.041  Score=46.75  Aligned_cols=116  Identities=19%  Similarity=0.221  Sum_probs=61.4

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCCC--------------------
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSA--------------------  270 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~--------------------  270 (352)
                      -.++.|.|.+|+|||||+..+..... . .=..++|++....  ...+...+ ..++...                    
T Consensus        23 G~~~~i~G~~GsGKTtl~~~~~~~~~-~-~~~~v~~~~~e~~--~~~~~~~~-~~~g~~~~~~~~~~~l~~~~~~~~~~~   97 (247)
T 2dr3_A           23 RNVVLLSGGPGTGKTIFSQQFLWNGL-K-MGEPGIYVALEEH--PVQVRQNM-AQFGWDVKPYEEKGMFAMVDAFTAGIG   97 (247)
T ss_dssp             TCEEEEEECTTSSHHHHHHHHHHHHH-H-TTCCEEEEESSSC--HHHHHHHH-HTTTCCCHHHHHHTSEEEEECSTTTTC
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHH-h-cCCeEEEEEccCC--HHHHHHHH-HHcCCCHHHHhhCCcEEEEecchhhcc
Confidence            46889999999999999977765321 2 2235777775543  34443332 2222110                    


Q ss_pred             ----------CCcccHHHHHHHHHHhcC-CceEEEEecCCCCCC---ccChhHHHHhhcc--CCCCcEEEEecCChH
Q 036619          271 ----------SGLNEFQSLMSRIQSSIK-GKKNFLVLDDVWDGD---YNKWQPFFRCLKN--GLHGSKILVTTRNES  331 (352)
Q Consensus       271 ----------~~~~~~~~~~~~l~~~l~-~kr~LlVlDdvw~~~---~~~~~~l~~~l~~--~~~gs~IivTTR~~~  331 (352)
                                ....+..++...+.+.+. .+.-++|+|.+....   ......+...+..  ...|..||+|+....
T Consensus        98 ~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~vviD~~~~l~~~~~~~~~~~l~~l~~~~~~~~~~vi~~~h~~~  174 (247)
T 2dr3_A           98 KSKEYEKYIVHDLTDIREFIEVLRQAIRDINAKRVVVDSVTTLYINKPAMARSIILQLKRVLAGTGCTSIFVSQVSV  174 (247)
T ss_dssp             C--CCCSCBCSCCSSHHHHHHHHHHHHHHHTCCEEEEETSGGGTTTCGGGHHHHHHHHHHHHHHTTCEEEEEEECC-
T ss_pred             cccccccccccCccCHHHHHHHHHHHHHHhCCCEEEECCchHhhcCCHHHHHHHHHHHHHHHHHCCCeEEEEecCCC
Confidence                      011244555666666553 234489999985431   1122222222211  123667888876543

>2ghi_A Transport protein; multidrug resistance protein, MDR, structural genomics, structural genomics consortium, SGC; 2.20A {Plasmodium yoelii yoelii str}

Probab=94.52  E-value=0.019  Score=49.86  Aligned_cols=24  Identities=42%  Similarity=0.552  Sum_probs=21.2

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      -.+++|+|+.|+|||||.+.+..-
T Consensus        46 Ge~~~i~G~nGsGKSTLl~~l~Gl   69 (260)
T 2ghi_A           46 GTTCALVGHTGSGKSTIAKLLYRF   69 (260)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcc
Confidence            358999999999999999998753

>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=94.50  E-value=0.019  Score=49.44  Aligned_cols=22  Identities=36%  Similarity=0.561  Sum_probs=20.2

Q ss_pred             EEEEEEecCCCcHHHHHHHHHh
Q 036619          212 QVISLVGLGGIGKTTLAQLAYN  233 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~  233 (352)
                      .+++|+|+.|+|||||.+.+..
T Consensus        27 e~~~liG~NGsGKSTLlk~l~G   48 (249)
T 2qi9_C           27 EILHLVGPNGAGKSTLLARMAG   48 (249)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTT
T ss_pred             CEEEEECCCCCcHHHHHHHHhC
Confidence            5899999999999999999875

>1ltq_A Polynucleotide kinase; phosphatase, alpha/beta, P-loop, transferase; HET: ADP; 2.33A {Enterobacteria phage T4} SCOP: c.108.1.9 c.37.1.1 PDB: 1rc8_A* 1rpz_A* 1rrc_A* 2ia5_A

Probab=94.50  E-value=0.022  Score=50.30  Aligned_cols=22  Identities=32%  Similarity=0.418  Sum_probs=20.2

Q ss_pred             EEEEEEecCCCcHHHHHHHHHh
Q 036619          212 QVISLVGLGGIGKTTLAQLAYN  233 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~  233 (352)
                      .+|.|.|++|+||||+|+.+..
T Consensus         3 ~~I~l~G~~GsGKST~a~~L~~   24 (301)
T 1ltq_A            3 KIILTIGCPGSGKSTWAREFIA   24 (301)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            5789999999999999999886

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=94.49  E-value=0.025  Score=49.11  Aligned_cols=111  Identities=14%  Similarity=0.196  Sum_probs=55.2

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEE-EeCCCCCHHHHHHHHHH--HhCCCCCCcccHHHHHHHHHHh
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWV-CVSDTFDQIRIAKAIIE--GLGKSASGLNEFQSLMSRIQSS  286 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv-~vs~~~~~~~~~~~i~~--~l~~~~~~~~~~~~~~~~l~~~  286 (352)
                      .-.+++|+|+.|+|||||.+.+..-..  ..+...+++ ...-.+-.... ..++.  .++.   ..   ..+...+...
T Consensus        24 ~g~~v~i~Gp~GsGKSTll~~l~g~~~--~~~~G~I~~~g~~i~~~~~~~-~~~v~q~~~gl---~~---~~l~~~la~a   94 (261)
T 2eyu_A           24 KMGLILVTGPTGSGKSTTIASMIDYIN--QTKSYHIITIEDPIEYVFKHK-KSIVNQREVGE---DT---KSFADALRAA   94 (261)
T ss_dssp             SSEEEEEECSTTCSHHHHHHHHHHHHH--HHCCCEEEEEESSCCSCCCCS-SSEEEEEEBTT---TB---SCHHHHHHHH
T ss_pred             CCCEEEEECCCCccHHHHHHHHHHhCC--CCCCCEEEEcCCcceeecCCc-ceeeeHHHhCC---CH---HHHHHHHHHH
Confidence            357899999999999999999886422  111223322 21100000000 00000  0000   01   1224455555


Q ss_pred             cCCceEEEEecCCCCCCccChhHHHHhhccCCCCcEEEEecCChHHHH
Q 036619          287 IKGKKNFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKILVTTRNESVAR  334 (352)
Q Consensus       287 l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTTR~~~va~  334 (352)
                      |..++=+|++|..-  +.+....+....   ..|.-|++||.+.+++.
T Consensus        95 L~~~p~illlDEp~--D~~~~~~~l~~~---~~g~~vl~t~H~~~~~~  137 (261)
T 2eyu_A           95 LREDPDVIFVGEMR--DLETVETALRAA---ETGHLVFGTLHTNTAID  137 (261)
T ss_dssp             HHHCCSEEEESCCC--SHHHHHHHHHHH---HTTCEEEEEECCSSHHH
T ss_pred             HhhCCCEEEeCCCC--CHHHHHHHHHHH---ccCCEEEEEeCcchHHH
Confidence            55566688889885  223332322222   23667888888765443

>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=94.49  E-value=0.027  Score=44.79  Aligned_cols=23  Identities=26%  Similarity=0.379  Sum_probs=20.3

Q ss_pred             EEEEEEecCCCcHHHHHHHHHhh
Q 036619          212 QVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..++|+|.+|+|||||.+.+...
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            56889999999999999988764

>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=94.48  E-value=0.027  Score=48.55  Aligned_cols=26  Identities=31%  Similarity=0.317  Sum_probs=22.4

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ....++.+.|.||+|||||+..+...
T Consensus        12 ~~~~i~~~~GkgGvGKTTl~~~La~~   37 (262)
T 1yrb_A           12 MASMIVVFVGTAGSGKTTLTGEFGRY   37 (262)
T ss_dssp             CCCEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             cceEEEEEeCCCCCCHHHHHHHHHHH
Confidence            45788899999999999999888753

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=94.48  E-value=0.09  Score=57.80  Aligned_cols=86  Identities=17%  Similarity=0.197  Sum_probs=58.1

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCC-----CcccHHHHHHHHH
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSAS-----GLNEFQSLMSRIQ  284 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~-----~~~~~~~~~~~l~  284 (352)
                      .-.++.|.|++|+||||||.++.....  ..-..++|++....++...     ++.++....     ...+.+++...++
T Consensus       382 ~G~lilI~G~pGsGKTtLaLqia~~~a--~~G~~vlyis~E~s~~~~~-----a~~lGvd~~~L~I~~~~~~e~il~~~~  454 (2050)
T 3cmu_A          382 MGRIVEIYGPESSGKTTLTLQVIAAAQ--REGKTCAFIDAEHALDPIY-----ARKLGVDIDNLLCSQPDTGEQALEICD  454 (2050)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHHHHHH--TTTCCEEEECTTSCCCHHH-----HHHTTCCTTTCEEECCSSHHHHHHHHH
T ss_pred             CCcEEEEEeCCCCCHHHHHHHHHHHHH--hcCCeEEEEEcCCCHHHHH-----HHHcCCCHHHeEEeCCCCHHHHHHHHH
Confidence            357899999999999999988876532  2224688998888776542     455554322     2345666666666


Q ss_pred             Hhc-CCceEEEEecCCCCC
Q 036619          285 SSI-KGKKNFLVLDDVWDG  302 (352)
Q Consensus       285 ~~l-~~kr~LlVlDdvw~~  302 (352)
                      ... +.+.-+||+|-+...
T Consensus       455 ~lv~~~~~~lIVIDSL~al  473 (2050)
T 3cmu_A          455 ALARSGAVDVIVVDSVAAL  473 (2050)
T ss_dssp             HHHHHTCCSEEEESCGGGC
T ss_pred             HHHHhcCCcEEEECCHHHh
Confidence            554 345569999998543

>2yz2_A Putative ABC transporter ATP-binding protein TM_0; cobalt transport, TM02 hydrolase, inner membrane, membrane, nucleotide-binding; 2.30A {Thermotoga maritima}

Probab=94.46  E-value=0.02  Score=49.90  Aligned_cols=23  Identities=30%  Similarity=0.401  Sum_probs=20.8

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYN  233 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~  233 (352)
                      -.+++|+|+.|+|||||.+.++.
T Consensus        33 Ge~~~liG~nGsGKSTLl~~i~G   55 (266)
T 2yz2_A           33 GECLLVAGNTGSGKSTLLQIVAG   55 (266)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCcHHHHHHHHhC
Confidence            35899999999999999999875

>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=94.45  E-value=0.081  Score=57.36  Aligned_cols=86  Identities=17%  Similarity=0.197  Sum_probs=57.7

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCC-----CcccHHHHHHHHH
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSAS-----GLNEFQSLMSRIQ  284 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~-----~~~~~~~~~~~l~  284 (352)
                      .-+++.|.|.+|+||||||.++.....  ..=..++|++....++...     ++.++....     ...+.+++...+.
T Consensus       382 ~G~lilI~G~pGsGKTtLaLq~a~~~~--~~G~~vlyis~E~s~~~~~-----a~~lGvd~~~L~i~~~~~~e~~l~~l~  454 (1706)
T 3cmw_A          382 MGRIVEIYGPESSGKTTLTLQVIAAAQ--REGKTCAFIDAEHALDPIY-----ARKLGVDIDNLLCSQPDTGEQALEICD  454 (1706)
T ss_dssp             TTSEEEEECSTTSSHHHHHHHHHHHHH--HTTCCEEEECTTSCCCHHH-----HHHTTCCGGGCEEECCSSHHHHHHHHH
T ss_pred             CCcEEEEEeCCCCCHHHHHHHHHHHHH--HhCCCeEEEEccCchHHHH-----HHHcCCCHHHeEEcCCCCHHHHHHHHH
Confidence            357889999999999999988776432  2234789998888777542     455554321     1234566666666


Q ss_pred             Hhc-CCceEEEEecCCCCC
Q 036619          285 SSI-KGKKNFLVLDDVWDG  302 (352)
Q Consensus       285 ~~l-~~kr~LlVlDdvw~~  302 (352)
                      ... +.+.-+||+|-+...
T Consensus       455 ~lv~~~~~~lVVIDSL~al  473 (1706)
T 3cmw_A          455 ALARSGAVDVIVVDSVAAL  473 (1706)
T ss_dssp             HHHHHTCCSEEEESCSTTC
T ss_pred             HHHHhcCCCEEEECCHHHh
Confidence            554 345569999998653

>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative iron chelatin ABC transporter, nucleotide binding domain; 2.40A {Haemophilus influenzae}

Probab=94.45  E-value=0.02  Score=49.47  Aligned_cols=23  Identities=30%  Similarity=0.585  Sum_probs=20.8

Q ss_pred             EEEEEEecCCCcHHHHHHHHHhh
Q 036619          212 QVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .+++|+|+.|+|||||.+.+..-
T Consensus        32 e~~~l~G~nGsGKSTLl~~l~Gl   54 (253)
T 2nq2_C           32 DILAVLGQNGCGKSTLLDLLLGI   54 (253)
T ss_dssp             CEEEEECCSSSSHHHHHHHHTTS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            58999999999999999999863

>2iw3_A Elongation factor 3A; acetylation, ATP-binding, protein biosynthesis, nucleotide-binding, phosphorylation, RNA- binding, rRNA-binding; HET: ADP; 2.4A {Saccharomyces cerevisiae} PDB: 2iwh_A* 2ix3_A 2ix8_A

Probab=94.45  E-value=0.22  Score=51.21  Aligned_cols=122  Identities=17%  Similarity=0.210  Sum_probs=66.2

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhhhhhhccCC---eEEEEEeCCCC-------CHH-----------HHHHHHHHHhCCC
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNNDEVKRNFE---KVIWVCVSDTF-------DQI-----------RIAKAIIEGLGKS  269 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~---~~~wv~vs~~~-------~~~-----------~~~~~i~~~l~~~  269 (352)
                      -.+++|+|+.|+|||||.+.+..- .+. .|+   ..-.+.+.+..       ++.           .-...+++.++..
T Consensus       461 Ge~v~LiGpNGsGKSTLLk~LagG-~i~-g~~~~~~~~~~~v~q~~~~~~~~ltv~e~l~~~~~~~~~~v~~~L~~lgL~  538 (986)
T 2iw3_A          461 ARRYGICGPNGCGKSTLMRAIANG-QVD-GFPTQEECRTVYVEHDIDGTHSDTSVLDFVFESGVGTKEAIKDKLIEFGFT  538 (986)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHHT-CST-TCCCTTTSCEEETTCCCCCCCTTSBHHHHHHTTCSSCHHHHHHHHHHTTCC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC-CcC-CCccccceeEEEEcccccccccCCcHHHHHHHhhcCHHHHHHHHHHHcCCC
Confidence            358899999999999999999841 121 111   00112333221       111           2233445555442


Q ss_pred             C-------CCcccHHHHHHHHHHhcCCceEEEEecCCCCC-CccChhHHHHhhccCCCCcEEEEecCChHHHHHh
Q 036619          270 A-------SGLNEFQSLMSRIQSSIKGKKNFLVLDDVWDG-DYNKWQPFFRCLKNGLHGSKILVTTRNESVARMM  336 (352)
Q Consensus       270 ~-------~~~~~~~~~~~~l~~~l~~kr~LlVlDdvw~~-~~~~~~~l~~~l~~~~~gs~IivTTR~~~va~~~  336 (352)
                      .       ...+..+.-.-.|...|-.+.=+|+||.--+. |...-..+...+..  .|..||++|.+...+..+
T Consensus       539 ~~~~~~~~~~LSGGqkQRvaLArAL~~~P~lLLLDEPTs~LD~~~~~~l~~~L~~--~g~tvIivSHdl~~l~~~  611 (986)
T 2iw3_A          539 DEMIAMPISALSGGWKMKLALARAVLRNADILLLDEPTNHLDTVNVAWLVNYLNT--CGITSITISHDSVFLDNV  611 (986)
T ss_dssp             HHHHHSBGGGCCHHHHHHHHHHHHHHTTCSEEEEESTTTTCCHHHHHHHHHHHHH--SCSEEEEECSCHHHHHHH
T ss_pred             hhhhcCCcccCCHHHHHHHHHHHHHhcCCCEEEEECCccCCCHHHHHHHHHHHHh--CCCEEEEEECCHHHHHHh
Confidence            0       01122222233344555566778999987543 22334456666655  466788899887666543

>2ihy_A ABC transporter, ATP-binding protein; ATPase, ABC cassette, hydrolase; HET: MSE; 1.90A {Staphylococcus aureus}

Probab=94.44  E-value=0.02  Score=50.26  Aligned_cols=24  Identities=38%  Similarity=0.386  Sum_probs=21.1

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      -.+++|+|+.|+|||||.+.+..-
T Consensus        47 Ge~~~liG~NGsGKSTLlk~l~Gl   70 (279)
T 2ihy_A           47 GDKWILYGLNGAGKTTLLNILNAY   70 (279)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CCEEEEECCCCCcHHHHHHHHhCC
Confidence            358999999999999999998763

>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=94.43  E-value=0.019  Score=46.63  Aligned_cols=22  Identities=41%  Similarity=0.483  Sum_probs=19.3

Q ss_pred             EEEEEecCCCcHHHHHHHHHhh
Q 036619          213 VISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      -|+|+|.+|+|||||.+.+...
T Consensus         4 kv~ivG~~gvGKStLl~~l~~~   25 (184)
T 2zej_A            4 KLMIVGNTGSGKTTLLQQLMKT   25 (184)
T ss_dssp             EEEEESCTTSSHHHHHHHHTCC
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            4679999999999999988863

>2fz4_A DNA repair protein RAD25; RECA-like domain, DNA damage recognition domain, DNA binding; HET: DNA; 2.40A {Archaeoglobus fulgidus} SCOP: c.37.1.19

Probab=94.43  E-value=0.12  Score=44.01  Aligned_cols=100  Identities=18%  Similarity=0.192  Sum_probs=53.7

Q ss_pred             EEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCC---C--------CCC-----cccHH
Q 036619          214 ISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGK---S--------ASG-----LNEFQ  277 (352)
Q Consensus       214 i~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~---~--------~~~-----~~~~~  277 (352)
                      +.|+|+.|.|||.+|..+....    . ..++++. ..    ..+..++.+.+..   .        ...     ....+
T Consensus       111 ~ll~~~tG~GKT~~a~~~~~~~----~-~~~liv~-P~----~~L~~q~~~~~~~~~~~~v~~~~g~~~~~~~i~v~T~~  180 (237)
T 2fz4_A          111 GCIVLPTGSGKTHVAMAAINEL----S-TPTLIVV-PT----LALAEQWKERLGIFGEEYVGEFSGRIKELKPLTVSTYD  180 (237)
T ss_dssp             EEEEESSSTTHHHHHHHHHHHS----C-SCEEEEE-SS----HHHHHHHHHHHGGGCGGGEEEESSSCBCCCSEEEEEHH
T ss_pred             EEEEeCCCCCHHHHHHHHHHHc----C-CCEEEEe-CC----HHHHHHHHHHHHhCCCCeEEEEeCCCCCcCCEEEEeHH
Confidence            6689999999999998776532    1 2344443 22    1233333333221   1        000     11234


Q ss_pred             HHHHHHHHhcCCceEEEEecCCCCCCccChhHHHHhhccCCCCcEEEEec
Q 036619          278 SLMSRIQSSIKGKKNFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKILVTT  327 (352)
Q Consensus       278 ~~~~~l~~~l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTT  327 (352)
                      .+..... .+.++--+||+|.+.......+..+...++   ...++++|.
T Consensus       181 ~l~~~~~-~~~~~~~llIiDEaH~l~~~~~~~i~~~~~---~~~~l~LSA  226 (237)
T 2fz4_A          181 SAYVNAE-KLGNRFMLLIFDEVHHLPAESYVQIAQMSI---APFRLGLTA  226 (237)
T ss_dssp             HHHHTHH-HHTTTCSEEEEECSSCCCTTTHHHHHHTCC---CSEEEEEEE
T ss_pred             HHHhhHH-HhcccCCEEEEECCccCCChHHHHHHHhcc---CCEEEEEec
Confidence            4443333 333445699999998865566777666554   233455443

>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding, nucleotide-binding, nucleotidyltransferase, tRNA processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A 3crr_A

Probab=94.41  E-value=0.024  Score=50.64  Aligned_cols=24  Identities=33%  Similarity=0.311  Sum_probs=21.3

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..+|.|+|+.|+||||||+.+...
T Consensus         5 ~~~i~i~GptGsGKTtla~~La~~   28 (323)
T 3crm_A            5 PPAIFLMGPTAAGKTDLAMALADA   28 (323)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHH
Confidence            368999999999999999998864

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=94.41  E-value=0.027  Score=44.19  Aligned_cols=23  Identities=22%  Similarity=0.400  Sum_probs=20.0

Q ss_pred             EEEEEEecCCCcHHHHHHHHHhh
Q 036619          212 QVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .-|.++|.+|+|||||...+...
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            45789999999999999888764

>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=94.40  E-value=0.021  Score=46.96  Aligned_cols=24  Identities=33%  Similarity=0.475  Sum_probs=21.0

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .-.++|+|..|+|||||.+.+...
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            456889999999999999988864

>3zvl_A Bifunctional polynucleotide phosphatase/kinase; hydrolase-transferase complex, base excision repair, BER, non-homologous END-joining, NHEJ; 1.65A {Mus musculus} PDB: 3zvm_A* 3zvn_A* 1yj5_A 3u7e_B* 3u7f_B* 3u7h_B* 3u7g_A*

Probab=94.39  E-value=0.022  Score=53.02  Aligned_cols=26  Identities=31%  Similarity=0.414  Sum_probs=22.9

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ....+|.|+|++|+||||+|+.+...
T Consensus       256 ~~~~lIil~G~pGSGKSTla~~L~~~  281 (416)
T 3zvl_A          256 PNPEVVVAVGFPGAGKSTFIQEHLVS  281 (416)
T ss_dssp             SSCCEEEEESCTTSSHHHHHHHHTGG
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHh
Confidence            34689999999999999999998864

>3exa_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2, protein structure initiative; 2.30A {Bacillus halodurans} PDB: 2qgn_A

Probab=94.36  E-value=0.027  Score=50.07  Aligned_cols=24  Identities=21%  Similarity=0.403  Sum_probs=21.1

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..+|.|+|+.|+||||||..+...
T Consensus         3 ~~~i~i~GptgsGKt~la~~La~~   26 (322)
T 3exa_A            3 EKLVAIVGPTAVGKTKTSVMLAKR   26 (322)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHT
T ss_pred             CcEEEEECCCcCCHHHHHHHHHHh
Confidence            368899999999999999998763

>3hjn_A DTMP kinase, thymidylate kinase; ATP-binding, nucleotide biosynth nucleotide-binding, transferase, structural genomics; HET: ADP TYD; 2.10A {Thermotoga maritima}

Probab=94.34  E-value=0.12  Score=42.74  Aligned_cols=84  Identities=20%  Similarity=0.215  Sum_probs=43.2

Q ss_pred             EEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCC-----cccHHHHHHHHHHhc
Q 036619          213 VISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSASG-----LNEFQSLMSRIQSSI  287 (352)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~-----~~~~~~~~~~l~~~l  287 (352)
                      .|+|=|.-|+||||.++.+++.  .+.....+.+..-.........++.++..-...+..     ..+..+....+...|
T Consensus         2 fI~~EG~DGsGKsTq~~~L~~~--L~~~g~~v~~treP~~t~~~~~ir~~l~~~~~~~~~~~ll~~a~r~~~~~~I~~~L   79 (197)
T 3hjn_A            2 FITFEGIDGSGKSTQIQLLAQY--LEKRGKKVILKREPGGTETGEKIRKILLEEEVTPKAELFLFLASRNLLVTEIKQYL   79 (197)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH--HHHTTCCEEEEESSCSSHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH--HHHCCCcEEEEECCCCCcHHHHHHHHhhcccCChHHHHHHHHHHHHHHHHHHHHHH
Confidence            3677899999999999999874  333322333333333223334444444321111000     011233445566666


Q ss_pred             CCceEEEEecCC
Q 036619          288 KGKKNFLVLDDV  299 (352)
Q Consensus       288 ~~kr~LlVlDdv  299 (352)
                      ...+ .+|.|-.
T Consensus        80 ~~g~-~Vi~DRy   90 (197)
T 3hjn_A           80 SEGY-AVLLDRY   90 (197)
T ss_dssp             TTTC-EEEEESC
T ss_pred             HCCC-eEEeccc
Confidence            5554 4566754

>3sop_A Neuronal-specific septin-3; hydrolase; HET: GDP; 2.88A {Homo sapiens}

Probab=94.34  E-value=0.025  Score=49.37  Aligned_cols=22  Identities=36%  Similarity=0.656  Sum_probs=19.9

Q ss_pred             EEEEEecCCCcHHHHHHHHHhh
Q 036619          213 VISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .++|+|+.|+|||||.+.++.-
T Consensus         4 ~v~lvG~nGaGKSTLln~L~g~   25 (270)
T 3sop_A            4 NIMVVGQSGLGKSTLVNTLFKS   25 (270)
T ss_dssp             EEEEEESSSSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5789999999999999999864

>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=94.33  E-value=0.03  Score=49.65  Aligned_cols=25  Identities=32%  Similarity=0.178  Sum_probs=22.0

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ...+|.|+|+.|+||||||..+...
T Consensus         9 ~~~~i~i~GptgsGKt~la~~La~~   33 (316)
T 3foz_A            9 LPKAIFLMGPTASGKTALAIELRKI   33 (316)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCcEEEEECCCccCHHHHHHHHHHh
Confidence            4578999999999999999998864

>2v9p_A Replication protein E1; AAA+ molecular motor, DNA replication, DNA translocation, nucleotide-binding, DNA-binding; 3.00A {Bovine papillomavirus type 1} PDB: 2gxa_A*

Probab=94.30  E-value=0.023  Score=50.42  Aligned_cols=24  Identities=17%  Similarity=0.308  Sum_probs=21.2

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHh
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYN  233 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~  233 (352)
                      .-.+++|+|+.|.|||||++.+..
T Consensus       125 ~Ge~vaIvGpsGsGKSTLl~lL~g  148 (305)
T 2v9p_A          125 KKNCLAFIGPPNTGKSMLCNSLIH  148 (305)
T ss_dssp             TCSEEEEECSSSSSHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhh
Confidence            346899999999999999998875

>3bgw_A DNAB-like replicative helicase; ATPase, replication; 3.91A {Bacillus phage SPP1}

Probab=94.29  E-value=0.32  Score=45.56  Aligned_cols=40  Identities=15%  Similarity=0.048  Sum_probs=28.6

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCC
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSD  251 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~  251 (352)
                      .-.++.|.|.+|+||||||..+..+....  =..++|++...
T Consensus       196 ~G~liiIaG~pG~GKTtlal~ia~~~a~~--g~~vl~fSlEm  235 (444)
T 3bgw_A          196 RRNFVLIAARPSMGKTAFALKQAKNMSDN--DDVVNLHSLEM  235 (444)
T ss_dssp             SSCEEEEEECSSSSHHHHHHHHHHHHHHT--TCEEEEECSSS
T ss_pred             CCcEEEEEeCCCCChHHHHHHHHHHHHHc--CCEEEEEECCC
Confidence            34688899999999999998887753332  23566665543

>2qe7_A ATP synthase subunit alpha; blockage of ATP hydrolysis, F1-ATPase, single analysis, thermoalkaliphilic, hydrolase; 3.06A {Bacillus SP} PDB: 1sky_B

Probab=94.29  E-value=0.098  Score=49.34  Aligned_cols=96  Identities=17%  Similarity=0.176  Sum_probs=55.1

Q ss_pred             HHHHHHcCccccCCCCeEEEEEEecCCCcHHHHH-HHHHhhhhhhccCC-eEEEEEeCCCCC-HHHHHHHHHHHhCCC--
Q 036619          195 ELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLA-QLAYNNDEVKRNFE-KVIWVCVSDTFD-QIRIAKAIIEGLGKS--  269 (352)
Q Consensus       195 ~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa-~~v~~~~~~~~~F~-~~~wv~vs~~~~-~~~~~~~i~~~l~~~--  269 (352)
                      +.++.|..-.     +-..++|+|.+|+|||+|| ..+.+..    +-+ .++++-+.+..+ +..+.+.+...-...  
T Consensus       151 raID~l~Pig-----rGQR~~Ifg~~g~GKT~Lal~~I~~~~----~~dv~~V~~~iGeR~~Ev~~~~~~~~~~g~m~~t  221 (502)
T 2qe7_A          151 KAIDSMIPIG-----RGQRELIIGDRQTGKTTIAIDTIINQK----GQDVICIYVAIGQKQSTVAGVVETLRQHDALDYT  221 (502)
T ss_dssp             HHHHHSSCCB-----TTCBCEEEECSSSCHHHHHHHHHHGGG----SCSEEEEEEEESCCHHHHHHHHHHHHHTTCSTTE
T ss_pred             eecccccccc-----cCCEEEEECCCCCCchHHHHHHHHHhh----cCCcEEEEEECCCcchHHHHHHHHHhhCCCccee
Confidence            4566665433     2345789999999999996 6777742    345 346676776543 445555555422111  


Q ss_pred             -----CCCcccHHH-----HHHHHHHhc--CCceEEEEecCC
Q 036619          270 -----ASGLNEFQS-----LMSRIQSSI--KGKKNFLVLDDV  299 (352)
Q Consensus       270 -----~~~~~~~~~-----~~~~l~~~l--~~kr~LlVlDdv  299 (352)
                           ..+......     ..-.+.+++  +++..||++||+
T Consensus       222 vvV~atad~p~~~r~~a~~~a~tiAEyfrd~G~dVLl~~Dsl  263 (502)
T 2qe7_A          222 IVVTASASEPAPLLYLAPYAGCAMGEYFMYKGKHALVVYDDL  263 (502)
T ss_dssp             EEEEECTTSCHHHHHHHHHHHHHHHHHHHTTTCEEEEEEECH
T ss_pred             EEEEECCCCCHHHHHHHHHHHHHHHHHHHHcCCcEEEEEecH
Confidence                 011111111     112233333  689999999998

>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=94.26  E-value=0.075  Score=50.20  Aligned_cols=96  Identities=16%  Similarity=0.145  Sum_probs=55.1

Q ss_pred             HHHHHHcCccccCCCCeEEEEEEecCCCcHHHHH-HHHHhhhhhhccCC-eEEEEEeCCCCC-HHHHHHHHHHHhCCC--
Q 036619          195 ELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLA-QLAYNNDEVKRNFE-KVIWVCVSDTFD-QIRIAKAIIEGLGKS--  269 (352)
Q Consensus       195 ~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa-~~v~~~~~~~~~F~-~~~wv~vs~~~~-~~~~~~~i~~~l~~~--  269 (352)
                      +.++.|..-.     .-..++|+|.+|+|||+|| ..+.+..    .-+ .++++-+.+..+ +..+.+.+...=...  
T Consensus       164 raID~l~Pig-----rGQR~~I~g~~g~GKT~Lal~~I~~~~----~~dv~~V~~~IGeR~~Ev~e~~~~~~~~g~m~rt  234 (515)
T 2r9v_A          164 KAIDSMIPIG-----RGQRELIIGDRQTGKTAIAIDTIINQK----GQGVYCIYVAIGQKKSAIARIIDKLRQYGAMEYT  234 (515)
T ss_dssp             HHHHHHSCEE-----TTCBEEEEEETTSSHHHHHHHHHHTTT----TTTEEEEEEEESCCHHHHHHHHHHHHHTTGGGGE
T ss_pred             cccccccccc-----cCCEEEEEcCCCCCccHHHHHHHHHhh----cCCcEEEEEEcCCCcHHHHHHHHHHHhCCCccee
Confidence            4567675433     2245789999999999996 6777742    245 356666776543 445555555421110  


Q ss_pred             -----CCCcccHH-----HHHHHHHHhc--CCceEEEEecCC
Q 036619          270 -----ASGLNEFQ-----SLMSRIQSSI--KGKKNFLVLDDV  299 (352)
Q Consensus       270 -----~~~~~~~~-----~~~~~l~~~l--~~kr~LlVlDdv  299 (352)
                           ..+.....     ...-.+.+++  +++..||++||+
T Consensus       235 vvV~atad~p~~~r~~a~~~a~tiAEyfrd~G~dVLli~Dsl  276 (515)
T 2r9v_A          235 TVVVASASDPASLQYIAPYAGCAMGEYFAYSGRDALVVYDDL  276 (515)
T ss_dssp             EEEEECTTSCHHHHHHHHHHHHHHHHHHHTTTCEEEEEEETH
T ss_pred             EEEEECCCCCHHHHHHHHHHHHHHHHHHHHcCCcEEEEeccH
Confidence                 11111111     1112233333  689999999998

>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=94.26  E-value=0.052  Score=46.05  Aligned_cols=26  Identities=31%  Similarity=0.351  Sum_probs=22.8

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhhh
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNND  235 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~~  235 (352)
                      ....|.|.|+.|+||||+++.+....
T Consensus        25 ~g~~i~i~G~~GsGKsT~~~~l~~~l   50 (229)
T 4eaq_A           25 MSAFITFEGPEGSGKTTVINEVYHRL   50 (229)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHH
Confidence            45789999999999999999999753

>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=94.25  E-value=0.19  Score=42.01  Aligned_cols=24  Identities=25%  Similarity=0.266  Sum_probs=21.6

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ...|.|-|+.|+||||+++.+.+.
T Consensus         6 g~~i~~eG~~gsGKsT~~~~l~~~   29 (213)
T 4edh_A            6 GLFVTLEGPEGAGKSTNRDYLAER   29 (213)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             ceEEEEEcCCCCCHHHHHHHHHHH
Confidence            468899999999999999999874

>1a7j_A Phosphoribulokinase; transferase, calvin cycle; 2.50A {Rhodobacter sphaeroides} SCOP: c.37.1.6

Probab=94.22  E-value=0.014  Score=51.62  Aligned_cols=25  Identities=24%  Similarity=0.314  Sum_probs=18.9

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      +..+|+|.|..|+||||+|+.+...
T Consensus         4 ~~~iIgItG~sGSGKSTva~~L~~~   28 (290)
T 1a7j_A            4 KHPIISVTGSSGAGTSTVKHTFDQI   28 (290)
T ss_dssp             TSCEEEEESCC---CCTHHHHHHHH
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHH
Confidence            3568999999999999999998863

>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=94.22  E-value=0.034  Score=52.00  Aligned_cols=25  Identities=44%  Similarity=0.441  Sum_probs=21.7

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .+.+|.|+|.+|+||||++..+...
T Consensus        98 ~~~vI~ivG~~GvGKTTla~~La~~  122 (432)
T 2v3c_C           98 KQNVILLVGIQGSGKTTTAAKLARY  122 (432)
T ss_dssp             SCCCEEEECCSSSSTTHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHH
Confidence            3579999999999999999887764

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=94.20  E-value=0.034  Score=44.98  Aligned_cols=24  Identities=25%  Similarity=0.335  Sum_probs=21.2

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ...|+|+|.+|+|||||.+.+...
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            467889999999999999998864

>2ce2_X GTPase HRAS; signaling protein, guanine nucleotide binding protein, fluor membrane, lipoprotein, palmitate, prenylation; HET: GDP XY2; 1.0A {Homo sapiens} PDB: 2cl0_X* 2cl6_X* 2cl7_X* 2clc_X* 2evw_X* 2cld_X* 1aa9_A* 1ioz_A* 1q21_A* 6q21_A* 3k9l_A* 3k9n_A* 1ctq_A* 1bkd_R 1crp_A* 1crq_A* 1crr_A* 121p_A* 1gnp_A* 1gnq_A* ...

Probab=94.17  E-value=0.028  Score=44.09  Aligned_cols=22  Identities=36%  Similarity=0.646  Sum_probs=19.3

Q ss_pred             EEEEEecCCCcHHHHHHHHHhh
Q 036619          213 VISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      -|.++|.+|+|||||...+...
T Consensus         5 ~i~v~G~~~~GKssl~~~l~~~   26 (166)
T 2ce2_X            5 KLVVVGAGGVGKSALTIQLIQN   26 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4779999999999999888764

>1nlf_A Regulatory protein REPA; replicative DNA helicase structural changes, replication; 1.95A {Escherichia coli} SCOP: c.37.1.11 PDB: 1g8y_A 1olo_A

Probab=94.16  E-value=0.028  Score=49.17  Aligned_cols=118  Identities=19%  Similarity=0.185  Sum_probs=61.1

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhhhhhhc---------cCCeEEEEEeCCCCCHHHHHHH---H------------HHHh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNNDEVKR---------NFEKVIWVCVSDTFDQIRIAKA---I------------IEGL  266 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~---------~F~~~~wv~vs~~~~~~~~~~~---i------------~~~l  266 (352)
                      -.++.|+|++|+|||||+..+..... ..         .-..+++++.....  ..+...   +            ++.+
T Consensus        30 G~i~~i~G~~GsGKTtl~~~l~~~~~-~g~~~~g~~~~~~~~v~~~~~e~~~--~~~~~r~~~~g~~~~~~~~~~~~~~l  106 (279)
T 1nlf_A           30 GTVGALVSPGGAGKSMLALQLAAQIA-GGPDLLEVGELPTGPVIYLPAEDPP--TAIHHRLHALGAHLSAEERQAVADGL  106 (279)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHHHH-TCCCTTCCCCCCCCCEEEEESSSCH--HHHHHHHHHHHTTSCHHHHHHHHHHE
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHHh-cCCCcCCCccCCCccEEEEECCCCH--HHHHHHHHHHHhhcChhhhhhccCce
Confidence            46899999999999999988876322 11         01346677766543  222111   1            2222


Q ss_pred             CCCC-----CCcccHHHHHHHHHHhcCCceEEEEecCCCC--C-CccCh---hHHHHhhccC--CCCcEEEEecCChHHH
Q 036619          267 GKSA-----SGLNEFQSLMSRIQSSIKGKKNFLVLDDVWD--G-DYNKW---QPFFRCLKNG--LHGSKILVTTRNESVA  333 (352)
Q Consensus       267 ~~~~-----~~~~~~~~~~~~l~~~l~~kr~LlVlDdvw~--~-~~~~~---~~l~~~l~~~--~~gs~IivTTR~~~va  333 (352)
                      ....     ....+..+ ...+...+.+ .-+||||.+-.  . +....   ..+...|...  ..|+.||++|.....+
T Consensus       107 ~l~~~~~~~~~~ls~g~-~~~i~~l~~~-~~livlDe~~~~~~~d~~~~~~~~~~~~~L~~l~~~~g~tvi~i~H~~~~~  184 (279)
T 1nlf_A          107 LIQPLIGSLPNIMAPEW-FDGLKRAAEG-RRLMVLDTLRRFHIEEENASGPMAQVIGRMEAIAADTGCSIVFLHHASKGA  184 (279)
T ss_dssp             EECCCTTSCCCTTSHHH-HHHHHHHHTT-CSEEEEECGGGGCCSCTTCHHHHHHHHHHHHHHHHHHCCEEEEEEEC----
T ss_pred             EEeecCCCCcccCCHHH-HHHHHHhcCC-CCEEEECCHHHhcCCCcCchHHHHHHHHHHHHHHHHcCCEEEEEecCCCcc
Confidence            2111     11111222 3445555554 56899999865  2 21112   3444444321  2377799988776543

>2xau_A PRE-mRNA-splicing factor ATP-dependent RNA helica; hydrolase, ribosome biogenesis, ATPase, ATP-binding, OB-fold; HET: ADP; 1.90A {Saccharomyces cerevisiae} PDB: 3kx2_B*

Probab=94.15  E-value=0.45  Score=47.89  Aligned_cols=21  Identities=38%  Similarity=0.436  Sum_probs=17.0

Q ss_pred             EEEEEEecCCCcHHHHHHHHH
Q 036619          212 QVISLVGLGGIGKTTLAQLAY  232 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~  232 (352)
                      .++.|+|+.|.||||++..+.
T Consensus       110 ~~vii~gpTGSGKTtllp~ll  130 (773)
T 2xau_A          110 QIMVFVGETGSGKTTQIPQFV  130 (773)
T ss_dssp             SEEEEECCTTSSHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHH
Confidence            478899999999999665543

>1q3t_A Cytidylate kinase; nucleotide monophosphate kinase, CMP kinase, transferase; NMR {Streptococcus pneumoniae} SCOP: c.37.1.1

Probab=94.12  E-value=0.029  Score=47.72  Aligned_cols=25  Identities=24%  Similarity=0.275  Sum_probs=22.1

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHh
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYN  233 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~  233 (352)
                      ....+|+|.|+.|+||||+++.+..
T Consensus        14 ~~~~~i~i~G~~gsGKst~~~~l~~   38 (236)
T 1q3t_A           14 MKTIQIAIDGPASSGKSTVAKIIAK   38 (236)
T ss_dssp             CCCCEEEEECSSCSSHHHHHHHHHH
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHHH
Confidence            4467899999999999999998876

>1z2a_A RAS-related protein RAB-23; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 1.90A {Mus musculus} SCOP: c.37.1.8 PDB: 1z22_A*

Probab=94.10  E-value=0.037  Score=43.65  Aligned_cols=24  Identities=25%  Similarity=0.411  Sum_probs=20.5

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .--|.|+|.+|+|||||...+.+.
T Consensus         5 ~~~i~v~G~~~~GKssl~~~l~~~   28 (168)
T 1z2a_A            5 AIKMVVVGNGAVGKSSMIQRYCKG   28 (168)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHC
T ss_pred             eEEEEEECcCCCCHHHHHHHHHcC
Confidence            455779999999999999988764

>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=94.06  E-value=0.044  Score=44.30  Aligned_cols=25  Identities=36%  Similarity=0.356  Sum_probs=21.4

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ....|.|+|.+|+|||||...+.+.
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            3567789999999999999988864

>2pjz_A Hypothetical protein ST1066; ATP binding protein, structural genomics, NPPSFA; 1.90A {Sulfolobus tokodaii}

Probab=94.05  E-value=0.027  Score=48.92  Aligned_cols=22  Identities=32%  Similarity=0.471  Sum_probs=20.3

Q ss_pred             EEEEEEecCCCcHHHHHHHHHh
Q 036619          212 QVISLVGLGGIGKTTLAQLAYN  233 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~  233 (352)
                      .+++|+|+.|+|||||.+.+..
T Consensus        31 e~~~i~G~NGsGKSTLlk~l~G   52 (263)
T 2pjz_A           31 EKVIILGPNGSGKTTLLRAISG   52 (263)
T ss_dssp             SEEEEECCTTSSHHHHHHHHTT
T ss_pred             EEEEEECCCCCCHHHHHHHHhC
Confidence            4899999999999999999985

>2ocp_A DGK, deoxyguanosine kinase; protein-nucleotide complex, transferase; HET: DTP; 2.80A {Homo sapiens} SCOP: c.37.1.1

Probab=93.98  E-value=0.038  Score=47.14  Aligned_cols=24  Identities=25%  Similarity=0.354  Sum_probs=21.5

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ...|.|.|..|+||||+++.+...
T Consensus         2 ~~~i~~~G~~g~GKtt~~~~l~~~   25 (241)
T 2ocp_A            2 PRRLSIEGNIAVGKSTFVKLLTKT   25 (241)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHH
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHHH
Confidence            467999999999999999999874

>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=93.96  E-value=0.033  Score=49.83  Aligned_cols=25  Identities=40%  Similarity=0.492  Sum_probs=22.5

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ...++.|+|+.|.|||||.+.+...
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            4789999999999999999999854

>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=93.96  E-value=0.031  Score=51.24  Aligned_cols=24  Identities=29%  Similarity=0.158  Sum_probs=21.7

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHh
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYN  233 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~  233 (352)
                      ...+++|+|+.|+|||||++.+..
T Consensus       168 ~~~~i~l~G~~GsGKSTl~~~l~~  191 (377)
T 1svm_A          168 KKRYWLFKGPIDSGKTTLAAALLE  191 (377)
T ss_dssp             TCCEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHh
Confidence            456899999999999999999986

>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=93.93  E-value=0.048  Score=50.88  Aligned_cols=98  Identities=12%  Similarity=0.111  Sum_probs=55.4

Q ss_pred             HHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCC----eEEEEEeCCCC-CHHHHHHHHHHHhCCC
Q 036619          195 ELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFE----KVIWVCVSDTF-DQIRIAKAIIEGLGKS  269 (352)
Q Consensus       195 ~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~----~~~wv~vs~~~-~~~~~~~~i~~~l~~~  269 (352)
                      +.++.|..-..     -..++|+|..|+|||+|+..+.+....  +-+    .++++-+.+.. .+..+.+++...=...
T Consensus       140 raID~l~pigr-----GQr~~Ifgg~G~GKt~L~~~Ia~~~~~--~~d~~~~~~V~~~iGeR~~Ev~e~~~~~~~~g~~~  212 (465)
T 3vr4_D          140 SAIDHLNTLVR-----GQKLPVFSGSGLPHKELAAQIARQATV--LDSSDDFAVVFAAIGITFEEAEFFMEDFRQTGAID  212 (465)
T ss_dssp             HHHHTTSCCBT-----TCBCCEEECTTSCHHHHHHHHHHHCBC--SSCSSCEEEEEEEEEECHHHHHHHHHHHHHHTGGG
T ss_pred             eEEeccccccc-----CCEEEEeCCCCcChHHHHHHHHHHHHh--ccCCCceEEEEEEecCCcHHHHHHHHHHhhcCCcc
Confidence            45666654331     234678999999999999988875332  223    56666666543 3455556554431010


Q ss_pred             -------CCCcccH-----HHHHHHHHHhc---CCceEEEEecCC
Q 036619          270 -------ASGLNEF-----QSLMSRIQSSI---KGKKNFLVLDDV  299 (352)
Q Consensus       270 -------~~~~~~~-----~~~~~~l~~~l---~~kr~LlVlDdv  299 (352)
                             ..+....     ....-.+.+++   +++..||++||+
T Consensus       213 rtvvV~atsd~p~~~r~~a~~~a~tiAEyfrd~~G~~VLl~~Dsl  257 (465)
T 3vr4_D          213 RSVMFMNLANDPAIERIATPRMALTAAEYLAYEKGMHVLVIMTDM  257 (465)
T ss_dssp             GEEEEEEETTSCHHHHHHHHHHHHHHHHHHHHTTCCEEEEEEECH
T ss_pred             ceEEEEECCCCCHHHHHHHHHHHHHHHHHHHHhcCCeEEEEEcCh
Confidence                   0111111     11122344444   379999999998

>2nzj_A GTP-binding protein REM 1; GDP/GTP binding, GTP hydrolysis, RAD and GEM like GTP protein 1, structural genomics; HET: GDP; 2.50A {Homo sapiens}

Probab=93.92  E-value=0.043  Score=43.61  Aligned_cols=24  Identities=42%  Similarity=0.556  Sum_probs=20.7

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .--|.|+|.+|+|||||...+...
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            456789999999999999888765

>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding, nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A {Thermococcus onnurineus}

Probab=93.91  E-value=0.037  Score=54.17  Aligned_cols=43  Identities=21%  Similarity=0.234  Sum_probs=33.8

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..++|.+..++.+...+...        ..+.|+|++|+||||||+.+...
T Consensus        41 ~~i~G~~~~l~~l~~~i~~g--------~~vll~Gp~GtGKTtlar~ia~~   83 (604)
T 3k1j_A           41 DQVIGQEHAVEVIKTAANQK--------RHVLLIGEPGTGKSMLGQAMAEL   83 (604)
T ss_dssp             HHCCSCHHHHHHHHHHHHTT--------CCEEEECCTTSSHHHHHHHHHHT
T ss_pred             ceEECchhhHhhccccccCC--------CEEEEEeCCCCCHHHHHHHHhcc
Confidence            45788887777766666432        36889999999999999999873

>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+ protein; 2.10A {Human papillomavirus type 18} SCOP: c.37.1.20

Probab=93.90  E-value=0.026  Score=46.91  Aligned_cols=24  Identities=13%  Similarity=0.153  Sum_probs=20.6

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ...+.|+|++|+||||+|..+.+.
T Consensus        58 kn~ili~GPPGtGKTt~a~ala~~   81 (212)
T 1tue_A           58 KNCLVFCGPANTGKSYFGMSFIHF   81 (212)
T ss_dssp             CSEEEEESCGGGCHHHHHHHHHHH
T ss_pred             ccEEEEECCCCCCHHHHHHHHHHH
Confidence            346889999999999999888874

>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=93.90  E-value=0.052  Score=50.67  Aligned_cols=100  Identities=9%  Similarity=0.079  Sum_probs=55.3

Q ss_pred             HHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhh--------ccCC-eEEEEEeCCCC-CHHHHHHHHHH
Q 036619          195 ELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVK--------RNFE-KVIWVCVSDTF-DQIRIAKAIIE  264 (352)
Q Consensus       195 ~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~--------~~F~-~~~wv~vs~~~-~~~~~~~~i~~  264 (352)
                      +.++.|..-..     -.-++|+|..|+|||+|+..+.+.....        ++=+ .++++-+.+.. .+..+.+++.+
T Consensus       136 raID~l~pigr-----GQr~~Ifgg~G~GKt~L~~~Ia~~~~a~~~~~~~~~d~~~~~~V~~~iGeR~~Ev~e~~~~l~~  210 (464)
T 3gqb_B          136 STIDVMNTLVR-----GQKLPIFSGSGLPANEIAAQIARQATVRPDLSGEGEKEEPFAVVFAAMGITQRELSYFIQEFER  210 (464)
T ss_dssp             HHHHTTSCCBT-----TCBCCEEEETTSCHHHHHHHHHHHCBCCHHHHCCCSTTCCEEEEEEEEEECHHHHHHHHHHHHH
T ss_pred             eeeeccccccc-----CCEEEEecCCCCCchHHHHHHHHHHHhcccccccccCCCceEEEEEEecCchHHHHHHHHHhhh
Confidence            45666654331     2346789999999999999888764331        1111 56666666543 34455555444


Q ss_pred             HhCCC-------CCCcccH-----HHHHHHHHHhc---CCceEEEEecCC
Q 036619          265 GLGKS-------ASGLNEF-----QSLMSRIQSSI---KGKKNFLVLDDV  299 (352)
Q Consensus       265 ~l~~~-------~~~~~~~-----~~~~~~l~~~l---~~kr~LlVlDdv  299 (352)
                      .-...       ..+....     ....-.+.+++   +++..||++||+
T Consensus       211 ~g~~~rtvvv~~t~d~p~~~r~~~~~~a~tiAEyfrd~~G~~VLl~~Ddl  260 (464)
T 3gqb_B          211 TGALSRSVLFLNKADDPTIERILTPRMALTVAEYLAFEHDYHVLVILTDM  260 (464)
T ss_dssp             TSGGGGEEEEEEETTSCTHHHHHHHHHHHHHHHHHHHTTCCEEEEEEETH
T ss_pred             cccccceEEEEECCCCCHHHHHHHHHHHHHHHHHHHHhcCCeEEEEEcCh
Confidence            21000       0111111     11222344444   378999999998

>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=93.87  E-value=0.032  Score=49.21  Aligned_cols=24  Identities=29%  Similarity=0.470  Sum_probs=21.4

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      -.+++|+|+.|+|||||.+.+..-
T Consensus        64 Ge~~~i~G~NGsGKSTLlk~l~Gl   87 (290)
T 2bbs_A           64 GQLLAVAGSTGAGKTSLLMMIMGE   87 (290)
T ss_dssp             TCEEEEEESTTSSHHHHHHHHTTS
T ss_pred             CCEEEEECCCCCcHHHHHHHHhcC
Confidence            468999999999999999999863

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=93.84  E-value=0.063  Score=48.43  Aligned_cols=25  Identities=20%  Similarity=0.324  Sum_probs=22.1

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHh
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYN  233 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~  233 (352)
                      ....+++|+|++|+|||||.+.+..
T Consensus        53 ~~g~~v~i~G~~GaGKSTLl~~l~g   77 (337)
T 2qm8_A           53 GRAIRVGITGVPGVGKSTTIDALGS   77 (337)
T ss_dssp             CCSEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHH
Confidence            3468999999999999999999875

>3ld9_A DTMP kinase, thymidylate kinase; ssgcid, NIH, niaid, SBRI, UW, emerald biostructures, ehrlich chaffeensis; 2.15A {Ehrlichia chaffeensis}

Probab=93.83  E-value=0.13  Score=43.38  Aligned_cols=37  Identities=27%  Similarity=0.337  Sum_probs=26.9

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEE
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVI  245 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~  245 (352)
                      .....|.|.|+.|+||||+++.+.+.-.....+.+..
T Consensus        19 ~~~~~i~~~G~~g~GKst~~~~l~~~l~~~~g~~v~~   55 (223)
T 3ld9_A           19 PGSMFITFEGIDGSGKTTQSHLLAEYLSEIYGVNNVV   55 (223)
T ss_dssp             CCCEEEEEECSTTSSHHHHHHHHHHHHHHHHCGGGEE
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHhhccCceeeE
Confidence            3467899999999999999999987533213444443

>2j9r_A Thymidine kinase; TK1, DNK, lasso, transferase, ATP-binding, deoxyribonucleoside kinase, DNA synthesis, phosphate accept nucleotide-binding; HET: THM; 2.7A {Bacillus anthracis} PDB: 2ja1_A*

Probab=93.81  E-value=0.14  Score=42.86  Aligned_cols=108  Identities=12%  Similarity=0.080  Sum_probs=51.4

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCC--CcccHHHHHHHHHHhcC
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSAS--GLNEFQSLMSRIQSSIK  288 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~--~~~~~~~~~~~l~~~l~  288 (352)
                      -.+..++|..|.||||.+-....+... ....+.+ +.....  ...-...+...++....  ...+..    .+.+.+.
T Consensus        28 G~l~vitG~MgsGKTT~lL~~a~r~~~-~g~kVli-~k~~~d--~R~ge~~i~s~~g~~~~a~~~~~~~----~~~~~~~   99 (214)
T 2j9r_A           28 GWIEVICGSMFSGKSEELIRRVRRTQF-AKQHAIV-FKPCID--NRYSEEDVVSHNGLKVKAVPVSASK----DIFKHIT   99 (214)
T ss_dssp             CEEEEEECSTTSCHHHHHHHHHHHHHH-TTCCEEE-EECC-------------------CCEEECSSGG----GGGGGCC
T ss_pred             CEEEEEECCCCCcHHHHHHHHHHHHHH-CCCEEEE-EEeccC--CcchHHHHHhhcCCeeEEeecCCHH----HHHHHHh
Confidence            468889999999999999666554332 2333333 332211  11111233343332211  111111    2223333


Q ss_pred             CceEEEEecCCCCCCccChhHHHHhhccCCCCcEEEEecCC
Q 036619          289 GKKNFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKILVTTRN  329 (352)
Q Consensus       289 ~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTTR~  329 (352)
                      ++--+|++|.+..-+.+..+.+ ..+.+  .|-.||+|-++
T Consensus       100 ~~~dvViIDEaQF~~~~~V~~l-~~l~~--~~~~Vi~~Gl~  137 (214)
T 2j9r_A          100 EEMDVIAIDEVQFFDGDIVEVV-QVLAN--RGYRVIVAGLD  137 (214)
T ss_dssp             SSCCEEEECCGGGSCTTHHHHH-HHHHH--TTCEEEEEECS
T ss_pred             cCCCEEEEECcccCCHHHHHHH-HHHhh--CCCEEEEEecc
Confidence            3333999999977543444333 33322  26789999984

>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=93.79  E-value=0.023  Score=50.52  Aligned_cols=23  Identities=39%  Similarity=0.655  Sum_probs=20.9

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYN  233 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~  233 (352)
                      -.+++|+|+.|.|||||++.+..
T Consensus        80 Ge~vaivG~sGsGKSTLl~ll~g  102 (306)
T 3nh6_A           80 GQTLALVGPSGAGKSTILRLLFR  102 (306)
T ss_dssp             TCEEEEESSSCHHHHHHHHHHTT
T ss_pred             CCEEEEECCCCchHHHHHHHHHc
Confidence            46899999999999999999875

>3fvq_A Fe(3+) IONS import ATP-binding protein FBPC; nucleotide binding domain, ABC motor domain, ferric iron TRA ATP-binding, cell inner membrane; HET: ATP; 1.90A {Neisseria gonorrhoeae}

Probab=93.78  E-value=0.036  Score=50.37  Aligned_cols=23  Identities=30%  Similarity=0.468  Sum_probs=20.8

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYN  233 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~  233 (352)
                      -.+++|+|+.|+|||||.+.+..
T Consensus        30 Ge~~~llGpsGsGKSTLLr~iaG   52 (359)
T 3fvq_A           30 GEILFIIGASGCGKTTLLRCLAG   52 (359)
T ss_dssp             TCEEEEEESTTSSHHHHHHHHHT
T ss_pred             CCEEEEECCCCchHHHHHHHHhc
Confidence            35899999999999999999986

>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=93.77  E-value=0.11  Score=49.00  Aligned_cols=100  Identities=15%  Similarity=0.183  Sum_probs=56.2

Q ss_pred             HHHHHHcCccccCCCCeEEEEEEecCCCcHHHHH-HHHHhhhhh----hccCC-eEEEEEeCCCCC-HHHHHHHHHHHhC
Q 036619          195 ELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLA-QLAYNNDEV----KRNFE-KVIWVCVSDTFD-QIRIAKAIIEGLG  267 (352)
Q Consensus       195 ~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa-~~v~~~~~~----~~~F~-~~~wv~vs~~~~-~~~~~~~i~~~l~  267 (352)
                      +.++.|..-.     .-..++|+|.+|+|||+|| ..+.+....    .++-+ .++++-+.+..+ +..+.+.+...-.
T Consensus       151 raID~l~Pig-----rGQR~~I~g~~g~GKT~Lal~~I~~q~~~~~~~~~~~d~~~V~~~IGeR~~Ev~~~~~~~~~~g~  225 (510)
T 2ck3_A          151 KAVDSLVPIG-----RGQRELIIGDRQTGKTSIAIDTIINQKRFNDGTDEKKKLYCIYVAIGQKRSTVAQLVKRLTDADA  225 (510)
T ss_dssp             HHHHHHSCCB-----TTCBCEEEESTTSSHHHHHHHHHHHTHHHHTSCCTTTCCEEEEEEESCCHHHHHHHHHHHHHTTC
T ss_pred             eeeccccccc-----cCCEEEEecCCCCCchHHHHHHHHHHHhhccccccCCCeEEEEEECCCCcHHHHHHHHHHHhcCC
Confidence            4567776533     2245789999999999995 677775322    02334 466777776543 4455555554211


Q ss_pred             CC-------CCCcccHHH-----HHHHHHHhc--CCceEEEEecCC
Q 036619          268 KS-------ASGLNEFQS-----LMSRIQSSI--KGKKNFLVLDDV  299 (352)
Q Consensus       268 ~~-------~~~~~~~~~-----~~~~l~~~l--~~kr~LlVlDdv  299 (352)
                      ..       ..+......     ..-.+.+++  +++..||++||+
T Consensus       226 m~~tvvV~atad~p~~~r~~a~~~a~tiAEyfrd~G~dVLli~Dsl  271 (510)
T 2ck3_A          226 MKYTIVVSATASDAAPLQYLAPYSGCSMGEYFRDNGKHALIIYDDL  271 (510)
T ss_dssp             GGGEEEEEECTTSCHHHHHHHHHHHHHHHHHHHTTTCEEEEEEETH
T ss_pred             cccceEEEECCCCCHHHHHHHHHHHHHHHHHHHHcCCcEEEEEcCH
Confidence            10       111111111     112233333  689999999998

>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=93.76  E-value=0.044  Score=44.61  Aligned_cols=25  Identities=32%  Similarity=0.545  Sum_probs=21.4

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ....|.|+|.+|+|||||...+.+.
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            3566789999999999999988765

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A*

Probab=93.76  E-value=0.042  Score=43.91  Aligned_cols=25  Identities=28%  Similarity=0.335  Sum_probs=21.4

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ....|.|+|.+|+|||||...+.+.
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            4567889999999999999888764

>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=93.72  E-value=0.057  Score=43.12  Aligned_cols=26  Identities=27%  Similarity=0.455  Sum_probs=21.9

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ....-|.|+|..|+|||||...+.+.
T Consensus         7 ~~~~~i~v~G~~~~GKssli~~l~~~   32 (181)
T 2fn4_A            7 SETHKLVVVGGGGVGKSALTIQFIQS   32 (181)
T ss_dssp             SCEEEEEEEECTTSSHHHHHHHHHHS
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHhC
Confidence            34567889999999999999888765

>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=93.72  E-value=0.036  Score=44.99  Aligned_cols=23  Identities=35%  Similarity=0.593  Sum_probs=20.0

Q ss_pred             EEEEEEecCCCcHHHHHHHHHhh
Q 036619          212 QVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      --|.++|.+|+|||||+..+...
T Consensus        22 ~ki~vvG~~~~GKSsli~~l~~~   44 (190)
T 3con_A           22 YKLVVVGAGGVGKSALTIQLIQN   44 (190)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEECcCCCCHHHHHHHHHcC
Confidence            45779999999999999888764

>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=93.71  E-value=0.037  Score=51.37  Aligned_cols=24  Identities=17%  Similarity=0.317  Sum_probs=21.9

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHh
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYN  233 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~  233 (352)
                      ...+++|+|..|+|||||.+.+..
T Consensus        68 ~~~~valvG~nGaGKSTLln~L~G   91 (413)
T 1tq4_A           68 SVLNVAVTGETGSGKSSFINTLRG   91 (413)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCcHHHHHHHHhC
Confidence            457999999999999999999987

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=93.67  E-value=0.038  Score=43.70  Aligned_cols=23  Identities=26%  Similarity=0.508  Sum_probs=19.7

Q ss_pred             EEEEEEecCCCcHHHHHHHHHhh
Q 036619          212 QVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      --|.|+|.+|+|||||...+...
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            34679999999999999888764

>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=93.65  E-value=0.043  Score=44.38  Aligned_cols=22  Identities=23%  Similarity=0.415  Sum_probs=19.5

Q ss_pred             EEEEEEecCCCcHHHHHHHHHh
Q 036619          212 QVISLVGLGGIGKTTLAQLAYN  233 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~  233 (352)
                      .+..|+|+.|.|||||+..++-
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            3788999999999999988864

>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=93.63  E-value=0.039  Score=43.45  Aligned_cols=23  Identities=26%  Similarity=0.492  Sum_probs=19.7

Q ss_pred             EEEEEEecCCCcHHHHHHHHHhh
Q 036619          212 QVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      --|.|+|.+|+|||||...+.+.
T Consensus         4 ~ki~v~G~~~~GKssli~~l~~~   26 (167)
T 1c1y_A            4 YKLVVLGSGGVGKSALTVQFVQG   26 (167)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHC
T ss_pred             eEEEEECCCCCCHHHHHHHHHcC
Confidence            34789999999999999888764

>3lv8_A DTMP kinase, thymidylate kinase; structural genomics, in diseases, center for structural genomics of infectious DISE ATP-binding; HET: ADP TMP TYD; 1.80A {Vibrio cholerae o1 biovar eltor} PDB: 3n2i_A*

Probab=93.62  E-value=0.14  Score=43.55  Aligned_cols=37  Identities=22%  Similarity=0.357  Sum_probs=27.1

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEE
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVC  248 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~  248 (352)
                      ...|.|.|+.|+||||+++.+.+... ..++.......
T Consensus        27 ~~~i~~eG~~GsGKsT~~~~l~~~l~-~~~~~~~~~~r   63 (236)
T 3lv8_A           27 AKFIVIEGLEGAGKSTAIQVVVETLQ-QNGIDHITRTR   63 (236)
T ss_dssp             CCEEEEEESTTSCHHHHHHHHHHHHH-HTTCCCEEEEE
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHH-hcCCCeeeeec
Confidence            46899999999999999999987532 33455344333

>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=93.62  E-value=0.038  Score=43.69  Aligned_cols=24  Identities=33%  Similarity=0.405  Sum_probs=20.6

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .--|.|+|.+|+|||||...+...
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            456789999999999999888764

>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=93.61  E-value=0.075  Score=48.00  Aligned_cols=25  Identities=20%  Similarity=0.229  Sum_probs=21.8

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHh
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYN  233 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~  233 (352)
                      ....+++|+|.+|+|||||+..+..
T Consensus        54 ~~~~~i~i~G~~g~GKSTl~~~l~~   78 (341)
T 2p67_A           54 GNTLRLGVTGTPGAGKSTFLEAFGM   78 (341)
T ss_dssp             SCSEEEEEEECTTSCHHHHHHHHHH
T ss_pred             CCCEEEEEEcCCCCCHHHHHHHHHH
Confidence            3468899999999999999988864

>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=93.59  E-value=0.058  Score=42.36  Aligned_cols=24  Identities=33%  Similarity=0.603  Sum_probs=20.4

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..-|.++|.+|+|||||...+...
T Consensus         4 ~~~i~v~G~~~~GKssl~~~l~~~   27 (168)
T 1u8z_A            4 LHKVIMVGSGGVGKSALTLQFMYD   27 (168)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECCCCCCHHHHHHHHHhC
Confidence            345789999999999999888764

>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=93.58  E-value=0.051  Score=43.56  Aligned_cols=23  Identities=17%  Similarity=0.250  Sum_probs=20.1

Q ss_pred             EEEEEEecCCCcHHHHHHHHHhh
Q 036619          212 QVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..|+|+|.+|+|||||.+.+...
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            45789999999999999998864

>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=93.58  E-value=0.04  Score=43.25  Aligned_cols=23  Identities=26%  Similarity=0.494  Sum_probs=19.6

Q ss_pred             EEEEEEecCCCcHHHHHHHHHhh
Q 036619          212 QVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      --|.|+|.+|+|||||...+...
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            35789999999999999888754

>3q72_A GTP-binding protein RAD; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.66A {Homo sapiens} SCOP: c.37.1.8 PDB: 3q7p_A* 3q7q_A* 2gjs_A* 2dpx_A*

Probab=93.57  E-value=0.04  Score=43.45  Aligned_cols=22  Identities=32%  Similarity=0.502  Sum_probs=19.0

Q ss_pred             EEEEEecCCCcHHHHHHHHHhh
Q 036619          213 VISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      -|.|+|.+|+|||||.+.+.+.
T Consensus         4 ki~~vG~~~~GKSsli~~l~~~   25 (166)
T 3q72_A            4 KVLLLGAPGVGKSALARIFGGV   25 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHCCC
T ss_pred             EEEEECCCCCCHHHHHHHHcCc
Confidence            4679999999999999988653

>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=93.57  E-value=0.04  Score=43.53  Aligned_cols=24  Identities=21%  Similarity=0.332  Sum_probs=20.4

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .--|.|+|.+|+|||||...+.+.
T Consensus         6 ~~~i~v~G~~~~GKSsli~~l~~~   29 (170)
T 1z0j_A            6 ELKVCLLGDTGVGKSSIMWRFVED   29 (170)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECcCCCCHHHHHHHHHcC
Confidence            345789999999999999888765

>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=93.55  E-value=0.04  Score=43.45  Aligned_cols=22  Identities=23%  Similarity=0.410  Sum_probs=19.2

Q ss_pred             EEEEEecCCCcHHHHHHHHHhh
Q 036619          213 VISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      -|.++|.+|+|||||...+.+.
T Consensus         5 ~i~v~G~~~~GKssli~~l~~~   26 (170)
T 1ek0_A            5 KLVLLGEAAVGKSSIVLRFVSN   26 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            4679999999999999888764

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=93.55  E-value=0.049  Score=44.17  Aligned_cols=24  Identities=25%  Similarity=0.501  Sum_probs=20.8

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ...|.|+|..|+|||||...+...
T Consensus        23 ~~~i~v~G~~~~GKSsli~~l~~~   46 (195)
T 3pqc_A           23 KGEVAFVGRSNVGKSSLLNALFNR   46 (195)
T ss_dssp             TCEEEEEEBTTSSHHHHHHHHHTS
T ss_pred             CeEEEEECCCCCCHHHHHHHHHcC
Confidence            456789999999999999988875

>2aka_B Dynamin-1; fusion protein, GTPase domain, myosin, contractIle protein; 1.90A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 3l43_A*

Probab=93.54  E-value=0.091  Score=46.11  Aligned_cols=41  Identities=17%  Similarity=0.186  Sum_probs=28.0

Q ss_pred             HHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          194 SELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       194 ~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      +++.+.|.............|+|+|.+|+|||||...+...
T Consensus         9 ~~l~~~l~~~~~~~~~~~~~i~vvG~~~~GKSSLln~l~g~   49 (299)
T 2aka_B            9 NRLQDAFSAIGQNADLDLPQIAVVGGQSAGKSSVLENFVGR   49 (299)
T ss_dssp             HHHHHHHTTSCCCTTCCCCEEEEEEBTTSCHHHHHHHHHTS
T ss_pred             HHHHHHHHhcCCCCCCCCCeEEEEeCCCCCHHHHHHHHHCC
Confidence            44455554322212234668899999999999999998864

>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=93.54  E-value=0.2  Score=47.81  Aligned_cols=59  Identities=12%  Similarity=0.189  Sum_probs=40.9

Q ss_pred             HHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCH-HHHHHHH
Q 036619          195 ELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQ-IRIAKAI  262 (352)
Q Consensus       195 ~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~-~~~~~~i  262 (352)
                      +.++.|..-.     +-..++|+|..|+|||+|+..+.+.    .+-+.++++-+.+..+- ..+++++
T Consensus       216 rvID~l~Pig-----kGqr~~I~g~~g~GKT~L~~~ia~~----~~~~~~V~~~iGER~~Ev~e~~~~~  275 (588)
T 3mfy_A          216 RVIDTFFPQA-----KGGTAAIPGPAGSGKTVTQHQLAKW----SDAQVVIYIGCGERGNEMTDVLEEF  275 (588)
T ss_dssp             HHHHHHSCEE-----TTCEEEECSCCSHHHHHHHHHHHHH----SSCSEEEEEECCSSSSHHHHHHHHT
T ss_pred             chhhccCCcc-----cCCeEEeecCCCCCHHHHHHHHHhc----cCCCEEEEEEecccHHHHHHHHHHH
Confidence            5677776533     2356889999999999999988763    23457888888876653 3444443

>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=93.52  E-value=0.054  Score=43.31  Aligned_cols=25  Identities=28%  Similarity=0.498  Sum_probs=21.2

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ...-|.|+|.+|+|||||...+...
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            4567889999999999999888764

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A*

Probab=93.52  E-value=0.071  Score=42.50  Aligned_cols=25  Identities=28%  Similarity=0.303  Sum_probs=20.8

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..--|.|+|.+|+|||||...+.+.
T Consensus         5 ~~~ki~v~G~~~~GKssl~~~l~~~   29 (178)
T 2hxs_A            5 RQLKIVVLGDGASGKTSLTTCFAQE   29 (178)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHGG
T ss_pred             ceEEEEEECcCCCCHHHHHHHHHhC
Confidence            3456789999999999999888764

>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=93.50  E-value=0.043  Score=43.16  Aligned_cols=21  Identities=38%  Similarity=0.401  Sum_probs=18.7

Q ss_pred             EEEEecCCCcHHHHHHHHHhh
Q 036619          214 ISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       214 i~I~G~~GiGKTtLa~~v~~~  234 (352)
                      |.++|.+|+|||||...+...
T Consensus         3 i~~~G~~~~GKssl~~~l~~~   23 (164)
T 1r8s_A            3 ILMVGLDAAGKTTILYKLKLG   23 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHcC
Confidence            679999999999999888754

>1z47_A CYSA, putative ABC-transporter ATP-binding protein; alpha/beta motif, beta sandwich, ligand binding protein; 1.90A {Alicyclobacillus acidocaldarius}

Probab=93.49  E-value=0.041  Score=49.94  Aligned_cols=23  Identities=35%  Similarity=0.537  Sum_probs=20.8

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYN  233 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~  233 (352)
                      -.+++|+|+.|+|||||.+.+..
T Consensus        41 Ge~~~llGpnGsGKSTLLr~iaG   63 (355)
T 1z47_A           41 GEMVGLLGPSGSGKTTILRLIAG   63 (355)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHT
T ss_pred             CCEEEEECCCCCcHHHHHHHHhC
Confidence            35899999999999999999875

>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=93.48  E-value=0.045  Score=45.54  Aligned_cols=25  Identities=28%  Similarity=0.274  Sum_probs=21.4

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ....|.|+|.+|+|||||...+...
T Consensus        11 ~~~~i~~~G~~g~GKTsl~~~l~~~   35 (218)
T 1nrj_B           11 YQPSIIIAGPQNSGKTSLLTLLTTD   35 (218)
T ss_dssp             CCCEEEEECSTTSSHHHHHHHHHHS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcC
Confidence            4567889999999999999888764

>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=93.48  E-value=0.042  Score=44.68  Aligned_cols=24  Identities=33%  Similarity=0.271  Sum_probs=19.7

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .--|.|+|.+|+|||||.+.+.+.
T Consensus        14 ~~ki~vvG~~~~GKssL~~~l~~~   37 (198)
T 3t1o_A           14 NFKIVYYGPGLSGKTTNLKWIYSK   37 (198)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHT
T ss_pred             ccEEEEECCCCCCHHHHHHHHHhh
Confidence            456789999999999999777653

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=93.48  E-value=0.05  Score=49.35  Aligned_cols=25  Identities=24%  Similarity=0.186  Sum_probs=22.2

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ...+++|+|.+|+|||||...+...
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            4689999999999999999988863

>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=93.45  E-value=0.059  Score=43.54  Aligned_cols=25  Identities=28%  Similarity=0.226  Sum_probs=20.8

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..--|.|+|.+|+|||||...+.+.
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            3456779999999999999888764

>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=93.45  E-value=0.042  Score=44.59  Aligned_cols=24  Identities=21%  Similarity=0.212  Sum_probs=19.9

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .--|.|+|.+|+|||||...+.+.
T Consensus        20 ~~ki~ivG~~~vGKSsL~~~~~~~   43 (184)
T 3ihw_A           20 ELKVGIVGNLSSGKSALVHRYLTG   43 (184)
T ss_dssp             EEEEEEECCTTSCHHHHHHHHHHS
T ss_pred             eeEEEEECCCCCCHHHHHHHHhcC
Confidence            456779999999999999777654

>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=93.42  E-value=0.044  Score=44.27  Aligned_cols=22  Identities=27%  Similarity=0.362  Sum_probs=19.4

Q ss_pred             EEEEEecCCCcHHHHHHHHHhh
Q 036619          213 VISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      -|.|+|.+|+|||||...+.+.
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            4679999999999999888765

>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=93.40  E-value=0.044  Score=43.72  Aligned_cols=24  Identities=38%  Similarity=0.574  Sum_probs=20.6

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .--|.|+|.+|+|||||...+...
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            456789999999999999888754

>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=93.38  E-value=0.05  Score=44.97  Aligned_cols=23  Identities=22%  Similarity=0.266  Sum_probs=20.3

Q ss_pred             EEEEEEecCCCcHHHHHHHHHhh
Q 036619          212 QVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      +.+.|.|+.|+||||||..+...
T Consensus        35 ~~ilI~GpsGsGKStLA~~La~~   57 (205)
T 2qmh_A           35 LGVLITGDSGVGKSETALELVQR   57 (205)
T ss_dssp             EEEEEECCCTTTTHHHHHHHHTT
T ss_pred             EEEEEECCCCCCHHHHHHHHHHh
Confidence            56889999999999999988764

>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=93.35  E-value=0.059  Score=42.55  Aligned_cols=22  Identities=41%  Similarity=0.466  Sum_probs=18.9

Q ss_pred             EEEEEEecCCCcHHHHHHHHHh
Q 036619          212 QVISLVGLGGIGKTTLAQLAYN  233 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~  233 (352)
                      --|.|+|.+|+|||||...+..
T Consensus         3 ~ki~ivG~~~~GKSsli~~l~~   24 (169)
T 3q85_A            3 FKVMLVGESGVGKSTLAGTFGG   24 (169)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHC
T ss_pred             EEEEEECCCCCCHHHHHHHHHh
Confidence            3578999999999999988864

>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=93.33  E-value=0.044  Score=49.99  Aligned_cols=24  Identities=17%  Similarity=0.241  Sum_probs=21.2

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ...++|+|..|+|||||++.+..-
T Consensus       170 g~k~~IvG~nGsGKSTLlk~L~gl  193 (365)
T 1lw7_A          170 AKTVAILGGESSGKSVLVNKLAAV  193 (365)
T ss_dssp             CEEEEEECCTTSHHHHHHHHHHHH
T ss_pred             hCeEEEECCCCCCHHHHHHHHHHH
Confidence            468899999999999999988763

>3rlf_A Maltose/maltodextrin import ATP-binding protein M; integral membrane protein, ATPase, ABC transporter, membrane transmembrane; HET: UMQ MAL PGV ANP; 2.20A {Escherichia coli} PDB: 1q1e_A 1q12_A* 2awo_A* 3fh6_A 3puv_A* 3puw_A* 3pux_A* 3puy_A* 3puz_A* 3pv0_A* 2awn_A* 2r6g_A* 1q1b_A

Probab=93.32  E-value=0.045  Score=50.10  Aligned_cols=23  Identities=30%  Similarity=0.485  Sum_probs=20.9

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYN  233 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~  233 (352)
                      -.+++|+|+.|+|||||.+.+..
T Consensus        29 Ge~~~llGpsGsGKSTLLr~iaG   51 (381)
T 3rlf_A           29 GEFVVFVGPSGCGKSTLLRMIAG   51 (381)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHT
T ss_pred             CCEEEEEcCCCchHHHHHHHHHc
Confidence            35899999999999999999986

>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=93.31  E-value=0.046  Score=44.44  Aligned_cols=24  Identities=21%  Similarity=0.322  Sum_probs=20.2

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .--|.|+|.+|+|||||...+.+.
T Consensus        21 ~~ki~vvG~~~vGKTsLi~~l~~~   44 (187)
T 3c5c_A           21 EVNLAILGRRGAGKSALTVKFLTK   44 (187)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECCCCCcHHHHHHHHHhC
Confidence            456779999999999999887764

>2yyz_A Sugar ABC transporter, ATP-binding protein; sugar transport, alpha and beta proteins (A/B) TM0421, structural genomics, NPPSFA; 2.11A {Thermotoga maritima}

Probab=93.30  E-value=0.046  Score=49.72  Aligned_cols=23  Identities=30%  Similarity=0.408  Sum_probs=20.8

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYN  233 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~  233 (352)
                      -.+++|+|+.|+|||||.+.+..
T Consensus        29 Ge~~~llGpnGsGKSTLLr~iaG   51 (359)
T 2yyz_A           29 GEFVALLGPSGCGKTTTLLMLAG   51 (359)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHT
T ss_pred             CCEEEEEcCCCchHHHHHHHHHC
Confidence            36899999999999999999986

>3eph_A TRNA isopentenyltransferase; transferase, alternative initiation, ATP-binding, cytoplasm, mitochondrion, nucleotide-binding, nucleus; 2.95A {Saccharomyces cerevisiae} PDB: 3epj_A 3epk_A* 3epl_A*

Probab=93.29  E-value=0.056  Score=49.77  Aligned_cols=23  Identities=30%  Similarity=0.518  Sum_probs=20.7

Q ss_pred             EEEEEEecCCCcHHHHHHHHHhh
Q 036619          212 QVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .+|.|.|+.|+||||||..+...
T Consensus         3 ~~i~i~GptgsGKttla~~La~~   25 (409)
T 3eph_A            3 KVIVIAGTTGVGKSQLSIQLAQK   25 (409)
T ss_dssp             EEEEEEECSSSSHHHHHHHHHHH
T ss_pred             cEEEEECcchhhHHHHHHHHHHH
Confidence            58899999999999999988864

>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=93.28  E-value=0.048  Score=43.00  Aligned_cols=24  Identities=21%  Similarity=0.285  Sum_probs=20.3

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .--|.|+|.+|+|||||...+...
T Consensus         6 ~~~i~v~G~~~~GKssli~~l~~~   29 (170)
T 1r2q_A            6 QFKLVLLGESAVGKSSLVLRFVKG   29 (170)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECCCCCCHHHHHHHHHcC
Confidence            455789999999999999888754

>4tmk_A Protein (thymidylate kinase); ATP:DTMP phosphotransferase, transferase; HET: T5A; 1.98A {Escherichia coli} SCOP: c.37.1.1 PDB: 5tmp_A*

Probab=93.28  E-value=0.19  Score=41.98  Aligned_cols=52  Identities=17%  Similarity=0.262  Sum_probs=31.7

Q ss_pred             EEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHH
Q 036619          212 QVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIE  264 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~  264 (352)
                      ..|.+-|+.|+||||+++.+.+.-. ...+..+....-.........+++++.
T Consensus         4 ~~i~~eG~~gsGKsT~~~~l~~~l~-~~~~~~v~~~rep~~t~~g~~ir~~l~   55 (213)
T 4tmk_A            4 KYIVIEGLEGAGKTTARNVVVETLE-QLGIRDMVFTREPGGTQLAEKLRSLLL   55 (213)
T ss_dssp             CEEEEEECTTSCHHHHHHHHHHHHH-HTTCCCEEEEESSCSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHH-HcCCCcceeeeCCCCCHHHHHHHHHHh
Confidence            5788999999999999999987532 234433333332222223444455544

>2zts_A Putative uncharacterized protein PH0186; KAIC like protein, ATP-binding, nucleotide-binding, ATP- binding protein; HET: ADP; 2.07A {Pyrococcus horikoshii}

Probab=93.27  E-value=0.081  Score=44.90  Aligned_cols=49  Identities=20%  Similarity=0.239  Sum_probs=31.3

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHH
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAI  262 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i  262 (352)
                      -.++.|.|.+|+|||+||.++..+. ....-..+++++...  +...+...+
T Consensus        30 G~l~~i~G~pG~GKT~l~l~~~~~~-~~~~~~~v~~~s~E~--~~~~~~~~~   78 (251)
T 2zts_A           30 GTTVLLTGGTGTGKTTFAAQFIYKG-AEEYGEPGVFVTLEE--RARDLRREM   78 (251)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHHHH-HHHHCCCEEEEESSS--CHHHHHHHH
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHHHH-HHhcCCCceeecccC--CHHHHHHHH
Confidence            4688899999999999997765432 222234566665543  445555443

>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=93.27  E-value=0.032  Score=48.30  Aligned_cols=25  Identities=24%  Similarity=0.286  Sum_probs=22.1

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      +...|.|.|..|+||||+++.+...
T Consensus        23 ~~~~I~ieG~~GsGKST~~~~L~~~   47 (263)
T 1p5z_B           23 RIKKISIEGNIAAGKSTFVNILKQL   47 (263)
T ss_dssp             CCEEEEEECSTTSSHHHHHTTTGGG
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHh
Confidence            4678999999999999999988864

>1u0j_A DNA replication protein; AAA+ protein, P-loop atpases, helicase; HET: DNA ADP; 2.10A {Adeno-associated virus - 2} SCOP: c.37.1.20 PDB: 1s9h_A

Probab=93.27  E-value=0.094  Score=45.42  Aligned_cols=35  Identities=20%  Similarity=0.163  Sum_probs=25.8

Q ss_pred             HHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          196 LFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       196 l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      +..||....    ++...+.++|++|.|||.||..+.+.
T Consensus        93 l~~~l~~~~----~~~n~~~l~GppgtGKt~~a~ala~~  127 (267)
T 1u0j_A           93 FLGWATKKF----GKRNTIWLFGPATTGKTNIAEAIAHT  127 (267)
T ss_dssp             HHHHHTTCS----TTCCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             HHHHHhCCC----CCCcEEEEECCCCCCHHHHHHHHHhh
Confidence            555554321    23456889999999999999999873

>2it1_A 362AA long hypothetical maltose/maltodextrin transport ATP-binding protein; structural genomics, NPPSFA; 1.94A {Pyrococcus horikoshii}

Probab=93.26  E-value=0.047  Score=49.72  Aligned_cols=23  Identities=30%  Similarity=0.397  Sum_probs=20.8

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYN  233 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~  233 (352)
                      -.+++|+|+.|+|||||.+.+..
T Consensus        29 Ge~~~llGpnGsGKSTLLr~iaG   51 (362)
T 2it1_A           29 GEFMALLGPSGSGKSTLLYTIAG   51 (362)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHT
T ss_pred             CCEEEEECCCCchHHHHHHHHhc
Confidence            36899999999999999999876

>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=93.25  E-value=0.05  Score=44.36  Aligned_cols=23  Identities=35%  Similarity=0.528  Sum_probs=19.9

Q ss_pred             EEEEEEecCCCcHHHHHHHHHhh
Q 036619          212 QVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..|.|+|.+|+|||||...+.+.
T Consensus        24 ~ki~~vG~~~vGKSsli~~l~~~   46 (190)
T 1m2o_B           24 GKLLFLGLDNAGKTTLLHMLKND   46 (190)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHS
T ss_pred             cEEEEECCCCCCHHHHHHHHhcC
Confidence            36789999999999999888763

>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=93.23  E-value=0.066  Score=50.18  Aligned_cols=100  Identities=9%  Similarity=0.052  Sum_probs=56.2

Q ss_pred             HHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhcc--CCeEEEEEeCCCC-CHHHHHHHHHHHhCCC--
Q 036619          195 ELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRN--FEKVIWVCVSDTF-DQIRIAKAIIEGLGKS--  269 (352)
Q Consensus       195 ~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~--F~~~~wv~vs~~~-~~~~~~~~i~~~l~~~--  269 (352)
                      +.++.|..-..     -.-++|+|.+|+|||+|+..+.++....+.  =+.++++-+.+.. .+..+.+++...-...  
T Consensus       141 r~ID~l~pigr-----GQr~~Ifgg~G~GKt~Ll~~Ia~~~~~n~~~~~~~~V~~~iGER~~Ev~e~~~~~~~~g~m~rt  215 (469)
T 2c61_A          141 STIDGTNTLVR-----GQKLPIFSASGLPHNEIALQIARQASVPGSESAFAVVFAAMGITNEEAQYFMSDFEKTGALERA  215 (469)
T ss_dssp             HHHHTTSCCBT-----TCBCCEEECTTSCHHHHHHHHHHHCBCTTCSSCEEEEEEEEEECHHHHHHHHHHHHHHSGGGGE
T ss_pred             Eeeeeeecccc-----CCEEEEECCCCCCHHHHHHHHHHHHhhccCCCCcEEEEEEccCCcHHHHHHHHHHHhccCccce
Confidence            45666654331     234678899999999999999886443221  1345666665543 3556666665431111  


Q ss_pred             -----CCCcccH-----HHHHHHHHHhc---CCceEEEEecCC
Q 036619          270 -----ASGLNEF-----QSLMSRIQSSI---KGKKNFLVLDDV  299 (352)
Q Consensus       270 -----~~~~~~~-----~~~~~~l~~~l---~~kr~LlVlDdv  299 (352)
                           ..+....     -...-.+.+++   +++..||++||+
T Consensus       216 vvV~~tsd~p~~~r~~~~~~a~tiAEyfrdd~G~dVLl~~Dsl  258 (469)
T 2c61_A          216 VVFLNLADDPAVERIVTPRMALTAAEYLAYEHGMHVLVILTDI  258 (469)
T ss_dssp             EEEEEETTSCHHHHHHHHHHHHHHHHHHHHHHCCEEEEEEECH
T ss_pred             EEEEECCCCCHHHHHHHHHHHHHHHHHHHHhcCCeEEEEEeCH
Confidence                 0011111     11122334444   479999999997

>3vkw_A Replicase large subunit; alpha/beta domain, helicase, transferase; 1.90A {Tomato mosaic virus}

Probab=93.23  E-value=0.15  Score=47.44  Aligned_cols=25  Identities=28%  Similarity=0.327  Sum_probs=22.6

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHh
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYN  233 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~  233 (352)
                      ...++..|.|.+|.||||+.+...+
T Consensus       159 ~~~~v~~I~G~aGsGKTt~I~~~~~  183 (446)
T 3vkw_A          159 SSAKVVLVDGVPGCGKTKEILSRVN  183 (446)
T ss_dssp             CCSEEEEEEECTTSCHHHHHHHHCC
T ss_pred             ccccEEEEEcCCCCCHHHHHHHHhc
Confidence            5689999999999999999988875

>3thx_A DNA mismatch repair protein MSH2; ABC family ATPase, mismatch recognition, mismatched unpaired DNA binding protein-DNA complex; HET: DNA ADP; 2.70A {Homo sapiens} PDB: 2o8c_A* 2o8d_A* 2o8f_A* 3thw_A* 2o8b_A* 3thy_A* 3thz_A* 2o8e_A*

Probab=93.23  E-value=0.12  Score=52.98  Aligned_cols=21  Identities=19%  Similarity=0.105  Sum_probs=19.6

Q ss_pred             eEEEEEEecCCCcHHHHHHHH
Q 036619          211 LQVISLVGLGGIGKTTLAQLA  231 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v  231 (352)
                      -.+++|+|+.|.|||||.+.+
T Consensus       662 g~i~~ItGpNGsGKSTlLr~i  682 (934)
T 3thx_A          662 QMFHIITGPNMGGKSTYIRQT  682 (934)
T ss_dssp             BCEEEEECCTTSSHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHH
Confidence            578999999999999999988

>2ew1_A RAS-related protein RAB-30; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=93.22  E-value=0.065  Score=44.24  Aligned_cols=24  Identities=38%  Similarity=0.497  Sum_probs=20.5

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .--|.|+|.+|+|||||...+.+.
T Consensus        26 ~~ki~lvG~~~vGKSsLi~~l~~~   49 (201)
T 2ew1_A           26 LFKIVLIGNAGVGKTCLVRRFTQG   49 (201)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECcCCCCHHHHHHHHHhC
Confidence            456789999999999999888754

>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=93.21  E-value=0.051  Score=43.77  Aligned_cols=25  Identities=24%  Similarity=0.272  Sum_probs=21.1

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..--|.|+|.+|+|||||...+.+.
T Consensus         9 ~~~ki~v~G~~~~GKSsli~~l~~~   33 (186)
T 2bme_A            9 FLFKFLVIGNAGTGKSCLLHQFIEK   33 (186)
T ss_dssp             EEEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             cceEEEEECCCCCCHHHHHHHHHcC
Confidence            3456789999999999999888764

>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=93.19  E-value=0.052  Score=43.25  Aligned_cols=23  Identities=22%  Similarity=0.302  Sum_probs=19.7

Q ss_pred             EEEEEEecCCCcHHHHHHHHHhh
Q 036619          212 QVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      --|.|+|..|+|||||...+...
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            45789999999999999888754

>1g29_1 MALK, maltose transport protein MALK; ATPase, active transport, maltose uptake and regulation, sugar binding protein; 1.90A {Thermococcus litoralis} SCOP: b.40.6.3 b.40.6.3 c.37.1.12 PDB: 2d62_A

Probab=93.19  E-value=0.049  Score=49.85  Aligned_cols=23  Identities=30%  Similarity=0.408  Sum_probs=20.7

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYN  233 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~  233 (352)
                      -.+++|+|+.|+|||||.+.+..
T Consensus        29 Ge~~~llGpnGsGKSTLLr~iaG   51 (372)
T 1g29_1           29 GEFMILLGPSGCGKTTTLRMIAG   51 (372)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHT
T ss_pred             CCEEEEECCCCcHHHHHHHHHHc
Confidence            35899999999999999999985

>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=93.18  E-value=0.046  Score=48.48  Aligned_cols=22  Identities=32%  Similarity=0.572  Sum_probs=19.0

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYN  233 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~  233 (352)
                      +.+ +|+|..|+|||||.+.++.
T Consensus        19 ~~I-~lvG~nG~GKSTLl~~L~g   40 (301)
T 2qnr_A           19 FTL-MVVGESGLGKSTLINSLFL   40 (301)
T ss_dssp             EEE-EEEEETTSSHHHHHHHHHC
T ss_pred             EEE-EEECCCCCCHHHHHHHHhC
Confidence            444 8999999999999999775

>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=93.17  E-value=0.091  Score=49.63  Aligned_cols=82  Identities=16%  Similarity=0.224  Sum_probs=47.7

Q ss_pred             EEEEEEecCCCcHHHHH-HHHHhhhhhhccCC-eEEEEEeCCCCC-HHHHHHHHHHHhCC--------CCCC--ccc---
Q 036619          212 QVISLVGLGGIGKTTLA-QLAYNNDEVKRNFE-KVIWVCVSDTFD-QIRIAKAIIEGLGK--------SASG--LNE---  275 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa-~~v~~~~~~~~~F~-~~~wv~vs~~~~-~~~~~~~i~~~l~~--------~~~~--~~~---  275 (352)
                      ..++|+|.+|+|||+|| ..+.+..    .-+ .++++-+.+... +..+.+.+...-..        ..+.  ...   
T Consensus       164 QR~~Ifg~~g~GKT~Lal~~I~~~~----~~dv~~V~~~iGeR~~Ev~~~~~~~~~~g~m~rtvvV~atad~p~~~r~~a  239 (507)
T 1fx0_A          164 QRELIIGDRQTGKTAVATDTILNQQ----GQNVICVYVAIGQKASSVAQVVTNFQERGAMEYTIVVAETADSPATLQYLA  239 (507)
T ss_dssp             CBCBEEESSSSSHHHHHHHHHHTCC----TTTCEEEEEEESCCHHHHHHHHHHTGGGTGGGSEEEEEECTTSCGGGTTHH
T ss_pred             CEEEEecCCCCCccHHHHHHHHHhh----cCCcEEEEEEcCCCchHHHHHHHHHHhcCccccceEEEECCCCCHHHHHHH
Confidence            45689999999999996 6777753    234 356676776543 34444444332100        0010  000   


Q ss_pred             ---HHHHHHHHHHhcCCceEEEEecCC
Q 036619          276 ---FQSLMSRIQSSIKGKKNFLVLDDV  299 (352)
Q Consensus       276 ---~~~~~~~l~~~l~~kr~LlVlDdv  299 (352)
                         .-.+.+.+++  +++..||++||+
T Consensus       240 ~~~a~tiAEyfrd--~G~dVLli~Dsl  264 (507)
T 1fx0_A          240 PYTGAALAEYFMY--RERHTLIIYDDL  264 (507)
T ss_dssp             HHHHHHHHHHHHH--TTCEEEEEEECH
T ss_pred             HHHHHHHHHHHHH--cCCcEEEEEecH
Confidence               1223344444  689999999997

>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=93.17  E-value=0.05  Score=43.88  Aligned_cols=24  Identities=29%  Similarity=0.440  Sum_probs=20.3

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .--|.|+|.+|+|||||...+.+.
T Consensus         4 ~~ki~v~G~~~~GKSsli~~l~~~   27 (189)
T 4dsu_A            4 EYKLVVVGADGVGKSALTIQLIQN   27 (189)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEEEECCCCCCHHHHHHHHHhC
Confidence            345779999999999999988765

>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=93.14  E-value=0.071  Score=42.02  Aligned_cols=23  Identities=30%  Similarity=0.416  Sum_probs=19.7

Q ss_pred             EEEEEEecCCCcHHHHHHHHHhh
Q 036619          212 QVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      --|.|+|.+|+|||||...+...
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            45789999999999999888754

>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=93.14  E-value=0.032  Score=46.18  Aligned_cols=24  Identities=17%  Similarity=0.192  Sum_probs=20.9

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ...++|+|..|+|||||.+.+...
T Consensus        26 ~~~v~lvG~~g~GKSTLl~~l~g~   49 (210)
T 1pui_A           26 GIEVAFAGRSNAGKSSALNTLTNQ   49 (210)
T ss_dssp             SEEEEEEECTTSSHHHHHTTTCCC
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC
Confidence            467899999999999999888754

>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=93.13  E-value=0.24  Score=46.74  Aligned_cols=94  Identities=17%  Similarity=0.243  Sum_probs=55.1

Q ss_pred             HHHHHHcCccccCCCCeEEEEEEecCCCcHHHHH-HHHHhhhhhhccCC-eEEEEEeCCCCC-HHHHHHHHHHHhCCC--
Q 036619          195 ELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLA-QLAYNNDEVKRNFE-KVIWVCVSDTFD-QIRIAKAIIEGLGKS--  269 (352)
Q Consensus       195 ~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa-~~v~~~~~~~~~F~-~~~wv~vs~~~~-~~~~~~~i~~~l~~~--  269 (352)
                      +.++.|..-..     -..++|+|..|+|||+|+ ..+.+.    .+-+ .++++-+.+..+ +..+.+.+.+.-...  
T Consensus       151 kaID~l~Pigr-----GQR~~Ifg~~g~GKT~l~l~~I~n~----~~~dv~~V~~~IGeR~~ev~e~~~~l~~~g~m~~t  221 (513)
T 3oaa_A          151 KAVDSMIPIGR-----GQRELIIGDRQTGKTALAIDAIINQ----RDSGIKCIYVAIGQKASTISNVVRKLEEHGALANT  221 (513)
T ss_dssp             HHHHHHSCCBT-----TCBCEEEESSSSSHHHHHHHHHHTT----SSSSCEEEEEEESCCHHHHHHHHHHHHHHSCSTTE
T ss_pred             eeecccccccc-----CCEEEeecCCCCCcchHHHHHHHhh----ccCCceEEEEEecCChHHHHHHHHHHhhcCcccce
Confidence            45666655331     245789999999999996 667763    2233 457777777654 455555554431111  


Q ss_pred             -----CCCcccH---------HHHHHHHHHhcCCceEEEEecCC
Q 036619          270 -----ASGLNEF---------QSLMSRIQSSIKGKKNFLVLDDV  299 (352)
Q Consensus       270 -----~~~~~~~---------~~~~~~l~~~l~~kr~LlVlDdv  299 (352)
                           ..+....         -.+.+.+++  +++..||++||+
T Consensus       222 vvV~atad~p~~~r~~a~~~a~tiAEyfrd--~G~dVLli~Dsl  263 (513)
T 3oaa_A          222 IVVVATASESAALQYLAPYAGCAMGEYFRD--RGEDALIIYDDL  263 (513)
T ss_dssp             EEEEECTTSCHHHHHHHHHHHHHHHHHHHH--TTCEEEEEEETH
T ss_pred             EEEEECCCCChHHHHHHHHHHHHHHHHHHh--cCCCEEEEecCh
Confidence                 0111111         122333333  689999999998

>1v43_A Sugar-binding transport ATP-binding protein; ATPase, active transport, sugar uptake and regulation, transport protein; 2.20A {Pyrococcus horikoshii} SCOP: b.40.6.3 b.40.6.3 c.37.1.12 PDB: 1vci_A*

Probab=93.13  E-value=0.05  Score=49.71  Aligned_cols=23  Identities=30%  Similarity=0.424  Sum_probs=20.8

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYN  233 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~  233 (352)
                      -.+++|+|+.|+|||||.+.+..
T Consensus        37 Ge~~~llGpnGsGKSTLLr~iaG   59 (372)
T 1v43_A           37 GEFLVLLGPSGCGKTTTLRMIAG   59 (372)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHT
T ss_pred             CCEEEEECCCCChHHHHHHHHHc
Confidence            36899999999999999999875

>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=93.11  E-value=0.059  Score=44.28  Aligned_cols=23  Identities=30%  Similarity=0.521  Sum_probs=19.8

Q ss_pred             EEEEEEecCCCcHHHHHHHHHhh
Q 036619          212 QVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..|.|+|.+|+|||||.+.+.+.
T Consensus        26 ~ki~lvG~~~vGKSsLi~~l~~~   48 (198)
T 1f6b_A           26 GKLVFLGLDNAGKTTLLHMLKDD   48 (198)
T ss_dssp             EEEEEEEETTSSHHHHHHHHSCC
T ss_pred             cEEEEECCCCCCHHHHHHHHhcC
Confidence            45789999999999999988763

>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=93.08  E-value=0.06  Score=43.17  Aligned_cols=24  Identities=21%  Similarity=0.394  Sum_probs=20.7

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ...|.|+|.+|+|||||...+.+.
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            567789999999999999888754

>1cp2_A CP2, nitrogenase iron protein; oxidoreductase; 1.93A {Clostridium pasteurianum} SCOP: c.37.1.10

Probab=93.08  E-value=0.14  Score=44.21  Aligned_cols=38  Identities=24%  Similarity=0.288  Sum_probs=26.0

Q ss_pred             EEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCC
Q 036619          212 QVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSD  251 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~  251 (352)
                      ++|+|.|-||+||||+|..+...-  ...-..++-|....
T Consensus         2 ~vI~vs~KGGvGKTT~a~nLA~~l--a~~G~~VlliD~D~   39 (269)
T 1cp2_A            2 RQVAIYGKGGIGKSTTTQNLTSGL--HAMGKTIMVVGCDP   39 (269)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHH--HTTTCCEEEEEECT
T ss_pred             cEEEEecCCCCcHHHHHHHHHHHH--HHCCCcEEEEcCCC
Confidence            578889999999999998877632  22222455565543

>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=93.07  E-value=0.04  Score=44.08  Aligned_cols=24  Identities=17%  Similarity=0.200  Sum_probs=20.1

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .--|.++|.+|+|||||...+.+.
T Consensus         7 ~~ki~~vG~~~vGKTsli~~l~~~   30 (178)
T 2iwr_A            7 ELRLGVLGDARSGKSSLIHRFLTG   30 (178)
T ss_dssp             EEEEEEECCGGGCHHHHHHHHHHS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhC
Confidence            345779999999999999888764

>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=93.06  E-value=0.071  Score=42.14  Aligned_cols=24  Identities=33%  Similarity=0.349  Sum_probs=20.4

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ...|.|+|.+|+|||||...+...
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            456789999999999999888754

>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=93.03  E-value=0.24  Score=47.44  Aligned_cols=58  Identities=12%  Similarity=0.163  Sum_probs=39.5

Q ss_pred             HHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCC-CHHHHHHH
Q 036619          195 ELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTF-DQIRIAKA  261 (352)
Q Consensus       195 ~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~-~~~~~~~~  261 (352)
                      +.++.|..-.     +-..++|.|..|+|||+|+..+.+.    .+-+.++++-+.+.. .+.+++++
T Consensus       221 rvID~l~Pig-----rGqr~~Ifgg~g~GKT~L~~~ia~~----~~~~v~V~~~iGER~~Ev~e~~~~  279 (600)
T 3vr4_A          221 RVIDTFFPVT-----KGGAAAVPGPFGAGKTVVQHQIAKW----SDVDLVVYVGCGERGNEMTDVVNE  279 (600)
T ss_dssp             HHHHHHSCCB-----TTCEEEEECCTTSCHHHHHHHHHHH----SSCSEEEEEEEEECHHHHHHHHHH
T ss_pred             hhhhccCCcc-----CCCEEeeecCCCccHHHHHHHHHhc----cCCCEEEEEEecccHHHHHHHHHH
Confidence            5677776543     2356889999999999999998874    234577777777653 33344433

>3gmt_A Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucleotide biosynthesis, nucleotide-BIND transferase, structural genomics; 2.10A {Burkholderia pseudomallei 1710B}

Probab=93.01  E-value=0.055  Score=45.88  Aligned_cols=25  Identities=28%  Similarity=0.316  Sum_probs=20.8

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ....++|.|++|+||||+|+.+...
T Consensus         7 ~~~~~~~~G~pGsGKsT~a~~L~~~   31 (230)
T 3gmt_A            7 HHMRLILLGAPGAGKGTQANFIKEK   31 (230)
T ss_dssp             --CEEEEECCTTSCHHHHHHHHHHH
T ss_pred             cccceeeECCCCCCHHHHHHHHHHH
Confidence            3467899999999999999999874

>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=93.00  E-value=0.072  Score=42.41  Aligned_cols=25  Identities=20%  Similarity=0.234  Sum_probs=21.3

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ...-|.|+|.+|+|||||...+...
T Consensus        14 ~~~~i~v~G~~~~GKSsli~~l~~~   38 (179)
T 1z0f_A           14 YIFKYIIIGDMGVGKSCLLHQFTEK   38 (179)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             cceEEEEECCCCCCHHHHHHHHHcC
Confidence            3566889999999999999888765

>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=93.00  E-value=0.063  Score=47.72  Aligned_cols=26  Identities=23%  Similarity=0.350  Sum_probs=23.3

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      +....|+|+|.+|+|||||...+...
T Consensus         8 ~~~g~v~ivG~~nvGKSTLin~l~g~   33 (308)
T 3iev_A            8 MKVGYVAIVGKPNVGKSTLLNNLLGT   33 (308)
T ss_dssp             CEEEEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CCCCEEEEECCCCCcHHHHHHHHhCC
Confidence            56899999999999999999888764

>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=92.99  E-value=0.066  Score=46.96  Aligned_cols=39  Identities=28%  Similarity=0.299  Sum_probs=26.4

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCC
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSD  251 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~  251 (352)
                      .++|+|.|-||+||||+|..+...-.  ..=..++-|....
T Consensus         2 MkvIavs~KGGvGKTT~a~nLA~~La--~~G~rVlliD~D~   40 (289)
T 2afh_E            2 MRQCAIYGKGGIGKSTTTQNLVAALA--EMGKKVMIVGCDP   40 (289)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHHHH--HTTCCEEEEEECS
T ss_pred             ceEEEEeCCCcCcHHHHHHHHHHHHH--HCCCeEEEEecCC
Confidence            46888899999999999988776422  2212455555543

>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=92.99  E-value=0.055  Score=43.74  Aligned_cols=25  Identities=24%  Similarity=0.244  Sum_probs=21.1

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..--|.|+|.+|+|||||...+.+.
T Consensus        10 ~~~ki~v~G~~~~GKSsli~~l~~~   34 (195)
T 3bc1_A           10 YLIKFLALGDSGVGKTSVLYQYTDG   34 (195)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eeEEEEEECCCCCCHHHHHHHHhcC
Confidence            3456789999999999999888764

>3d31_A Sulfate/molybdate ABC transporter, ATP-binding protein; ATP-binding, nucleotide-binding, membrane, transmembrane, transport protein; 3.00A {Methanosarcina acetivorans} SCOP: b.40.6.3 c.37.1.12

Probab=92.98  E-value=0.041  Score=49.81  Aligned_cols=124  Identities=15%  Similarity=0.156  Sum_probs=64.5

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhhhhhhc---cCC------------eEEEEEeCCCC------CHH-------------
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNNDEVKR---NFE------------KVIWVCVSDTF------DQI-------------  256 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~---~F~------------~~~wv~vs~~~------~~~-------------  256 (352)
                      -.+++|+|+.|+|||||.+.+..-.....   .|+            .+.+|  .+.+      ++.             
T Consensus        26 Ge~~~llGpnGsGKSTLLr~iaGl~~p~~G~I~~~g~~i~~~~~~~r~ig~v--~Q~~~l~~~ltv~enl~~~~~~~~~~  103 (348)
T 3d31_A           26 GEYFVILGPTGAGKTLFLELIAGFHVPDSGRILLDGKDVTDLSPEKHDIAFV--YQNYSLFPHMNVKKNLEFGMRMKKIK  103 (348)
T ss_dssp             TCEEEEECCCTHHHHHHHHHHHTSSCCSEEEEEETTEECTTSCHHHHTCEEE--CTTCCCCTTSCHHHHHHHHHHHHCCC
T ss_pred             CCEEEEECCCCccHHHHHHHHHcCCCCCCcEEEECCEECCCCchhhCcEEEE--ecCcccCCCCCHHHHHHHHHHHcCCC
Confidence            35899999999999999999986311100   000            12222  2221      221             


Q ss_pred             --HHHHHHHHHhCCCCC------CcccHHHHHHHHHHhcCCceEEEEecCCCCC-CccChhHHHHhhccC--CCCcEEEE
Q 036619          257 --RIAKAIIEGLGKSAS------GLNEFQSLMSRIQSSIKGKKNFLVLDDVWDG-DYNKWQPFFRCLKNG--LHGSKILV  325 (352)
Q Consensus       257 --~~~~~i~~~l~~~~~------~~~~~~~~~~~l~~~l~~kr~LlVlDdvw~~-~~~~~~~l~~~l~~~--~~gs~Iiv  325 (352)
                        .-..++++.++....      ..+.-+.-.-.|...|-.++=+|+||.--+. |...-..+...+..-  ..|..||+
T Consensus       104 ~~~~v~~~l~~~~L~~~~~~~~~~LSgGq~QRvalAraL~~~P~lLLLDEP~s~LD~~~~~~l~~~l~~l~~~~g~tii~  183 (348)
T 3d31_A          104 DPKRVLDTARDLKIEHLLDRNPLTLSGGEQQRVALARALVTNPKILLLDEPLSALDPRTQENAREMLSVLHKKNKLTVLH  183 (348)
T ss_dssp             CHHHHHHHHHHTTCTTTTTSCGGGSCHHHHHHHHHHHHTTSCCSEEEEESSSTTSCHHHHHHHHHHHHHHHHHTTCEEEE
T ss_pred             HHHHHHHHHHHcCCchHhcCChhhCCHHHHHHHHHHHHHHcCCCEEEEECccccCCHHHHHHHHHHHHHHHHhcCCEEEE
Confidence              112334555543211      1122232233455666677778999987443 222223344444321  23667888


Q ss_pred             ecCChHHHHHh
Q 036619          326 TTRNESVARMM  336 (352)
Q Consensus       326 TTR~~~va~~~  336 (352)
                      +|.+.+.+..+
T Consensus       184 vTHd~~~~~~~  194 (348)
T 3d31_A          184 ITHDQTEARIM  194 (348)
T ss_dssp             EESCHHHHHHH
T ss_pred             EeCCHHHHHHh
Confidence            99887766544

>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=92.96  E-value=0.056  Score=43.31  Aligned_cols=23  Identities=35%  Similarity=0.297  Sum_probs=19.6

Q ss_pred             EEEEEEecCCCcHHHHHHHHHhh
Q 036619          212 QVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      --|.|+|.+|+|||||...+...
T Consensus         9 ~ki~v~G~~~~GKssl~~~~~~~   31 (182)
T 3bwd_D            9 IKCVTVGDGAVGKTCLLISYTSN   31 (182)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHhcC
Confidence            45679999999999999888764

>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=92.96  E-value=0.057  Score=44.19  Aligned_cols=24  Identities=25%  Similarity=0.499  Sum_probs=19.8

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .--|.|+|.+|+|||||.+.+.+.
T Consensus        20 ~~ki~~vG~~~vGKTsLi~~l~~~   43 (196)
T 3llu_A           20 KPRILLMGLRRSGKSSIQKVVFHK   43 (196)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHHSC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhc
Confidence            445679999999999999877663

>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=92.95  E-value=0.056  Score=43.42  Aligned_cols=24  Identities=33%  Similarity=0.603  Sum_probs=20.6

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..-|.|+|.+|+|||||...+...
T Consensus        18 ~~ki~v~G~~~~GKSsli~~l~~~   41 (187)
T 2a9k_A           18 LHKVIMVGSGGVGKSALTLQFMYD   41 (187)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECCCCCCHHHHHHHHhhC
Confidence            456789999999999999888764

>4bas_A ADP-ribosylation factor, putative (small GTPase, putative); hydrolase; HET: GNP; 2.00A {Trypanosoma brucei TREU927}

Probab=92.94  E-value=0.061  Score=43.82  Aligned_cols=26  Identities=23%  Similarity=0.276  Sum_probs=22.0

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .....|.|+|.+|+|||||...+...
T Consensus        15 ~~~~ki~v~G~~~~GKSsl~~~l~~~   40 (199)
T 4bas_A           15 KTKLQVVMCGLDNSGKTTIINQVKPA   40 (199)
T ss_dssp             -CEEEEEEECCTTSCHHHHHHHHSCC
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHhcC
Confidence            44677889999999999999988765

>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=92.94  E-value=0.056  Score=43.24  Aligned_cols=24  Identities=25%  Similarity=0.286  Sum_probs=20.5

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .--|.|+|.+|+|||||...+...
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            456789999999999999888764

>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=92.93  E-value=0.057  Score=44.19  Aligned_cols=23  Identities=35%  Similarity=0.546  Sum_probs=19.5

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYN  233 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~  233 (352)
                      .--|.|+|.+|+|||||...+..
T Consensus         6 ~~kv~lvG~~~vGKSsL~~~~~~   28 (192)
T 2cjw_A            6 YYRVVLIGEQGVGKSTLANIFAG   28 (192)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEEEECCCCCCHHHHHHHHhc
Confidence            45678999999999999988764

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens}

Probab=92.93  E-value=0.06  Score=42.97  Aligned_cols=25  Identities=28%  Similarity=0.413  Sum_probs=21.4

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..--|.|+|.+|+|||||...+...
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            4566789999999999999988765

>2obl_A ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O127} PDB: 2obm_A*

Probab=92.93  E-value=0.06  Score=48.78  Aligned_cols=24  Identities=33%  Similarity=0.433  Sum_probs=21.8

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      -.+++|+|..|+|||||.+.+.+.
T Consensus        71 Gq~~gIiG~nGaGKTTLl~~I~g~   94 (347)
T 2obl_A           71 GQRIGIFAGSGVGKSTLLGMICNG   94 (347)
T ss_dssp             TCEEEEEECTTSSHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcC
Confidence            468999999999999999999985

>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=92.92  E-value=0.061  Score=43.74  Aligned_cols=24  Identities=17%  Similarity=0.313  Sum_probs=20.4

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .--|.|+|.+|+|||||...+.+.
T Consensus        23 ~~ki~v~G~~~~GKSsli~~l~~~   46 (191)
T 3dz8_A           23 MFKLLIIGNSSVGKTSFLFRYADD   46 (191)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             eeEEEEECCCCcCHHHHHHHHhcC
Confidence            345779999999999999888865

>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=92.91  E-value=0.081  Score=43.33  Aligned_cols=25  Identities=32%  Similarity=0.586  Sum_probs=21.1

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ...-|.|+|.+|+|||||...+...
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            3567889999999999999888754

>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=92.90  E-value=0.059  Score=44.63  Aligned_cols=24  Identities=29%  Similarity=0.281  Sum_probs=20.6

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .--|.|+|.+|+|||||...+...
T Consensus        28 ~~ki~vvG~~~vGKSsLi~~l~~~   51 (205)
T 1gwn_A           28 KCKIVVVGDSQCGKTALLHVFAKD   51 (205)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eeEEEEECCCCCCHHHHHHHHhcC
Confidence            456779999999999999888764

>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=92.90  E-value=0.061  Score=47.64  Aligned_cols=25  Identities=28%  Similarity=0.352  Sum_probs=21.8

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ....++|+|.+|+|||||...+...
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            3568999999999999999888764

>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=92.89  E-value=0.057  Score=44.11  Aligned_cols=24  Identities=21%  Similarity=0.372  Sum_probs=20.3

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .--|.|+|.+|+|||||...+...
T Consensus        28 ~~ki~v~G~~~vGKSsli~~l~~~   51 (196)
T 2atv_A           28 EVKLAIFGRAGVGKSALVVRFLTK   51 (196)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhC
Confidence            345779999999999999888764

>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=92.89  E-value=0.06  Score=43.85  Aligned_cols=24  Identities=21%  Similarity=0.344  Sum_probs=20.6

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .--|.|+|..|+|||||...+...
T Consensus        23 ~~ki~vvG~~~~GKSsli~~l~~~   46 (192)
T 2fg5_A           23 ELKVCLLGDTGVGKSSIVCRFVQD   46 (192)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHC
T ss_pred             ceEEEEECcCCCCHHHHHHHHhcC
Confidence            456789999999999999888764

>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=92.88  E-value=0.088  Score=42.23  Aligned_cols=25  Identities=28%  Similarity=0.493  Sum_probs=21.1

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..--|.|+|.+|+|||||...+.+.
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            3456789999999999999888864

>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=92.88  E-value=0.066  Score=51.35  Aligned_cols=25  Identities=32%  Similarity=0.365  Sum_probs=21.9

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ...+|.++|++|.||||+|+.+...
T Consensus        34 ~~~lIvlvGlpGSGKSTia~~La~~   58 (520)
T 2axn_A           34 SPTVIVMVGLPARGKTYISKKLTRY   58 (520)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHH
Confidence            3578999999999999999999764

>3ch4_B Pmkase, phosphomevalonate kinase; parallel beta-sheet with the strand order 23145, walker A motif, cholesterol biosynthesis, lipid synthesis; 1.76A {Homo sapiens}

Probab=92.87  E-value=0.086  Score=43.64  Aligned_cols=25  Identities=16%  Similarity=0.115  Sum_probs=21.9

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHh
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYN  233 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~  233 (352)
                      ....+|+|+|++|+||+|+|..+.+
T Consensus         9 ~~~~II~itGk~~SGKd~va~~l~~   33 (202)
T 3ch4_B            9 APRLVLLFSGKRKSGKDFVTEALQS   33 (202)
T ss_dssp             CCSEEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCChHHHHHHHHH
Confidence            3467999999999999999988865

>3cmw_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 2.80A {Escherichia coli} PDB: 3cmt_A* 3cmx_A* 3cmv_A*

Probab=92.84  E-value=0.23  Score=53.92  Aligned_cols=85  Identities=18%  Similarity=0.225  Sum_probs=59.5

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCC-----CcccHHHHHHHH
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSAS-----GLNEFQSLMSRI  283 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~-----~~~~~~~~~~~l  283 (352)
                      +.-++|-|+|+.|+||||||-++...  ....=..++|+.+.+..+..-     ++.++....     .....++....+
T Consensus      1429 prg~~iei~g~~~sGkttl~~~~~a~--~~~~g~~~~~i~~e~~~~~~~-----~~~~Gv~~~~l~~~~p~~~e~~l~~~ 1501 (1706)
T 3cmw_A         1429 PMGRIVEIYGPESSGKTTLTLQVIAA--AQREGKTCAFIDAEHALDPIY-----ARKLGVDIDNLLCSQPDTGEQALEIC 1501 (1706)
T ss_dssp             ETTSEEEEECSTTSSHHHHHHHHHHH--HHHTTCCEEEECTTSCCCHHH-----HHHTTCCGGGCEEECCSSHHHHHHHH
T ss_pred             CCCCEEEEEcCCCCCHHHHHHHHHHH--HHhcCCeEEEEecCCCCCHHH-----HHHcCCCHHHeEEeCCCcHHHHHHHH
Confidence            34589999999999999999888863  344456799999888777653     666665422     223335555556


Q ss_pred             HHhcC-CceEEEEecCCC
Q 036619          284 QSSIK-GKKNFLVLDDVW  300 (352)
Q Consensus       284 ~~~l~-~kr~LlVlDdvw  300 (352)
                      ...++ +.--+||+|-|-
T Consensus      1502 ~~~~~s~~~~~vvvDsv~ 1519 (1706)
T 3cmw_A         1502 DALARSGAVDVIVVDSVA 1519 (1706)
T ss_dssp             HHHHHHTCCSEEEESCST
T ss_pred             HHHHHcCCCCEEEEccHH
Confidence            66664 455699999883

>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=92.83  E-value=0.078  Score=43.06  Aligned_cols=24  Identities=33%  Similarity=0.475  Sum_probs=20.7

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .--|.|+|..|+|||||...+...
T Consensus        25 ~~ki~v~G~~~~GKSsLi~~l~~~   48 (193)
T 2oil_A           25 VFKVVLIGESGVGKTNLLSRFTRN   48 (193)
T ss_dssp             EEEEEEESSTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECcCCCCHHHHHHHHhcC
Confidence            456789999999999999888764

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens}

Probab=92.81  E-value=0.063  Score=44.09  Aligned_cols=25  Identities=24%  Similarity=0.400  Sum_probs=21.3

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ...-|.|+|.+|+|||||...+.+.
T Consensus        23 ~~~ki~vvG~~~~GKSsli~~l~~~   47 (201)
T 3oes_A           23 RYRKVVILGYRCVGKTSLAHQFVEG   47 (201)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             CcEEEEEECCCCcCHHHHHHHHHhC
Confidence            3556789999999999999888865

>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=92.79  E-value=0.075  Score=44.71  Aligned_cols=25  Identities=20%  Similarity=0.352  Sum_probs=21.4

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ....|.|+|.+|+|||||...+...
T Consensus        28 ~~~kI~vvG~~~vGKSsLin~l~~~   52 (228)
T 2qu8_A           28 HKKTIILSGAPNVGKSSFMNIVSRA   52 (228)
T ss_dssp             TSEEEEEECSTTSSHHHHHHHHTTT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            3567789999999999999988765

>1xx6_A Thymidine kinase; NESG, northeast structural genomics consortium, protein STRU initiative, PSI, structural genomics, DNA synthesis; HET: ADP; 2.00A {Clostridium acetobutylicum} SCOP: c.37.1.24 g.39.1.14

Probab=92.78  E-value=0.039  Score=45.41  Aligned_cols=108  Identities=11%  Similarity=0.082  Sum_probs=53.5

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCC--CcccHHHHHHHHHHhcC
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSAS--GLNEFQSLMSRIQSSIK  288 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~--~~~~~~~~~~~l~~~l~  288 (352)
                      -.+..++|..|.||||.+..+.++.. ...+.+.++-..-..   ..-...+...++....  ...+..    .+.+.+.
T Consensus         8 g~i~v~~G~mgsGKTT~ll~~a~r~~-~~g~kV~v~k~~~d~---r~~~~~i~s~~g~~~~a~~~~~~~----~i~~~~~   79 (191)
T 1xx6_A            8 GWVEVIVGPMYSGKSEELIRRIRRAK-IAKQKIQVFKPEIDN---RYSKEDVVSHMGEKEQAVAIKNSR----EILKYFE   79 (191)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHHH-HTTCCEEEEEEC----------CEEECTTSCEEECEEESSST----HHHHHCC
T ss_pred             CEEEEEECCCCCcHHHHHHHHHHHHH-HCCCEEEEEEeccCc---cchHHHHHhhcCCceeeEeeCCHH----HHHHHHh
Confidence            46889999999999999976666533 233334333222111   1001112222221100  011111    2333444


Q ss_pred             CceEEEEecCCCCCCccChhHHHHhhccCCCCcEEEEecCC
Q 036619          289 GKKNFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKILVTTRN  329 (352)
Q Consensus       289 ~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTTR~  329 (352)
                      ++-=+|++|.+..-+.+..+.+....+   .|..||+|.++
T Consensus        80 ~~~dvViIDEaqfl~~~~v~~l~~l~~---~~~~Vi~~Gl~  117 (191)
T 1xx6_A           80 EDTEVIAIDEVQFFDDEIVEIVNKIAE---SGRRVICAGLD  117 (191)
T ss_dssp             TTCSEEEECSGGGSCTHHHHHHHHHHH---TTCEEEEEECS
T ss_pred             ccCCEEEEECCCCCCHHHHHHHHHHHh---CCCEEEEEecc
Confidence            333499999986643333443433322   26789999874

>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=92.77  E-value=0.062  Score=42.93  Aligned_cols=24  Identities=33%  Similarity=0.354  Sum_probs=20.6

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .--|.|+|.+|+|||||...+...
T Consensus        10 ~~~i~v~G~~~~GKssli~~l~~~   33 (180)
T 2g6b_A           10 AFKVMLVGDSGVGKTCLLVRFKDG   33 (180)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECcCCCCHHHHHHHHHhC
Confidence            456789999999999999888764

>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=92.76  E-value=0.081  Score=42.43  Aligned_cols=24  Identities=33%  Similarity=0.306  Sum_probs=20.1

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .--|.|+|.+|+|||||...+.+.
T Consensus         5 ~~~i~~~G~~~~GKssl~~~l~~~   28 (186)
T 1mh1_A            5 AIKCVVVGDGAVGKTCLLISYTTN   28 (186)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEEEECCCCCCHHHHHHHHHcC
Confidence            345789999999999999888754

>3gd7_A Fusion complex of cystic fibrosis transmembrane conductance regulator, residues 1193-1427...; CFTR, ABC transporter, nucleotide binding domain, NBD; HET: B44; 2.70A {Homo sapiens}

Probab=92.75  E-value=0.064  Score=49.36  Aligned_cols=23  Identities=35%  Similarity=0.397  Sum_probs=20.8

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYN  233 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~  233 (352)
                      -.+++|+|+.|+|||||.+.+..
T Consensus        47 Ge~~~llGpsGsGKSTLLr~iaG   69 (390)
T 3gd7_A           47 GQRVGLLGRTGSGKSTLLSAFLR   69 (390)
T ss_dssp             TCEEEEEESTTSSHHHHHHHHHT
T ss_pred             CCEEEEECCCCChHHHHHHHHhC
Confidence            46899999999999999999875

>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=92.73  E-value=0.064  Score=43.98  Aligned_cols=23  Identities=43%  Similarity=0.576  Sum_probs=19.9

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHH
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAY  232 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~  232 (352)
                      ..-.|.|+|.+|+|||||...+.
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            35678899999999999998885

>1oxx_K GLCV, glucose, ABC transporter, ATP binding protein; ABC-ATPase, ATP-binding cassette, ATPase, transport protein; 1.45A {Sulfolobus solfataricus} SCOP: b.40.6.3 c.37.1.12 PDB: 1oxs_C 1oxt_A 1oxu_A* 1oxv_A*

Probab=92.72  E-value=0.038  Score=50.16  Aligned_cols=56  Identities=14%  Similarity=0.194  Sum_probs=33.4

Q ss_pred             HHHHHhcCCceEEEEecCCCCC-CccChhHHHHhhccC--CCCcEEEEecCChHHHHHh
Q 036619          281 SRIQSSIKGKKNFLVLDDVWDG-DYNKWQPFFRCLKNG--LHGSKILVTTRNESVARMM  336 (352)
Q Consensus       281 ~~l~~~l~~kr~LlVlDdvw~~-~~~~~~~l~~~l~~~--~~gs~IivTTR~~~va~~~  336 (352)
                      -.|...|-.+.=+|+||.--+. |...-..+...+..-  ..|..||++|.+.+.+..+
T Consensus       149 valAraL~~~P~lLLLDEP~s~LD~~~r~~l~~~l~~l~~~~g~tvi~vTHd~~~~~~~  207 (353)
T 1oxx_K          149 VALARALVKDPSLLLLDEPFSNLDARMRDSARALVKEVQSRLGVTLLVVSHDPADIFAI  207 (353)
T ss_dssp             HHHHHHHTTCCSEEEEESTTTTSCGGGHHHHHHHHHHHHHHHCCEEEEEESCHHHHHHH
T ss_pred             HHHHHHHHhCCCEEEEECCcccCCHHHHHHHHHHHHHHHHhcCCEEEEEeCCHHHHHHh
Confidence            3455566667778999986443 323333444444321  1266788899987766544

>2h92_A Cytidylate kinase; rossmann fold, transferase; HET: C5P PG4; 2.30A {Staphylococcus aureus}

Probab=92.72  E-value=0.055  Score=45.23  Aligned_cols=22  Identities=32%  Similarity=0.360  Sum_probs=19.8

Q ss_pred             EEEEEEecCCCcHHHHHHHHHh
Q 036619          212 QVISLVGLGGIGKTTLAQLAYN  233 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~  233 (352)
                      .+|.|.|+.|+||||+++.+..
T Consensus         4 ~~i~i~G~~gsGkst~~~~l~~   25 (219)
T 2h92_A            4 INIALDGPAAAGKSTIAKRVAS   25 (219)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            4789999999999999998876

>2gza_A Type IV secretion system protein VIRB11; ATPase, hydrolase; 2.60A {Brucella suis}

Probab=92.70  E-value=0.054  Score=49.35  Aligned_cols=23  Identities=39%  Similarity=0.521  Sum_probs=20.8

Q ss_pred             EEEEEEecCCCcHHHHHHHHHhh
Q 036619          212 QVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .+++|+|+.|+|||||++.+..-
T Consensus       176 ~~i~ivG~sGsGKSTll~~l~~~  198 (361)
T 2gza_A          176 RVIVVAGETGSGKTTLMKALMQE  198 (361)
T ss_dssp             CCEEEEESSSSCHHHHHHHHHTT
T ss_pred             CEEEEECCCCCCHHHHHHHHHhc
Confidence            57899999999999999999874

>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=92.69  E-value=0.082  Score=43.38  Aligned_cols=25  Identities=32%  Similarity=0.448  Sum_probs=21.3

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ....|.|+|.+|+|||||...+...
T Consensus         7 ~~~ki~v~G~~~~GKSsli~~l~~~   31 (207)
T 1vg8_A            7 VLLKVIILGDSGVGKTSLMNQYVNK   31 (207)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             cceEEEEECcCCCCHHHHHHHHHcC
Confidence            4567889999999999999888764

>3f9v_A Minichromosome maintenance protein MCM; replicative helicase, DNA replication, MCM complex, AAA+ Pro ATP-binding, DNA-binding, helicase; 4.35A {Sulfolobus solfataricus}

Probab=92.68  E-value=0.033  Score=54.35  Aligned_cols=22  Identities=23%  Similarity=0.300  Sum_probs=19.6

Q ss_pred             EEEEEecCCCcHHHHHHHHHhh
Q 036619          213 VISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      -+.++|++|+|||+||+.+.+.
T Consensus       329 ~vLL~GppGtGKT~LAr~la~~  350 (595)
T 3f9v_A          329 HILIIGDPGTAKSQMLQFISRV  350 (595)
T ss_dssp             CEEEEESSCCTHHHHHHSSSTT
T ss_pred             ceEEECCCchHHHHHHHHHHHh
Confidence            4779999999999999999863

>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=92.63  E-value=0.066  Score=43.92  Aligned_cols=24  Identities=21%  Similarity=0.329  Sum_probs=20.8

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .--|.|+|.+|+|||||...+.+.
T Consensus         8 ~~ki~v~G~~~~GKSsli~~l~~~   31 (203)
T 1zbd_A            8 MFKILIIGNSSVGKTSFLFRYADD   31 (203)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHTC
T ss_pred             eeEEEEECCCCCCHHHHHHHHhcC
Confidence            456789999999999999888765

>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=92.60  E-value=0.066  Score=43.38  Aligned_cols=24  Identities=21%  Similarity=0.329  Sum_probs=20.8

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .--|.|+|.+|+|||||...+...
T Consensus        22 ~~ki~vvG~~~~GKSsli~~l~~~   45 (189)
T 2gf9_A           22 MFKLLLIGNSSVGKTSFLFRYADD   45 (189)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eeEEEEECCCCCCHHHHHHHHHcC
Confidence            456789999999999999888765

>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=92.60  E-value=0.085  Score=44.79  Aligned_cols=25  Identities=28%  Similarity=0.327  Sum_probs=21.7

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ....|+|+|.+|+|||||...+...
T Consensus        28 ~~~~i~lvG~~g~GKStlin~l~g~   52 (239)
T 3lxx_A           28 SQLRIVLVGKTGAGKSATGNSILGR   52 (239)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHTS
T ss_pred             CceEEEEECCCCCCHHHHHHHHcCC
Confidence            4567889999999999999988865

>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=92.60  E-value=0.068  Score=43.91  Aligned_cols=24  Identities=29%  Similarity=0.410  Sum_probs=20.1

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .--|.|+|.+|+|||||...+.+.
T Consensus        25 ~~ki~v~G~~~~GKSsLi~~l~~~   48 (200)
T 2o52_A           25 LFKFLVIGSAGTGKSCLLHQFIEN   48 (200)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHC-
T ss_pred             ceEEEEECcCCCCHHHHHHHHHhC
Confidence            456789999999999999888754

>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=92.60  E-value=0.066  Score=43.59  Aligned_cols=24  Identities=33%  Similarity=0.353  Sum_probs=20.7

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .--|.|+|.+|+|||||...+.+.
T Consensus        23 ~~ki~~vG~~~~GKSsl~~~l~~~   46 (194)
T 3reg_A           23 ALKIVVVGDGAVGKTCLLLAFSKG   46 (194)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eeEEEEECcCCCCHHHHHHHHhcC
Confidence            456779999999999999988865

>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=92.58  E-value=0.066  Score=44.38  Aligned_cols=24  Identities=29%  Similarity=0.307  Sum_probs=20.1

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ...|.|+|.+|+|||||...+...
T Consensus         7 ~~ki~vvG~~~~GKTsli~~l~~~   30 (214)
T 2fh5_B            7 QRAVLFVGLCDSGKTLLFVRLLTG   30 (214)
T ss_dssp             -CEEEEECSTTSSHHHHHHHHHHS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            456789999999999999888764

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=92.58  E-value=0.067  Score=43.47  Aligned_cols=25  Identities=28%  Similarity=0.347  Sum_probs=21.3

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..--|.|+|..|+|||||...+.+.
T Consensus        15 ~~~ki~v~G~~~~GKSsli~~l~~~   39 (196)
T 3tkl_A           15 YLFKLLLIGDSGVGKSCLLLRFADD   39 (196)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             cceEEEEECcCCCCHHHHHHHHHcC
Confidence            3556889999999999999888865

>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=92.56  E-value=0.068  Score=43.34  Aligned_cols=24  Identities=33%  Similarity=0.383  Sum_probs=20.4

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .--|.|+|.+|+|||||...+.+.
T Consensus        22 ~~ki~v~G~~~~GKSsli~~l~~~   45 (188)
T 1zd9_A           22 EMELTLVGLQYSGKTTFVNVIASG   45 (188)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             ccEEEEECCCCCCHHHHHHHHHcC
Confidence            455789999999999999888764

>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=92.56  E-value=0.084  Score=43.53  Aligned_cols=24  Identities=33%  Similarity=0.306  Sum_probs=20.0

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .--|.|+|.+|+|||||...+.+.
T Consensus        30 ~~ki~vvG~~~~GKSsLi~~l~~~   53 (204)
T 4gzl_A           30 AIKCVVVGDGAVGKTCLLISYTTN   53 (204)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECcCCCCHHHHHHHHHhC
Confidence            345679999999999999888764

>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=92.54  E-value=0.071  Score=42.89  Aligned_cols=24  Identities=33%  Similarity=0.349  Sum_probs=20.4

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .-.|.|+|..|+|||||...+...
T Consensus        21 ~~~i~v~G~~~~GKSsli~~l~~~   44 (181)
T 2h17_A           21 EHKVIIVGLDNAGKTTILYQFSMN   44 (181)
T ss_dssp             CEEEEEEEETTSSHHHHHHHHHTT
T ss_pred             eeEEEEECCCCCCHHHHHHHHhcC
Confidence            356779999999999999888764

>1p9r_A General secretion pathway protein E; bacterial type II secretion system cytoplasmic protein - GSPE, putative ATPase/ ATP binding protein; 2.50A {Vibrio cholerae} SCOP: c.37.1.11 PDB: 1p9w_A*

Probab=92.52  E-value=0.13  Score=47.86  Aligned_cols=24  Identities=25%  Similarity=0.313  Sum_probs=21.4

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      -.+++|+|+.|+|||||.+.+...
T Consensus       167 ggii~I~GpnGSGKTTlL~allg~  190 (418)
T 1p9r_A          167 HGIILVTGPTGSGKSTTLYAGLQE  190 (418)
T ss_dssp             SEEEEEECSTTSCHHHHHHHHHHH
T ss_pred             CCeEEEECCCCCCHHHHHHHHHhh
Confidence            468999999999999999988763

>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=92.51  E-value=0.068  Score=43.43  Aligned_cols=24  Identities=25%  Similarity=0.328  Sum_probs=20.3

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .--|.|+|.+|+|||||...+.+.
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            455779999999999999888764

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens}

Probab=92.50  E-value=0.068  Score=43.77  Aligned_cols=24  Identities=38%  Similarity=0.349  Sum_probs=19.9

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .--|.|+|.+|+|||||...+.+.
T Consensus        20 ~~ki~~~G~~~~GKssl~~~l~~~   43 (201)
T 2q3h_A           20 GVKCVLVGDGAVGKTSLVVSYTTN   43 (201)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHC-
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhC
Confidence            455779999999999999888765

>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=92.45  E-value=0.073  Score=43.78  Aligned_cols=25  Identities=28%  Similarity=0.364  Sum_probs=21.1

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..--|.|+|.+|+|||||...+.+.
T Consensus         7 ~~~ki~v~G~~~~GKSsli~~l~~~   31 (206)
T 2bcg_Y            7 YLFKLLLIGNSGVGKSCLLLRFSDD   31 (206)
T ss_dssp             EEEEEEEEESTTSSHHHHHHHHHHC
T ss_pred             cceEEEEECCCCCCHHHHHHHHhcC
Confidence            3456789999999999999888764

>1h65_A Chloroplast outer envelope protein OEP34; GTPase, translocon; HET: GDP; 2.0A {Pisum sativum} SCOP: c.37.1.8 PDB: 3bb1_A*

Probab=92.44  E-value=0.15  Score=44.29  Aligned_cols=25  Identities=24%  Similarity=0.438  Sum_probs=21.4

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ....|.++|.+|+|||||...+...
T Consensus        38 ~~~~I~vvG~~g~GKSSLin~l~~~   62 (270)
T 1h65_A           38 NSLTILVMGKGGVGKSSTVNSIIGE   62 (270)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHTS
T ss_pred             CCeEEEEECCCCCCHHHHHHHHhCC
Confidence            3567889999999999999888865

>1moz_A ARL1, ADP-ribosylation factor-like protein 1; GTP-binding, protein binding; HET: GDP; 3.17A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=92.43  E-value=0.066  Score=42.97  Aligned_cols=24  Identities=33%  Similarity=0.332  Sum_probs=20.3

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ...|.|+|.+|+|||||...+...
T Consensus        18 ~~~i~v~G~~~~GKssli~~l~~~   41 (183)
T 1moz_A           18 ELRILILGLDGAGKTTILYRLQIG   41 (183)
T ss_dssp             CEEEEEEEETTSSHHHHHHHTCCS
T ss_pred             ccEEEEECCCCCCHHHHHHHHhcC
Confidence            456779999999999999888753

>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=92.41  E-value=0.074  Score=44.26  Aligned_cols=24  Identities=38%  Similarity=0.479  Sum_probs=20.1

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .--|.|+|.+|+|||||...+.+.
T Consensus        34 ~~ki~vvG~~~vGKSsli~~l~~~   57 (214)
T 2j1l_A           34 SVKVVLVGDGGCGKTSLLMVFADG   57 (214)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHC-
T ss_pred             eEEEEEECcCCCCHHHHHHHHHcC
Confidence            456789999999999999888764

>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=92.41  E-value=0.097  Score=49.88  Aligned_cols=25  Identities=12%  Similarity=-0.053  Sum_probs=22.4

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ...+|.+.|+.|+||||+|+.+...
T Consensus       394 ~~~~I~l~GlsGsGKSTIa~~La~~  418 (511)
T 1g8f_A          394 QGFSIVLGNSLTVSREQLSIALLST  418 (511)
T ss_dssp             CCEEEEECTTCCSCHHHHHHHHHHH
T ss_pred             cceEEEecccCCCCHHHHHHHHHHH
Confidence            4578999999999999999999874

>3def_A T7I23.11 protein; chloroplast, TOC33, GTPase, hydrolase; HET: GDP; 1.96A {Arabidopsis thaliana} PDB: 3bb3_A* 3bb4_A* 2j3e_A*

Probab=92.39  E-value=0.14  Score=44.19  Aligned_cols=25  Identities=20%  Similarity=0.432  Sum_probs=21.5

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ....|+|+|..|+|||||...+...
T Consensus        35 ~~~~I~lvG~~g~GKSSLin~l~~~   59 (262)
T 3def_A           35 NSMTVLVLGKGGVGKSSTVNSLIGE   59 (262)
T ss_dssp             CEEEEEEEECTTSSHHHHHHHHHTS
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCC
Confidence            4567889999999999999888765

>2p5s_A RAS and EF-hand domain containing; G-protein, RAB, GDP, structural genomics, SGC, structural genomics consortium, signaling protein; HET: GDP; 2.15A {Homo sapiens}

Probab=92.39  E-value=0.071  Score=43.68  Aligned_cols=24  Identities=25%  Similarity=0.314  Sum_probs=20.6

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..-|.|+|.+|+|||||...+...
T Consensus        28 ~~ki~v~G~~~~GKSsli~~l~~~   51 (199)
T 2p5s_A           28 AYKIVLAGDAAVGKSSFLMRLCKN   51 (199)
T ss_dssp             CEEEEEESSTTSSHHHHHHHHHHC
T ss_pred             CeEEEEECcCCCCHHHHHHHHHhC
Confidence            466789999999999999888754

>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=92.38  E-value=0.091  Score=45.62  Aligned_cols=24  Identities=33%  Similarity=0.441  Sum_probs=20.9

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ...|+++|.+|+|||||...+...
T Consensus         3 ~~~i~lvG~~g~GKTTL~n~l~g~   26 (271)
T 3k53_A            3 LKTVALVGNPNVGKTTIFNALTGL   26 (271)
T ss_dssp             CEEEEEEECSSSSHHHHHHHHHTT
T ss_pred             eeEEEEECCCCCCHHHHHHHHhCC
Confidence            457899999999999999988764

>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=92.38  E-value=0.073  Score=43.13  Aligned_cols=24  Identities=25%  Similarity=0.405  Sum_probs=20.5

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .--|.|+|.+|+|||||...+.+.
T Consensus        15 ~~~i~v~G~~~~GKssli~~l~~~   38 (195)
T 1x3s_A           15 TLKILIIGESGVGKSSLLLRFTDD   38 (195)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHcC
Confidence            356789999999999999888764

>2orv_A Thymidine kinase; TP4A (P1-(5'-adenosyl)P4-(5'- (2'deoxythymidil))tetraphosphate, transferase; HET: 4TA; 2.30A {Homo sapiens} SCOP: c.37.1.24 g.39.1.14

Probab=92.36  E-value=0.27  Score=41.48  Aligned_cols=104  Identities=11%  Similarity=0.056  Sum_probs=52.3

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCC-CCCHHHHHHHHHHHhCCCCC--CcccHHHHHHHHHHhc
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSD-TFDQIRIAKAIIEGLGKSAS--GLNEFQSLMSRIQSSI  287 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~-~~~~~~~~~~i~~~l~~~~~--~~~~~~~~~~~l~~~l  287 (352)
                      -.+..++|.-|.||||.+-....+.. .....+.++-..-+ .+. .    .+...++....  ...+..++...    .
T Consensus        19 g~l~v~~G~MgsGKTT~lL~~~~r~~-~~g~kvli~kp~~D~Ryg-~----~i~sr~G~~~~a~~i~~~~di~~~----~   88 (234)
T 2orv_A           19 GQIQVILGPMFSGKSTELMRRVRRFQ-IAQYKCLVIKYAKDTRYS-S----SFCTHDRNTMEALPACLLRDVAQE----A   88 (234)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHHHH-TTTCCEEEEEETTCCCC----------------CEEEEESSGGGGHHH----H
T ss_pred             eEEEEEECCCCCcHHHHHHHHHHHHH-HCCCeEEEEeecCCccch-H----HHHhhcCCeeEEEecCCHHHHHHH----h
Confidence            46888999999999988844444322 22333444332222 222 3    33444332211  01111122222    2


Q ss_pred             CCceEEEEecCCCCCCccChhHHHHhhccCCCCcEEEEecCC
Q 036619          288 KGKKNFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKILVTTRN  329 (352)
Q Consensus       288 ~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTTR~  329 (352)
                       ++--+|++|.+.--.  ....+...+.+  .|-.||+|-++
T Consensus        89 -~~~dvViIDEaQF~~--~v~el~~~l~~--~gi~VI~~GL~  125 (234)
T 2orv_A           89 -LGVAVIGIDEGQFFP--DIVEFCEAMAN--AGKTVIVAALD  125 (234)
T ss_dssp             -TTCSEEEESSGGGCT--THHHHHHHHHH--TTCEEEEECCS
T ss_pred             -ccCCEEEEEchhhhh--hHHHHHHHHHh--CCCEEEEEecc
Confidence             222399999997653  25555565554  47789999988

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum}

Probab=92.36  E-value=0.1  Score=42.35  Aligned_cols=24  Identities=17%  Similarity=0.254  Sum_probs=20.5

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .--|.|+|.+|+|||||...+...
T Consensus         7 ~~ki~v~G~~~~GKSsli~~l~~~   30 (208)
T 3clv_A            7 SYKTVLLGESSVGKSSIVLRLTKD   30 (208)
T ss_dssp             SEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhC
Confidence            345779999999999999888865

>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=92.36  E-value=0.11  Score=42.29  Aligned_cols=24  Identities=25%  Similarity=0.403  Sum_probs=20.3

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .--|.|+|.+|+|||||...+...
T Consensus         8 ~~ki~vvG~~~~GKSsli~~l~~~   31 (199)
T 2gf0_A            8 DYRVVVFGAGGVGKSSLVLRFVKG   31 (199)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHS
T ss_pred             eeEEEEECCCCCcHHHHHHHHHcC
Confidence            456789999999999999888763

>3v9p_A DTMP kinase, thymidylate kinase; ssgcid, STRU genomics, seattle structural genomics center for infectious transferase; 1.90A {Burkholderia thailandensis}

Probab=92.33  E-value=0.18  Score=42.61  Aligned_cols=25  Identities=32%  Similarity=0.368  Sum_probs=18.9

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNND  235 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~  235 (352)
                      ...|.|-|+.|+||||+++.+.+.-
T Consensus        25 g~~I~~eG~~GsGKsT~~~~l~~~l   49 (227)
T 3v9p_A           25 GKFITFEGIDGAGKTTHLQWFCDRL   49 (227)
T ss_dssp             CCEEEEECCC---CHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH
Confidence            4678899999999999999998753

>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=92.31  E-value=0.23  Score=49.91  Aligned_cols=51  Identities=25%  Similarity=0.207  Sum_probs=34.1

Q ss_pred             CccccccchHHHHHHHHcCccc-------cCCCCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          184 GEVCGRVDEKSELFSKLLCESS-------EQQNGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~-------~~~~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..+.|.++.+++|.+.+.-+-.       .+-...+-+.++|++|.|||.||+.+.+.
T Consensus       477 ~diggl~~~k~~l~e~v~~p~~~p~~f~~~g~~~~~gvLl~GPPGtGKT~lAkaiA~e  534 (806)
T 3cf2_A          477 EDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANE  534 (806)
T ss_dssp             TTCCSCHHHHHHHTTTTTTTTTCSGGGSSSCCCCCSCCEEESSTTSSHHHHHHHHHHT
T ss_pred             HHhCCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCceEEEecCCCCCchHHHHHHHHH
Confidence            4566777777776655432110       01123455779999999999999999984

>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=92.30  E-value=0.11  Score=41.84  Aligned_cols=24  Identities=33%  Similarity=0.349  Sum_probs=20.6

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ...|.|+|.+|+|||||...+.+.
T Consensus        16 ~~~i~v~G~~~~GKssl~~~l~~~   39 (187)
T 1zj6_A           16 EHKVIIVGLDNAGKTTILYQFSMN   39 (187)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHTT
T ss_pred             ccEEEEECCCCCCHHHHHHHHhcC
Confidence            456789999999999999888854

>4f4c_A Multidrug resistance protein PGP-1; ABC transporter, ATPase, multi-drug transporter, exporter, A binding, hydrolase,protein transport; HET: NDG NAG BMA MAN 0SA; 3.40A {Caenorhabditis elegans}

Probab=92.28  E-value=0.68  Score=49.55  Aligned_cols=24  Identities=38%  Similarity=0.529  Sum_probs=21.4

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      -..++|||+.|.|||||++.+..-
T Consensus       444 G~~vaivG~sGsGKSTll~ll~~~  467 (1321)
T 4f4c_A          444 GQTVALVGSSGCGKSTIISLLLRY  467 (1321)
T ss_dssp             TCEEEEEECSSSCHHHHHHHHTTS
T ss_pred             CcEEEEEecCCCcHHHHHHHhccc
Confidence            468999999999999999999864

>2g3y_A GTP-binding protein GEM; small GTPase, GDP, inactive state, RGK family, structur genomics, structural genomics consortium, SGC, signaling PR; HET: GDP; 2.40A {Homo sapiens} SCOP: c.37.1.8

Probab=92.28  E-value=0.076  Score=44.37  Aligned_cols=23  Identities=35%  Similarity=0.546  Sum_probs=19.7

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYN  233 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~  233 (352)
                      ..-|.|+|.+|+|||||...+..
T Consensus        37 ~~kVvlvG~~~vGKSSLl~r~~~   59 (211)
T 2g3y_A           37 YYRVVLIGEQGVGKSTLANIFAG   59 (211)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHh
Confidence            45678999999999999988763

>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=92.27  E-value=0.08  Score=43.70  Aligned_cols=24  Identities=29%  Similarity=0.369  Sum_probs=20.4

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..-|.|+|.+|+|||||...+...
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            346789999999999999888764

>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=92.25  E-value=0.082  Score=42.98  Aligned_cols=24  Identities=33%  Similarity=0.397  Sum_probs=20.7

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .--|.|+|..|+|||||...+.+.
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            456789999999999999888765

>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=92.24  E-value=0.1  Score=42.18  Aligned_cols=24  Identities=25%  Similarity=0.306  Sum_probs=20.6

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..-|.|+|..|+|||||...+...
T Consensus        20 ~~ki~v~G~~~~GKSsli~~l~~~   43 (189)
T 1z06_A           20 IFKIIVIGDSNVGKTCLTYRFCAG   43 (189)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECCCCCCHHHHHHHHHcC
Confidence            456789999999999999888754

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens}

Probab=92.23  E-value=0.066  Score=43.62  Aligned_cols=24  Identities=25%  Similarity=0.446  Sum_probs=20.0

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .--|.|+|..|+|||||...+.+.
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            445779999999999999988765

>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=92.22  E-value=0.092  Score=42.30  Aligned_cols=25  Identities=28%  Similarity=0.365  Sum_probs=21.1

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNND  235 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~  235 (352)
                      ...|.|+|.+|+|||||...+.+..
T Consensus        18 ~~~i~v~G~~~~GKssl~~~l~~~~   42 (186)
T 1ksh_A           18 ELRLLMLGLDNAGKTTILKKFNGED   42 (186)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHTTCC
T ss_pred             eeEEEEECCCCCCHHHHHHHHhcCC
Confidence            4567899999999999999988653

>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=92.21  E-value=0.083  Score=43.45  Aligned_cols=25  Identities=32%  Similarity=0.282  Sum_probs=21.0

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..--|.|+|.+|+|||||...+.+.
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            3566889999999999999888754

>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=92.20  E-value=0.068  Score=49.66  Aligned_cols=21  Identities=43%  Similarity=0.648  Sum_probs=19.3

Q ss_pred             EEEEecCCCcHHHHHHHHHhh
Q 036619          214 ISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       214 i~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ++|+|..|+|||||.+.++.-
T Consensus        45 vaLvG~nGaGKSTLln~L~G~   65 (427)
T 2qag_B           45 ILCVGETGLGKSTLMDTLFNT   65 (427)
T ss_dssp             EEEECSTTSSSHHHHHHHHTS
T ss_pred             EEEECCCCCCHHHHHHHHhCc
Confidence            899999999999999998763

>4dkx_A RAS-related protein RAB-6A; GTP binding fold, membrane trafficking, GTP, cytosol, protei transport; HET: GDP; 1.90A {Homo sapiens} PDB: 3bbp_A*

Probab=92.19  E-value=0.079  Score=44.46  Aligned_cols=22  Identities=23%  Similarity=0.354  Sum_probs=18.3

Q ss_pred             EEEEEecCCCcHHHHHHHHHhh
Q 036619          213 VISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      -|.|+|.+|+|||+|...+.++
T Consensus        15 KivlvGd~~VGKTsLi~r~~~~   36 (216)
T 4dkx_A           15 KLVFLGEQSVGKTSLITRFMYD   36 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECcCCcCHHHHHHHHHhC
Confidence            3568999999999999877654

>1bif_A 6-phosphofructo-2-kinase/ fructose-2,6-bisphospha; transferase (phospho), phosphatase, hydrolase (phosp glycolysis, bifunctional enzyme; HET: AGS; 2.00A {Rattus norvegicus} SCOP: c.37.1.7 c.60.1.4 PDB: 3bif_A* 2bif_A* 1k6m_A* 1c80_A* 1c7z_A* 1c81_A* 1tip_A* 1fbt_A

Probab=92.18  E-value=0.088  Score=49.78  Aligned_cols=24  Identities=29%  Similarity=0.353  Sum_probs=21.3

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..+|.++|++|+||||+++.+...
T Consensus        39 ~~~IvlvGlpGsGKSTia~~La~~   62 (469)
T 1bif_A           39 PTLIVMVGLPARGKTYISKKLTRY   62 (469)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             cEEEEEECCCCCCHHHHHHHHHHH
Confidence            467889999999999999998864

>2rcn_A Probable GTPase ENGC; YJEQ, circularly permuted, GTP-binding, hydrolase, nucleotide-binding; HET: GDP; 2.25A {Salmonella typhimurium} PDB: 2ykr_W 4a2i_V

Probab=92.17  E-value=0.081  Score=48.00  Aligned_cols=23  Identities=22%  Similarity=0.429  Sum_probs=20.6

Q ss_pred             EEEEEEecCCCcHHHHHHHHHhh
Q 036619          212 QVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .+++|+|+.|+|||||.+.+...
T Consensus       216 ~~~~lvG~sG~GKSTLln~L~g~  238 (358)
T 2rcn_A          216 RISIFAGQSGVGKSSLLNALLGL  238 (358)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHCC
T ss_pred             CEEEEECCCCccHHHHHHHHhcc
Confidence            47899999999999999999864

>2npi_A Protein CLP1; CLP1-PCF11 complex, ATP binding, ternary complex, transcript; HET: ATP; 2.95A {Saccharomyces cerevisiae}

Probab=92.17  E-value=0.068  Score=50.36  Aligned_cols=24  Identities=25%  Similarity=0.274  Sum_probs=21.4

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      -.+++|+|+.|+|||||++.+..-
T Consensus       138 Ge~v~IvGpnGsGKSTLlr~L~Gl  161 (460)
T 2npi_A          138 GPRVVIVGGSQTGKTSLSRTLCSY  161 (460)
T ss_dssp             CCCEEEEESTTSSHHHHHHHHHHT
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCc
Confidence            468999999999999999998874

>2j0v_A RAC-like GTP-binding protein ARAC7; nucleotide-binding protein, ROP9, atrac7, membrane, palmitate, RHO GTPase; HET: GDP; 1.78A {Arabidopsis thaliana}

Probab=92.16  E-value=0.084  Score=43.65  Aligned_cols=24  Identities=29%  Similarity=0.304  Sum_probs=20.3

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .--|.|+|.+|+|||||...+.+.
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            456789999999999999888754

>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=92.11  E-value=0.1  Score=42.54  Aligned_cols=24  Identities=33%  Similarity=0.288  Sum_probs=20.3

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .--|.|+|.+|+|||||...+...
T Consensus        29 ~~ki~v~G~~~vGKSsLi~~l~~~   52 (192)
T 2b6h_A           29 QMRILMVGLDAAGKTTILYKLKLG   52 (192)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHCSS
T ss_pred             ccEEEEECCCCCCHHHHHHHHHhC
Confidence            355789999999999999988753

>1ny5_A Transcriptional regulator (NTRC family); AAA+ ATPase, sigma54 activator, bacterial transcription, DIM transcription; HET: ADP; 2.40A {Aquifex aeolicus} SCOP: c.23.1.1 c.37.1.20 PDB: 1ny6_A* 3m0e_A* 1zy2_A*

Probab=92.10  E-value=0.59  Score=42.85  Aligned_cols=46  Identities=24%  Similarity=0.252  Sum_probs=31.6

Q ss_pred             ccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          185 EVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       185 ~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .++|....+.++.+.+..-..   ....| .|.|..|+|||++|+.+...
T Consensus       138 ~~ig~s~~m~~l~~~i~~~a~---~~~~v-li~Ge~GtGK~~lAr~ih~~  183 (387)
T 1ny5_A          138 EYVFESPKMKEILEKIKKISC---AECPV-LITGESGVGKEVVARLIHKL  183 (387)
T ss_dssp             CCCCCSHHHHHHHHHHHHHTT---CCSCE-EEECSTTSSHHHHHHHHHHH
T ss_pred             hhhhccHHhhHHHHHHHHhcC---CCCCe-EEecCCCcCHHHHHHHHHHh
Confidence            356666666666665543221   23444 79999999999999999864

>3cr8_A Sulfate adenylyltranferase, adenylylsulfate kinase; APS kinase, transferase, sulfate metabolism, nucleotide 2 kinase; 2.95A {Thiobacillus denitrificans}

Probab=92.10  E-value=0.068  Score=51.56  Aligned_cols=25  Identities=32%  Similarity=0.377  Sum_probs=22.2

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .-.++.|+|+.|+|||||++.+...
T Consensus       368 ~G~iI~LiG~sGSGKSTLar~La~~  392 (552)
T 3cr8_A          368 QGFTVFFTGLSGAGKSTLARALAAR  392 (552)
T ss_dssp             SCEEEEEEESSCHHHHHHHHHHHHH
T ss_pred             cceEEEEECCCCChHHHHHHHHHHh
Confidence            3478999999999999999999874

>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=92.09  E-value=0.087  Score=43.25  Aligned_cols=24  Identities=29%  Similarity=0.383  Sum_probs=20.4

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..-|.|+|.+|+|||||...+...
T Consensus        25 ~~ki~vvG~~~~GKSsli~~l~~~   48 (201)
T 2gco_A           25 RKKLVIVGDGACGKTCLLIVFSKD   48 (201)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhC
Confidence            345789999999999999888764

>3fdi_A Uncharacterized protein; cytidylate kinase like protein, PSI, MCSG, PRK04182 class ME structural genomics, protein structure initiative; 2.20A {Eubacterium ventriosum}

Probab=92.08  E-value=0.098  Score=43.34  Aligned_cols=24  Identities=17%  Similarity=0.088  Sum_probs=21.5

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..+|.|.|+.|+||||+++.+...
T Consensus         6 ~~iI~i~g~~GsGk~ti~~~la~~   29 (201)
T 3fdi_A            6 QIIIAIGREFGSGGHLVAKKLAEH   29 (201)
T ss_dssp             CCEEEEEECTTSSHHHHHHHHHHH
T ss_pred             CeEEEEeCCCCCCHHHHHHHHHHH
Confidence            358999999999999999999874

>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=92.05  E-value=0.066  Score=43.42  Aligned_cols=25  Identities=24%  Similarity=0.250  Sum_probs=20.9

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNND  235 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~  235 (352)
                      .-.|.|+|..|+|||||...+....
T Consensus        21 ~~ki~v~G~~~~GKSsli~~l~~~~   45 (190)
T 2h57_A           21 EVHVLCLGLDNSGKTTIINKLKPSN   45 (190)
T ss_dssp             CEEEEEEECTTSSHHHHHHHTSCGG
T ss_pred             ccEEEEECCCCCCHHHHHHHHhcCC
Confidence            3457799999999999999888654

>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=91.99  E-value=0.17  Score=44.69  Aligned_cols=26  Identities=23%  Similarity=0.266  Sum_probs=22.6

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .....|+|+|..|+|||||...+...
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            45778999999999999999988764

>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=91.97  E-value=0.086  Score=43.49  Aligned_cols=24  Identities=29%  Similarity=0.437  Sum_probs=20.5

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..-|.|+|.+|+|||||...+...
T Consensus        20 ~~~i~v~G~~~~GKSsli~~l~~~   43 (213)
T 3cph_A           20 IMKILLIGDSGVGKSCLLVRFVED   43 (213)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhC
Confidence            456789999999999999888754

>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=91.96  E-value=0.09  Score=46.60  Aligned_cols=31  Identities=26%  Similarity=0.289  Sum_probs=24.7

Q ss_pred             HHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHH
Q 036619          193 KSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAY  232 (352)
Q Consensus       193 ~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~  232 (352)
                      +++|.+.+.         -.+++|+|+.|+|||||.+.+.
T Consensus       156 i~~L~~~l~---------G~i~~l~G~sG~GKSTLln~l~  186 (302)
T 2yv5_A          156 IDELVDYLE---------GFICILAGPSGVGKSSILSRLT  186 (302)
T ss_dssp             HHHHHHHTT---------TCEEEEECSTTSSHHHHHHHHH
T ss_pred             HHHHHhhcc---------CcEEEEECCCCCCHHHHHHHHH
Confidence            556666553         2478999999999999999988

>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=91.93  E-value=0.11  Score=40.67  Aligned_cols=22  Identities=23%  Similarity=0.389  Sum_probs=19.3

Q ss_pred             EEEEEEecCCCcHHHHHHHHHh
Q 036619          212 QVISLVGLGGIGKTTLAQLAYN  233 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~  233 (352)
                      .+..|+|+.|.|||||...++-
T Consensus        24 g~~~I~G~NGsGKStil~Ai~~   45 (149)
T 1f2t_A           24 GINLIIGQNGSGKSSLLDAILV   45 (149)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHH
Confidence            5788999999999999988763

>1w36_D RECD, exodeoxyribonuclease V alpha chain; recombination, helicase, hydrolase, DNA repair; HET: DNA; 3.1A {Escherichia coli} SCOP: c.37.1.19 c.37.1.19 PDB: 3k70_D*

Probab=91.87  E-value=0.19  Score=49.07  Aligned_cols=42  Identities=17%  Similarity=0.024  Sum_probs=26.8

Q ss_pred             EEEEEEecCCCcHHHHHHHHHhhhhhh-ccCCeEEEEEeCCCC
Q 036619          212 QVISLVGLGGIGKTTLAQLAYNNDEVK-RNFEKVIWVCVSDTF  253 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~-~~F~~~~wv~vs~~~  253 (352)
                      +++.|.|.+|.||||++..+...-... ..-...+.+.....-
T Consensus       165 ~~~vi~G~pGTGKTt~l~~ll~~l~~~~~~~~~~vll~APTg~  207 (608)
T 1w36_D          165 RISVISGGPGTGKTTTVAKLLAALIQMADGERCRIRLAAPTGK  207 (608)
T ss_dssp             SEEEEECCTTSTHHHHHHHHHHHHHHTCSSCCCCEEEEBSSHH
T ss_pred             CCEEEEeCCCCCHHHHHHHHHHHHHHhhhcCCCeEEEEeCChh
Confidence            578899999999999997776532111 111345666655543

>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=91.86  E-value=0.12  Score=44.52  Aligned_cols=25  Identities=28%  Similarity=0.310  Sum_probs=21.1

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ....|+|+|.+|+|||||...+...
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            3567889999999999999888754

>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=91.84  E-value=0.22  Score=40.79  Aligned_cols=41  Identities=27%  Similarity=0.205  Sum_probs=27.0

Q ss_pred             EEEEEE-ecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCC
Q 036619          212 QVISLV-GLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFD  254 (352)
Q Consensus       212 ~vi~I~-G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~  254 (352)
                      ++|+|+ +-||+||||+|..+...-  ...-..++-|......+
T Consensus         2 ~vi~v~s~kgG~GKTt~a~~la~~l--a~~g~~vlliD~D~~~~   43 (206)
T 4dzz_A            2 KVISFLNPKGGSGKTTAVINIATAL--SRSGYNIAVVDTDPQMS   43 (206)
T ss_dssp             EEEEECCSSTTSSHHHHHHHHHHHH--HHTTCCEEEEECCTTCH
T ss_pred             eEEEEEeCCCCccHHHHHHHHHHHH--HHCCCeEEEEECCCCCC
Confidence            578888 669999999998877642  22223456666654443

>3b6e_A Interferon-induced helicase C domain-containing P; DECH, DEXD/H RNA-binding helicase, innate immunity, IFIH1, S genomics; 1.60A {Homo sapiens}

Probab=91.84  E-value=0.18  Score=41.52  Aligned_cols=20  Identities=30%  Similarity=0.245  Sum_probs=16.7

Q ss_pred             EEEEecCCCcHHHHHHHHHh
Q 036619          214 ISLVGLGGIGKTTLAQLAYN  233 (352)
Q Consensus       214 i~I~G~~GiGKTtLa~~v~~  233 (352)
                      +.|+++.|.|||.++.....
T Consensus        51 ~li~~~tGsGKT~~~~~~~~   70 (216)
T 3b6e_A           51 IIICLPTGSGKTRVAVYIAK   70 (216)
T ss_dssp             EEEECSCHHHHHHHHHHHHH
T ss_pred             EEEEcCCCCCHHHHHHHHHH
Confidence            66899999999999866654

>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=91.82  E-value=0.092  Score=43.72  Aligned_cols=24  Identities=29%  Similarity=0.261  Sum_probs=20.1

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .--|.|+|.+|+|||||...+.+.
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            345679999999999999888764

>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=91.81  E-value=0.19  Score=41.67  Aligned_cols=31  Identities=26%  Similarity=0.550  Sum_probs=23.8

Q ss_pred             EEEEEEecCCCcHHHHHHHHHhhhhhhccCCeE
Q 036619          212 QVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKV  244 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~  244 (352)
                      +-|+|-|.-|+||||+++.+.+.  ....++.+
T Consensus         3 kFI~~EG~dGsGKsTq~~~L~~~--L~~~~~v~   33 (205)
T 4hlc_A            3 AFITFEGPEGSGKTTVINEVYHR--LVKDYDVI   33 (205)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHH--HTTTSCEE
T ss_pred             CEEEEECCCCCcHHHHHHHHHHH--HHCCCCEE
Confidence            46888999999999999999874  33445443

>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=91.79  E-value=0.053  Score=43.58  Aligned_cols=24  Identities=29%  Similarity=0.372  Sum_probs=10.3

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .--|.|+|.+|+|||||...+.+.
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            556889999999999999887654

>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=91.79  E-value=0.17  Score=47.40  Aligned_cols=48  Identities=19%  Similarity=0.203  Sum_probs=32.4

Q ss_pred             ccccchHHHHHHHHcCcc-c--c--CCCCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          187 CGRVDEKSELFSKLLCES-S--E--QQNGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       187 ~gr~~~~~~l~~~L~~~~-~--~--~~~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .|.++-++.+.+.+.... .  .  .......++|+|.+|+|||||.+.+...
T Consensus       151 ~gv~~L~~~i~~~l~~~~~~~~~~~~~~~~~kvaivG~~gvGKSTLln~l~g~  203 (439)
T 1mky_A          151 INLDTMLETIIKKLEEKGLDLESKPEITDAIKVAIVGRPNVGKSTLFNAILNK  203 (439)
T ss_dssp             BSHHHHHHHHHHHHHHTTCCSSSCCCCCSCEEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CCHHHHHHHHHHhcccccccchhccccccCceEEEECCCCCCHHHHHHHHhCC
Confidence            355566666666664221 0  0  0234567899999999999999998765

>3fkq_A NTRC-like two-domain protein; RER070207001320, structural GE joint center for structural genomics, JCSG, protein structu initiative, PSI-2; HET: ATP 2PE; 2.10A {Eubacterium rectale}

Probab=91.77  E-value=0.24  Score=45.25  Aligned_cols=41  Identities=20%  Similarity=0.323  Sum_probs=28.4

Q ss_pred             CCCeEEEEEEe-cCCCcHHHHHHHHHhhhhhhccCCeEEEEEeC
Q 036619          208 QNGLQVISLVG-LGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVS  250 (352)
Q Consensus       208 ~~~~~vi~I~G-~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs  250 (352)
                      ....++|+|+| -||+||||+|..+...-  ...-..++-|...
T Consensus       140 ~~~~kvIav~s~KGGvGKTT~a~nLA~~L--a~~g~rVlliD~D  181 (373)
T 3fkq_A          140 NDKSSVVIFTSPCGGVGTSTVAAACAIAH--ANMGKKVFYLNIE  181 (373)
T ss_dssp             TTSCEEEEEECSSTTSSHHHHHHHHHHHH--HHHTCCEEEEECC
T ss_pred             CCCceEEEEECCCCCChHHHHHHHHHHHH--HhCCCCEEEEECC
Confidence            35679999986 89999999998777532  2222346666644

>4akg_A Glutathione S-transferase class-MU 26 kDa isozyme heavy chain cytoplasmic; motor protein, AAA+ protein, ASCE protein, P-loop ntpase; HET: ATP ADP; 3.30A {Schistosoma japonicum} PDB: 4ai6_A* 4akh_A* 4aki_A* 3qmz_A

Probab=91.77  E-value=0.52  Score=53.63  Aligned_cols=84  Identities=18%  Similarity=0.169  Sum_probs=50.8

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCcccHHHHHHHHHH-hcCC
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSASGLNEFQSLMSRIQS-SIKG  289 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~-~l~~  289 (352)
                      .+-+.+||.||+||++|++.+..-   .+ + ..+=+.++..++..+.-.+                 +...++. -.++
T Consensus      1609 ~G~~LLvGvgGsGkqSltrLaa~i---~~-~-~~fqi~~~~~Y~~~~f~eD-----------------Lk~l~~~aG~~~ 1666 (2695)
T 4akg_A         1609 QGHMMLIGASRTGKTILTRFVAWL---NG-L-KIVQPKIHRHSNLSDFDMI-----------------LKKAISDCSLKE 1666 (2695)
T ss_dssp             SEEEEEECTTTSCHHHHHHHHHHH---TT-C-EEECCCCCTTCCHHHHHHH-----------------HHHHHHHHHHSC
T ss_pred             CCCEEEECCCCCcHHHHHHHHHHH---hC-C-eeEEEEeeCCCCHHHHHHH-----------------HHHHHHHcCCCC
Confidence            356779999999999999988752   11 1 1233556777766554322                 2222222 2478


Q ss_pred             ceEEEEecCCCCCCccChhHHHHhhcc
Q 036619          290 KKNFLVLDDVWDGDYNKWQPFFRCLKN  316 (352)
Q Consensus       290 kr~LlVlDdvw~~~~~~~~~l~~~l~~  316 (352)
                      ++..++|+|-.-.+..-.+.+...|..
T Consensus      1667 ~~~vFL~tD~qi~~e~FLE~IN~lL~s 1693 (2695)
T 4akg_A         1667 SRTCLIIDESNILETAFLERMNTLLAN 1693 (2695)
T ss_dssp             CCEEEEEETTTCCSHHHHHHHHHHHHS
T ss_pred             CceEEEEeccccccHHHHHHHHHHHcc
Confidence            888888888755443344555554443

>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=91.75  E-value=0.24  Score=47.27  Aligned_cols=50  Identities=18%  Similarity=0.119  Sum_probs=35.6

Q ss_pred             HHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCC
Q 036619          195 ELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTF  253 (352)
Q Consensus       195 ~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~  253 (352)
                      +.++.|..-.     +-..++|.|..|+|||+|+..+.+.    .+-+.++++-+.+..
T Consensus       210 rvID~l~Pig-----rGqr~~Ifg~~g~GKT~l~~~ia~~----~~~~v~V~~~iGER~  259 (578)
T 3gqb_A          210 RILDVLFPVA-----MGGTAAIPGPFGSGKSVTQQSLAKW----SNADVVVYVGSGERG  259 (578)
T ss_dssp             HHHHTTSCEE-----TTCEEEECCCTTSCHHHHHHHHHHH----SSCSEEEEEEEEECH
T ss_pred             hhhhhccccc-----CCCEEeeeCCCCccHHHHHHHHHhc----cCCCEEEEEEecccH
Confidence            4566665433     2356889999999999999998874    233567777777653

>2dpy_A FLII, flagellum-specific ATP synthase; beta barrel, alpha-beta structure, hydrolase; HET: ADP; 2.40A {Salmonella typhimurium}

Probab=91.75  E-value=0.099  Score=48.91  Aligned_cols=24  Identities=25%  Similarity=0.299  Sum_probs=21.7

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      -.+++|+|+.|+|||||.+.+...
T Consensus       157 Gq~~~IvG~sGsGKSTLl~~Iag~  180 (438)
T 2dpy_A          157 GQRMGLFAGSGVGKSVLLGMMARY  180 (438)
T ss_dssp             TCEEEEEECTTSSHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcc
Confidence            468999999999999999999874

>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=91.58  E-value=0.088  Score=48.92  Aligned_cols=21  Identities=33%  Similarity=0.591  Sum_probs=19.0

Q ss_pred             EEEEecCCCcHHHHHHHHHhh
Q 036619          214 ISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       214 i~I~G~~GiGKTtLa~~v~~~  234 (352)
                      |+|+|..|+|||||.+.++..
T Consensus        34 I~lvG~sGaGKSTLln~L~g~   54 (418)
T 2qag_C           34 LMVVGESGLGKSTLINSLFLT   54 (418)
T ss_dssp             EEEECCTTSSHHHHHHHHTTC
T ss_pred             EEEECCCCCcHHHHHHHHhCC
Confidence            489999999999999999864

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=91.58  E-value=0.091  Score=50.56  Aligned_cols=23  Identities=39%  Similarity=0.748  Sum_probs=20.9

Q ss_pred             EEEEEEecCCCcHHHHHHHHHhh
Q 036619          212 QVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .+++|+|+.|+|||||++.++.-
T Consensus       295 ei~~i~G~nGsGKSTLl~~l~Gl  317 (538)
T 3ozx_A          295 EIIGILGPNGIGKTTFARILVGE  317 (538)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            58999999999999999999863

---

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	352
d2a5yb3	277	c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenor	3e-27

>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 =  106 bits (264), Expect = 3e-27
 Identities = 32/193 (16%), Positives = 61/193 (31%), Gaps = 24/193 (12%)

Query: 173 ERVRTTSLIDEGEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAY 232
            ++   ++  +     R      +  KL             + L G  G GK+ +A  A 
Sbjct: 9   RKLLLGNVPKQMTCYIREYHVDRVIKKLDEMCDLD---SFFLFLHGRAGSGKSVIASQAL 65

Query: 233 NNDE--VKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGK----------SASGLNEFQSLM 280
           +  +  +  N++ ++W+  S T  +          L            S   +       
Sbjct: 66  SKSDQLIGINYDSIVWLKDSGTAPKSTFDLFTDILLMLKSEDDLLNFPSVEHVTSVVLKR 125

Query: 281 SRIQSSIKGKKNFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKILVTTRNESVARMMGST- 339
               + I       V DDV   +  +W              + LVTTR+  ++     T 
Sbjct: 126 MICNALIDRPNTLFVFDDVVQEETIRWAQEL--------RLRCLVTTRDVEISNAASQTC 177

Query: 340 DIISIEQLAEEEC 352
           + I +  L  +EC
Sbjct: 178 EFIEVTSLEIDEC 190

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	352
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	99.95
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	98.9
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	98.85
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	98.71
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	98.7
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	98.7
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	98.68
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	98.6
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	98.57
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	98.5
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	98.49
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	98.48
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	98.38
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	98.34
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	98.25
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	98.07
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	98.04
d2gnoa2	198	gamma subunit of DNA polymerase III, N-domain {The	97.93
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	97.84
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	97.64
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	97.64
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	97.54
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	97.5
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	97.5
d2qy9a2	211	GTPase domain of the signal recognition particle r	97.42
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	97.23
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	97.22
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	97.19
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	97.16
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	97.15
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	97.12
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	97.12
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	97.1
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	97.07
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	97.04
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	97.03
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	97.02
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	97.01
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	96.98
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	96.94
d1ny5a2	247	Transcriptional activator sigm54 (NtrC1), C-termin	96.89
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	96.89
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	96.87
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	96.87
d1ls1a2	207	GTPase domain of the signal sequence recognition p	96.87
d1j8yf2	211	GTPase domain of the signal sequence recognition p	96.87
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	96.87
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	96.86
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	96.85
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	96.83
d1okkd2	207	GTPase domain of the signal recognition particle r	96.81
d1vmaa2	213	GTPase domain of the signal recognition particle r	96.78
d2awna2	232	Maltose transport protein MalK, N-terminal domain	96.78
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	96.76
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	96.76
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	96.72
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	96.71
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	96.69
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	96.67
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	96.66
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	96.65
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	96.64
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	96.62
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	96.59
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	96.56
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	96.55
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	96.53
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	96.53
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	96.46
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	96.43
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	96.38
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	96.36
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	96.36
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	96.35
d2jdid3	276	Central domain of beta subunit of F1 ATP synthase	96.32
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	96.32
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	96.31
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	96.29
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	96.28
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	96.24
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	96.19
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	96.14
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	96.12
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	96.11
d1xpua3	289	Transcription termination factor Rho, ATPase domai	96.1
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	96.07
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	96.04
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	96.03
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	95.99
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	95.95
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	95.92
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	95.88
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	95.86
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	95.75
d1cp2a_	269	Nitrogenase iron protein {Clostridium pasteurianum	95.73
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	95.68
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	95.67
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	95.57
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	95.54
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	95.46
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	95.46
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	95.46
d1ihua1	296	Arsenite-translocating ATPase ArsA {Escherichia co	95.44
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	95.43
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	95.35
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	95.21
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	95.19
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	95.19
d1w36d1	359	Exodeoxyribonuclease V alpha chain (RecD) {Escheri	95.18
d1ihua2	279	Arsenite-translocating ATPase ArsA {Escherichia co	95.17
d1g2912	240	Maltose transport protein MalK, N-terminal domain	95.14
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	95.11
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	95.08
d1a1va1	136	HCV helicase domain {Human hepatitis C virus (HCV)	95.07
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	95.07
d2afhe1	289	Nitrogenase iron protein {Azotobacter vinelandii [	95.07
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	95.04
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	95.03
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	95.02
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	94.96
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	94.94
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	94.93
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	94.92
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	94.89
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	94.83
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	94.78
d1fx0a3	276	Central domain of alpha subunit of F1 ATP synthase	94.76
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	94.73
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	94.71
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	94.59
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	94.54
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	94.51
d1hyqa_	232	Cell division regulator MinD {Archaeon Archaeoglob	94.48
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	94.43
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	94.39
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	94.39
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	94.36
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	94.35
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	94.34
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	94.33
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	94.29
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	94.24
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	94.24
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	94.22
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	94.19
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	94.19
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	94.14
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	94.13
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	94.12
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	94.09
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	94.08
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	94.08
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	94.07
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	94.06
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	94.03
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	93.98
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	93.97
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	93.97
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	93.97
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	93.96
d2jdia3	285	Central domain of alpha subunit of F1 ATP synthase	93.96
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	93.95
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	93.94
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	93.91
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	93.89
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	93.89
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	93.87
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	93.87
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	93.83
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	93.83
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	93.82
d1nrjb_	209	Signal recognition particle receptor beta-subunit	93.76
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	93.67
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	93.67
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	93.65
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	93.6
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	93.58
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	93.58
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	93.58
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	93.54
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	93.52
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	93.43
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	93.42
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	93.42
d2fh5b1	207	Signal recognition particle receptor beta-subunit	93.41
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	93.39
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	93.32
d1g3qa_	237	Cell division regulator MinD {Archaeon Pyrococcus	93.3
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	93.26
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	93.26
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	93.25
d1wb9a2	234	DNA repair protein MutS, the C-terminal domain {Es	93.23
d1deka_	241	Deoxynucleoside monophosphate kinase {Bacteriophag	93.2
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	93.18
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	93.08
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	93.07
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	93.06
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	93.06
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	92.99
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	92.96
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	92.96
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	92.88
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	92.87
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	92.86
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	92.82
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	92.81
d1yksa1	140	YFV helicase domain {Yellow fever virus [TaxId: 11	92.8
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	92.77
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	92.75
d1tmka_	214	Thymidylate kinase {Baker's yeast (Saccharomyces c	92.66
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	92.64
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	92.36
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	92.35
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	92.18
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	91.67
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	91.59
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	91.42
d1byia_	224	Dethiobiotin synthetase {Escherichia coli [TaxId:	91.07
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	91.07
d1kkma_	176	HPr kinase HprK C-terminal domain {Lactobacillus c	90.7
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	90.66
d1f5na2	277	Interferon-induced guanylate-binding protein 1 (GB	90.65
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	90.61
d1ewqa2	224	DNA repair protein MutS, the C-terminal domain {Th	90.56
d1knxa2	177	HPr kinase HprK C-terminal domain {Mycoplasma pneu	90.44
d1p9ra_	401	Extracellular secretion NTPase EpsE {Vibrio choler	90.28
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	90.21
d1ko7a2	169	HPr kinase HprK C-terminal domain {Staphylococcus	89.85
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	89.7
d1p6xa_	333	Thymidine kinase {Equine herpesvirus type 4 [TaxId	88.9
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	88.73
d1g7sa4	227	Initiation factor IF2/eIF5b, N-terminal (G) domain	88.57
d2fz4a1	206	DNA repair protein RAD25 {Archaeoglobus fulgidus [	88.51
d2p6ra3	202	Hel308 helicase {Archaeoglobus fulgidus [TaxId: 22	88.47
d1e2ka_	329	Thymidine kinase {Herpes simplex virus type 1, dif	87.7
g1ii8.1	369	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	86.83
d1u0ja_	267	Rep 40 protein helicase domain {Adeno-associated v	85.86
d1tuea_	205	Replication protein E1 helicase domain {Human papi	85.7
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	85.45
d1qhla_	222	Cell division protein MukB {Escherichia coli [TaxI	84.97
d1uaaa1	306	DEXX box DNA helicase {Escherichia coli, RepD [Tax	84.7
d1n0ua2	341	Elongation factor 2 (eEF-2), N-terminal (G) domain	84.6
d1osna_	331	Thymidine kinase {Varicella-zoster virus [TaxId: 1	84.56
d1tq4a_	400	Interferon-inducible GTPase {Mouse (Mus musculus)	83.88
g1xew.1	329	Smc head domain {Pyrococcus furiosus [TaxId: 2261]	83.84
d1pjra1	318	DEXX box DNA helicase {Bacillus stearothermophilus	83.3
d2c78a3	204	Elongation factor Tu (EF-Tu), N-terminal (G) domai	82.9
d1jala1	278	YchF GTP-binding protein N-terminal domain {Haemop	81.82
d1ni3a1	296	YchF GTP-binding protein N-terminal domain {Fissio	80.87
d1puja_	273	Probable GTPase YlqF {Bacillus subtilis [TaxId: 14	80.75

>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=99.95  E-value=9.2e-29  Score=218.98  Aligned_cols=161  Identities=18%  Similarity=0.177  Sum_probs=124.7

Q ss_pred             ccCCccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhh--hhccCCeEEEEEeCCCCCHHHH
Q 036619          181 IDEGEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDE--VKRNFEKVIWVCVSDTFDQIRI  258 (352)
Q Consensus       181 ~~~~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~--~~~~F~~~~wv~vs~~~~~~~~  258 (352)
                      +..+.++||+.++++|+++|....+   ...++|+|+||||+||||||+++|++..  ...+|++++|+++++.++...+
T Consensus        17 p~~~~~~gR~~~~~~i~~~L~~~~~---~~~~~v~I~GmgGiGKTtLA~~v~~~~~~~~~~~f~~~~Wv~vs~~~~~~~l   93 (277)
T d2a5yb3          17 PKQMTCYIREYHVDRVIKKLDEMCD---LDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGTAPKSTF   93 (277)
T ss_dssp             BCCCCSCCCHHHHHHHHHHHHHHTT---SSSEEEEEECSTTSSHHHHHHHHHHHCSSTBTTTBSEEEEEECCCCSTTHHH
T ss_pred             CCCCceeCcHHHHHHHHHHHHhccC---CCceEEEEECCCCCCHHHHHHHHHHhhhhhhhhcCceEEEEEecCCCCHHHH
Confidence            3456789999999999999976432   4578999999999999999999998743  6778999999999999988777


Q ss_pred             HHHHHHHh---CCCCC-------CcccHHHHHHHHHHhcCCceEEEEecCCCCCCccChhHHHHhhccCCCCcEEEEecC
Q 036619          259 AKAIIEGL---GKSAS-------GLNEFQSLMSRIQSSIKGKKNFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKILVTTR  328 (352)
Q Consensus       259 ~~~i~~~l---~~~~~-------~~~~~~~~~~~l~~~l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTTR  328 (352)
                      ...+...+   +....       ...+.......+.+.|.++|+||||||||+.  +.|..+.      ..||+||||||
T Consensus        94 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~kr~LlVLDDv~~~--~~~~~~~------~~~srilvTTR  165 (277)
T d2a5yb3          94 DLFTDILLMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVVQE--ETIRWAQ------ELRLRCLVTTR  165 (277)
T ss_dssp             HHHHHHHHHHTTTSCCTTCCCCTTCCHHHHHHHHHHHHTTSTTEEEEEEEECCH--HHHHHHH------HTTCEEEEEES
T ss_pred             HHHHHHHHHHhcchhhcCCccchhhhhHHHHHHHHHHHhccCCeeEecchhhHH--hhhhhhc------ccCceEEEEee
Confidence            66654433   22211       1122334455678889999999999999986  4454432      24899999999


Q ss_pred             ChHHHHHhCC-CCeeeCCCCCCCcC
Q 036619          329 NESVARMMGS-TDIISIEQLAEEEC  352 (352)
Q Consensus       329 ~~~va~~~~~-~~~~~l~~L~~~es  352 (352)
                      +++|+..+.. .++|+|++|+.+||
T Consensus       166 ~~~v~~~~~~~~~~~~l~~L~~~ea  190 (277)
T d2a5yb3         166 DVEISNAASQTCEFIEVTSLEIDEC  190 (277)
T ss_dssp             BGGGGGGCCSCEEEEECCCCCHHHH
T ss_pred             hHHHHHhcCCCCceEECCCCCHHHH
Confidence            9999987654 47899999998875

>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=98.90  E-value=1.4e-08  Score=87.18  Aligned_cols=166  Identities=15%  Similarity=0.135  Sum_probs=100.3

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCC-eEEEEEeCCCCCHHHHHHHH
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFE-KVIWVCVSDTFDQIRIAKAI  262 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~-~~~wv~vs~~~~~~~~~~~i  262 (352)
                      ..++||+.++++|.++|...-......++.+.|+|++|+|||++|+.+++.  ....+. ..+|+..........++..+
T Consensus        16 ~~l~~Re~ei~~l~~~l~~~l~~~~~~~~~lll~GppGtGKT~l~~~l~~~--l~~~~~~~~~~~~~~~~~~~~~~~~~~   93 (276)
T d1fnna2          16 KRLPHREQQLQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWEL--YKDKTTARFVYINGFIYRNFTAIIGEI   93 (276)
T ss_dssp             SCCTTCHHHHHHHHHHHHHHHHSTTSSCCEEEEECCTTSSHHHHHHHHHHH--HTTSCCCEEEEEETTTCCSHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHhCCCCCCCceEEECCCCCCHHHHHHHHHHH--HhcccCCcEEEecchhhhhhhhhhhhh
Confidence            468999999999999885421111145678889999999999999999985  333332 45677777778888888888


Q ss_pred             HHHhCCCCC-CcccHHHHHHHHHHhc--CCceEEEEecCCCCCCccChhHHHHhhc----cCCCCcEEEEecCChHHHHH
Q 036619          263 IEGLGKSAS-GLNEFQSLMSRIQSSI--KGKKNFLVLDDVWDGDYNKWQPFFRCLK----NGLHGSKILVTTRNESVARM  335 (352)
Q Consensus       263 ~~~l~~~~~-~~~~~~~~~~~l~~~l--~~kr~LlVlDdvw~~~~~~~~~l~~~l~----~~~~gs~IivTTR~~~va~~  335 (352)
                      ....+.... .......+...+.+.+  .....++++|+++.........+...+.    .......+|.++........
T Consensus        94 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~  173 (276)
T d1fnna2          94 ARSLNIPFPRRGLSRDEFLALLVEHLRERDLYMFLVLDDAFNLAPDILSTFIRLGQEADKLGAFRIALVIVGHNDAVLNN  173 (276)
T ss_dssp             HHHTTCCCCSSCCCHHHHHHHHHHHHHHTTCCEEEEEETGGGSCHHHHHHHHHHTTCHHHHSSCCEEEEEEESSTHHHHT
T ss_pred             HHhhhhhhhhhccchhHHHHHHHHHHhhcccccccchhHHHHhhhhhhhhHHHHHhccccccccceEEeecCCchhhhhh
Confidence            888766533 2334445555555544  3456777888876643322333222221    11223345555554433221


Q ss_pred             h-------CCCCeeeCCCCCCCc
Q 036619          336 M-------GSTDIISIEQLAEEE  351 (352)
Q Consensus       336 ~-------~~~~~~~l~~L~~~e  351 (352)
                      +       .....+.+.+++.+|
T Consensus       174 ~~~~~~~r~~~~~i~~~~~~~~e  196 (276)
T d1fnna2         174 LDPSTRGIMGKYVIRFSPYTKDQ  196 (276)
T ss_dssp             SCHHHHHHHTTCEEECCCCBHHH
T ss_pred             cchhhhhhhcchhccccchhHHH
Confidence            1       113456777766543

>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=98.85  E-value=2.6e-09  Score=92.11  Aligned_cols=152  Identities=13%  Similarity=0.184  Sum_probs=83.6

Q ss_pred             CCccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCC-----CCCHHH
Q 036619          183 EGEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSD-----TFDQIR  257 (352)
Q Consensus       183 ~~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~-----~~~~~~  257 (352)
                      ...|+||++++++|.+.          ..+++.|+|++|+|||+|++++.+.  ...   ...|+.+..     ......
T Consensus        11 ~~~f~GR~~el~~l~~~----------~~~~i~i~G~~G~GKTsLl~~~~~~--~~~---~~~~i~~~~~~~~~~~~~~~   75 (283)
T d2fnaa2          11 RKDFFDREKEIEKLKGL----------RAPITLVLGLRRTGKSSIIKIGINE--LNL---PYIYLDLRKFEERNYISYKD   75 (283)
T ss_dssp             GGGSCCCHHHHHHHHHT----------CSSEEEEEESTTSSHHHHHHHHHHH--HTC---CEEEEEGGGGTTCSCCCHHH
T ss_pred             hhhCCChHHHHHHHHhc----------cCCEEEEEcCCCCcHHHHHHHHHHH--CCC---CeEEEEeccccccccccHHH
Confidence            46799999999998762          1357889999999999999998864  222   244554322     223344


Q ss_pred             HHHHHHHHhC--------------CC---------------CCCcccHHHHHHHHHHhcCCceEEEEecCCCCC----Cc
Q 036619          258 IAKAIIEGLG--------------KS---------------ASGLNEFQSLMSRIQSSIKGKKNFLVLDDVWDG----DY  304 (352)
Q Consensus       258 ~~~~i~~~l~--------------~~---------------~~~~~~~~~~~~~l~~~l~~kr~LlVlDdvw~~----~~  304 (352)
                      +...+...+.              ..               .....+..++...+. ...++++++|+|++..-    ..
T Consensus        76 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~-~~~~~~~~i~id~~~~~~~~~~~  154 (283)
T d2fnaa2          76 FLLELQKEINKLVKRLPSLLKALKNIQGIVIMGNEIKFNWNRKDRLSFANLLESFE-QASKDNVIIVLDEAQELVKLRGV  154 (283)
T ss_dssp             HHHHHHHHHHHHHHHCTTHHHHTTTSTTEEECSSSEEEC-----CCCHHHHHHHHH-HTCSSCEEEEEETGGGGGGCTTC
T ss_pred             HHHHHHHHhhhhhhhhHHHHHHHHhhhcccccccccccccchhhhhHHHHHHHHHH-hhcccccccccchhhhhcccchH
Confidence            4444333221              00               001122333333332 23578899999987431    11


Q ss_pred             cChhHHHHhhccCCCCcEEEEecCChHHHHHh-C-----------CCCeeeCCCCCCCc
Q 036619          305 NKWQPFFRCLKNGLHGSKILVTTRNESVARMM-G-----------STDIISIEQLAEEE  351 (352)
Q Consensus       305 ~~~~~l~~~l~~~~~gs~IivTTR~~~va~~~-~-----------~~~~~~l~~L~~~e  351 (352)
                      ..+..+....... .....+++.+.......+ .           ....+.|.+|+.+|
T Consensus       155 ~~~~~l~~~~~~~-~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~L~~l~~~e  212 (283)
T d2fnaa2         155 NLLPALAYAYDNL-KRIKFIMSGSEMGLLYDYLRVEDPESPLFGRAFSTVELKPFSREE  212 (283)
T ss_dssp             CCHHHHHHHHHHC-TTEEEEEEESSHHHHHHHTTTTCTTSTTTTCCCEEEEECCCCHHH
T ss_pred             HHHHHHHHHHHhh-hhhhhhhccccchHHHHHHHhhhhcchhcccceeEEeeCCCCHHH
Confidence            2334444443333 344455555544333222 1           12457889998765

>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=98.71  E-value=9.2e-08  Score=77.28  Aligned_cols=146  Identities=14%  Similarity=0.134  Sum_probs=86.7

Q ss_pred             ccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhh---h-hccCCeEEEEEeCCCCCHHHHHH
Q 036619          185 EVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDE---V-KRNFEKVIWVCVSDTFDQIRIAK  260 (352)
Q Consensus       185 ~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~---~-~~~F~~~~wv~vs~~~~~~~~~~  260 (352)
                      .++||++++++++..|....      -.-+.+||.+|+|||+++..++..-.   + ...-+..+|.-     +...++ 
T Consensus        23 ~~igRd~Ei~~l~~iL~r~~------k~n~lLvG~pGVGKTalv~~LA~ri~~~~vp~~L~~~~i~~l-----d~~~Li-   90 (195)
T d1jbka_          23 PVIGRDEEIRRTIQVLQRRT------KNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLAL-----DMGALV-   90 (195)
T ss_dssp             CCCSCHHHHHHHHHHHTSSS------SCEEEEECCTTSCHHHHHHHHHHHHHHTCSCGGGTTCEEEEE-----CHHHHH-
T ss_pred             CCcCcHHHHHHHHHHHhccC------CCCeEEEecCCcccHHHHHHHHHHHHhCCCCHHHcCceEEEe-----eHHHHh-
Confidence            47899999999999997644      23456999999999999988776421   1 11223444431     222221 


Q ss_pred             HHHHHhCCCCCCcccHHHHH-HHHHHhc-CCceEEEEecCCCCC--------CccChhHHHHhhccCCCCcEEEEecCCh
Q 036619          261 AIIEGLGKSASGLNEFQSLM-SRIQSSI-KGKKNFLVLDDVWDG--------DYNKWQPFFRCLKNGLHGSKILVTTRNE  330 (352)
Q Consensus       261 ~i~~~l~~~~~~~~~~~~~~-~~l~~~l-~~kr~LlVlDdvw~~--------~~~~~~~l~~~l~~~~~gs~IivTTR~~  330 (352)
                            .+. ....++++.. ..+.+.. ...+.+|++|++..-        ..+.-+.|++++..+  .-++|.||..+
T Consensus        91 ------Ag~-~~rG~~E~rl~~il~e~~~~~~~iILfIDeih~l~~~g~~~g~~d~~~~Lkp~L~rg--~l~~IgatT~e  161 (195)
T d1jbka_          91 ------AGA-KYRGEFEERLKGVLNDLAKQEGNVILFIDELHTMVGAGKADGAMDAGNMLKPALARG--ELHCVGATTLD  161 (195)
T ss_dssp             ------TTT-CSHHHHHHHHHHHHHHHHHSTTTEEEEEETGGGGTT------CCCCHHHHHHHHHTT--SCCEEEEECHH
T ss_pred             ------ccC-CccHHHHHHHHHHHHHHhcCCCcEEEEcchHHHHhcCCCCCCcccHHHHHHHHHhCC--CceEEecCCHH
Confidence                  111 0111233222 2333332 345899999999652        112345566666654  46788888887


Q ss_pred             HHHHHhCC-------CCeeeCCCCCCCc
Q 036619          331 SVARMMGS-------TDIISIEQLAEEE  351 (352)
Q Consensus       331 ~va~~~~~-------~~~~~l~~L~~~e  351 (352)
                      +.......       -..+++...+.++
T Consensus       162 ey~~~~e~d~aL~rrF~~I~V~Ep~~e~  189 (195)
T d1jbka_         162 EYRQYIEKDAALERRFQKVFVAEPSVED  189 (195)
T ss_dssp             HHHHHTTTCHHHHTTEEEEECCCCCHHH
T ss_pred             HHHHHHHcCHHHHhcCCEeecCCCCHHH
Confidence            77665432       4567777776554

>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=98.70  E-value=2e-08  Score=84.64  Aligned_cols=157  Identities=11%  Similarity=0.038  Sum_probs=92.3

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhc-cCCeEEEEEeCCCCCHHHHHHHH
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKR-NFEKVIWVCVSDTFDQIRIAKAI  262 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~-~F~~~~wv~vs~~~~~~~~~~~i  262 (352)
                      .+++|.++.++.|.+++....      ...+.++|++|+||||||+.+++...... .......++.+.......+...+
T Consensus        12 ~diig~~~~~~~l~~~i~~~~------~~~lll~Gp~G~GKTtl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~   85 (237)
T d1sxjd2          12 DEVTAQDHAVTVLKKTLKSAN------LPHMLFYGPPGTGKTSTILALTKELYGPDLMKSRILELNASDERGISIVREKV   85 (237)
T ss_dssp             TTCCSCCTTHHHHHHHTTCTT------CCCEEEECSTTSSHHHHHHHHHHHHHHHHHHTTSEEEECSSSCCCHHHHTTHH
T ss_pred             HHccCcHHHHHHHHHHHHcCC------CCeEEEECCCCCChHHHHHHHHHHHcCCcccccchhheeccccccchHHHHHH
Confidence            458999999999999986533      34477999999999999999987522111 22344555666655554443333


Q ss_pred             HHHhCCCCCCcccHHHHHHHHHHhcCCceEEEEecCCCCCCccChhHHHHhhccCCCCcEEEEecCCh-HHHHHh-CCCC
Q 036619          263 IEGLGKSASGLNEFQSLMSRIQSSIKGKKNFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKILVTTRNE-SVARMM-GSTD  340 (352)
Q Consensus       263 ~~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTTR~~-~va~~~-~~~~  340 (352)
                      -...........     ...+......+.-+||||++.......+..+...+......+++|+||... .+...+ ....
T Consensus        86 ~~~~~~~~~~~~-----~~~~~~~~~~~~~viiiDe~d~l~~~~~~~l~~~~~~~~~~~~~i~~~~~~~~~~~~l~sr~~  160 (237)
T d1sxjd2          86 KNFARLTVSKPS-----KHDLENYPCPPYKIIILDEADSMTADAQSALRRTMETYSGVTRFCLICNYVTRIIDPLASQCS  160 (237)
T ss_dssp             HHHHHSCCCCCC-----TTHHHHSCCCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHHSE
T ss_pred             HHHhhhhhhhhh-----HHHHhhccccCceEEEEecccccCHHHHHHHhhccccccccccccccccccccccccccchhh
Confidence            222111111111     011222334445579999997765556667777666665666677665542 222222 2245


Q ss_pred             eeeCCCCCCCc
Q 036619          341 IISIEQLAEEE  351 (352)
Q Consensus       341 ~~~l~~L~~~e  351 (352)
                      .+++.+++.++
T Consensus       161 ~i~f~~~~~~~  171 (237)
T d1sxjd2         161 KFRFKALDASN  171 (237)
T ss_dssp             EEECCCCCHHH
T ss_pred             hhccccccccc
Confidence            67888777543

>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=98.70  E-value=1.9e-08  Score=84.18  Aligned_cols=148  Identities=16%  Similarity=0.161  Sum_probs=89.1

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHH
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAII  263 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~  263 (352)
                      .+++|.++.+++|.+++....      ...+.++|++|+||||+|+.+.+.-.....-....-++.+...+...+...+.
T Consensus        15 ~d~ig~~~~~~~L~~~~~~~~------~~~~ll~Gp~G~GKTt~a~~la~~l~~~~~~~~~~~~n~~~~~~~~~i~~~~~   88 (224)
T d1sxjb2          15 SDIVGNKETIDRLQQIAKDGN------MPHMIISGMPGIGKTTSVHCLAHELLGRSYADGVLELNASDDRGIDVVRNQIK   88 (224)
T ss_dssp             GGCCSCTHHHHHHHHHHHSCC------CCCEEEECSTTSSHHHHHHHHHHHHHGGGHHHHEEEECTTSCCSHHHHHTHHH
T ss_pred             HHhcCCHHHHHHHHHHHHcCC------CCeEEEECCCCCCchhhHHHHHHHHhccccccccccccccccCCceehhhHHH
Confidence            468999999999999997644      33467999999999999998887422111101233344555444433332222


Q ss_pred             HHhCCCCCCcccHHHHHHHHHHhcCCceEEEEecCCCCCCccChhHHHHhhccCCCCcEEEEecCC-hHHHHHh-CCCCe
Q 036619          264 EGLGKSASGLNEFQSLMSRIQSSIKGKKNFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKILVTTRN-ESVARMM-GSTDI  341 (352)
Q Consensus       264 ~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTTR~-~~va~~~-~~~~~  341 (352)
                      .......              ....++.-++|+|++..........++..+......+++++||.+ ..+...+ +....
T Consensus        89 ~~~~~~~--------------~~~~~~~kviiiDe~d~~~~~~~~~ll~~~e~~~~~~~~i~~~~~~~~i~~~l~sr~~~  154 (224)
T d1sxjb2          89 HFAQKKL--------------HLPPGKHKIVILDEADSMTAGAQQALRRTMELYSNSTRFAFACNQSNKIIEPLQSQCAI  154 (224)
T ss_dssp             HHHHBCC--------------CCCTTCCEEEEEESGGGSCHHHHHTTHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEE
T ss_pred             HHHHhhc--------------cCCCcceEEEEEecccccchhHHHHHhhhccccccceeeeeccCchhhhhhHHHHHHHH
Confidence            2111100              001245668899999877655566676666665556666666554 4443333 33567


Q ss_pred             eeCCCCCCCc
Q 036619          342 ISIEQLAEEE  351 (352)
Q Consensus       342 ~~l~~L~~~e  351 (352)
                      +++.+++.++
T Consensus       155 i~~~~~~~~~  164 (224)
T d1sxjb2         155 LRYSKLSDED  164 (224)
T ss_dssp             EECCCCCHHH
T ss_pred             hhhcccchhh
Confidence            8888887653

>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=98.68  E-value=2e-08  Score=84.20  Aligned_cols=146  Identities=14%  Similarity=0.083  Sum_probs=86.9

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHH
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAII  263 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~  263 (352)
                      .+++|.++.++.|.+++....      ...+.++|++|+||||+|+.+++.-..........-.+.+...+.......+.
T Consensus        14 ~divg~~~~~~~L~~~i~~~~------~~~lLl~Gp~G~GKttl~~~la~~l~~~~~~~~~~e~~~~~~~~~~~~~~~~~   87 (227)
T d1sxjc2          14 DEVYGQNEVITTVRKFVDEGK------LPHLLFYGPPGTGKTSTIVALAREIYGKNYSNMVLELNASDDRGIDVVRNQIK   87 (227)
T ss_dssp             GGCCSCHHHHHHHHHHHHTTC------CCCEEEECSSSSSHHHHHHHHHHHHHTTSHHHHEEEECTTSCCSHHHHHTHHH
T ss_pred             HHccCcHHHHHHHHHHHHcCC------CCeEEEECCCCCChhHHHHHHHHHhhcCCCcceeEEecccccCCeeeeecchh
Confidence            469999999999999986543      33366999999999999999987522111111222233333333222211111


Q ss_pred             HHhCCCCCCcccHHHHHHHHHHhcCCceEEEEecCCCCCCccChhHHHHhhccCCCCcEEEEecCCh-HHHHHh-CCCCe
Q 036619          264 EGLGKSASGLNEFQSLMSRIQSSIKGKKNFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKILVTTRNE-SVARMM-GSTDI  341 (352)
Q Consensus       264 ~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTTR~~-~va~~~-~~~~~  341 (352)
                      ....               ......+++-+||+|++.......-..+...+......++++++|... .+-..+ .....
T Consensus        88 ~~~~---------------~~~~~~~~~kiiiiDe~d~~~~~~~~~Ll~~le~~~~~~~~~~~~~~~~~i~~~i~sr~~~  152 (227)
T d1sxjc2          88 DFAS---------------TRQIFSKGFKLIILDEADAMTNAAQNALRRVIERYTKNTRFCVLANYAHKLTPALLSQCTR  152 (227)
T ss_dssp             HHHH---------------BCCSSSCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEE
T ss_pred             hccc---------------cccccCCCeEEEEEeccccchhhHHHHHHHHhhhcccceeeccccCcHHHhHHHHHHHHhh
Confidence            1100               001123445688999997765555667777787776777777777653 333322 33567


Q ss_pred             eeCCCCCCC
Q 036619          342 ISIEQLAEE  350 (352)
Q Consensus       342 ~~l~~L~~~  350 (352)
                      +++.+++.+
T Consensus       153 i~~~~~~~~  161 (227)
T d1sxjc2         153 FRFQPLPQE  161 (227)
T ss_dssp             EECCCCCHH
T ss_pred             hcccccccc
Confidence            788877754

>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=98.60  E-value=5.3e-08  Score=83.16  Aligned_cols=147  Identities=16%  Similarity=0.138  Sum_probs=86.0

Q ss_pred             ccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhh---hc-cCCeEEEE-EeCCCCCHHHHH
Q 036619          185 EVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEV---KR-NFEKVIWV-CVSDTFDQIRIA  259 (352)
Q Consensus       185 ~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~---~~-~F~~~~wv-~vs~~~~~~~~~  259 (352)
                      .++||++++++++..|....      -.-+.+||++|+|||+|+..+...-.-   -. ..+..+|. +++.-       
T Consensus        19 ~~igRd~Ei~~l~~iL~r~~------k~n~lLVG~~GvGKTalv~~la~ri~~~~vp~~l~~~~i~~l~~~~l-------   85 (268)
T d1r6bx2          19 PLIGREKELERAIQVLCRRR------KNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSL-------   85 (268)
T ss_dssp             CCCSCHHHHHHHHHHHTSSS------SCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCCC---------
T ss_pred             cccChHHHHHHHHHHHhcCc------cCCcEEECCCCCcHHHHHHHHHHHHHhCCcccccccceeEEeeechH-------
Confidence            48999999999999997543      234559999999999999887764211   11 12344543 22210       


Q ss_pred             HHHHHHhCCCCCCcccHHHHHHHHHHhc-CCceEEEEecCCCCC----C-ccChhHHHHhhc-cC-CCCcEEEEecCChH
Q 036619          260 KAIIEGLGKSASGLNEFQSLMSRIQSSI-KGKKNFLVLDDVWDG----D-YNKWQPFFRCLK-NG-LHGSKILVTTRNES  331 (352)
Q Consensus       260 ~~i~~~l~~~~~~~~~~~~~~~~l~~~l-~~kr~LlVlDdvw~~----~-~~~~~~l~~~l~-~~-~~gs~IivTTR~~~  331 (352)
                            +.+ .....+++.....+.+.+ +....++++|++..-    . ...-..+...|. .- ...-++|.||..++
T Consensus        86 ------iag-~~~~g~~e~r~~~i~~~~~~~~~iIlfiDeih~l~~~g~~~g~~~d~a~~Lkp~L~rg~i~vIgatT~ee  158 (268)
T d1r6bx2          86 ------LAG-TKYRGDFEKRFKALLKQLEQDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLSSGKIRVIGSTTYQE  158 (268)
T ss_dssp             -------CC-CCCSSCHHHHHHHHHHHHSSSSCEEEEETTTTTTTTSCCSSSCHHHHHHHHSSCSSSCCCEEEEEECHHH
T ss_pred             ------hcc-CccchhHHHHHHHHHHHhhccCCceEEecchHHHhcCCCCCCccccHHHHhhHHHhCCCCeEEEeCCHHH
Confidence                  111 112334444444444444 567899999998653    1 111122333332 11 22468899998888


Q ss_pred             HHHHhCC-------CCeeeCCCCCCCc
Q 036619          332 VARMMGS-------TDIISIEQLAEEE  351 (352)
Q Consensus       332 va~~~~~-------~~~~~l~~L~~~e  351 (352)
                      .......       -..+++.+++.++
T Consensus       159 y~~~~e~d~al~rrF~~I~V~Eps~e~  185 (268)
T d1r6bx2         159 FSNIFEKDRALARRFQKIDITEPSIEE  185 (268)
T ss_dssp             HHCCCCCTTSSGGGEEEEECCCCCHHH
T ss_pred             HHHHHhhcHHHHhhhcccccCCCCHHH
Confidence            7765432       3467777777553

>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=98.57  E-value=2.5e-07  Score=78.04  Aligned_cols=156  Identities=15%  Similarity=0.201  Sum_probs=87.2

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHH
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAII  263 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~  263 (352)
                      .+++|.+..++.|.+++....     -+..+.|+|++|+||||+|+.+.+.-.......       ..+.........+.
T Consensus        12 ~dlig~~~~~~~L~~~i~~~~-----~~~~~Ll~Gp~G~GKtt~a~~~~~~l~~~~~~~-------~~~~~~~~~~~~i~   79 (239)
T d1njfa_          12 ADVVGQEHVLTALANGLSLGR-----IHHAYLFSGTRGVGKTSIARLLAKGLNCETGIT-------ATPCGVCDNCREIE   79 (239)
T ss_dssp             GGSCSCHHHHHHHHHHHHTTC-----CCSEEEEECSTTSSHHHHHHHHHHHHHCTTCSC-------SSCCSCSHHHHHHH
T ss_pred             HHccChHHHHHHHHHHHHcCC-----CCeeEEEECCCCCcHHHHHHHHHHHhcCccccc-------cCccccchHHHHHH
Confidence            468999999999999986543     234577999999999999998876421111100       00111111112222


Q ss_pred             HHhCCC-----CCCcccHHHHHHHHHHh----cCCceEEEEecCCCCCCccChhHHHHhhccCCCCcEEEEecCCh-HHH
Q 036619          264 EGLGKS-----ASGLNEFQSLMSRIQSS----IKGKKNFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKILVTTRNE-SVA  333 (352)
Q Consensus       264 ~~l~~~-----~~~~~~~~~~~~~l~~~----l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTTR~~-~va  333 (352)
                      ..-...     .......+.+...+...    ..++..++|||++...+.+.-..|+..+......+++|++|.+. .+-
T Consensus        80 ~~~~~~~~~~~~~~~~~i~~ir~~~~~~~~~~~~~~~kviiIde~d~l~~~~q~~Llk~lE~~~~~~~~il~tn~~~~i~  159 (239)
T d1njfa_          80 QGRFVDLIEIDAASRTKVEDTRDLLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLP  159 (239)
T ss_dssp             HTCCTTEEEEETTCSSSHHHHHHHHHSCCCSCSSSSSEEEEEETGGGSCHHHHHHHHHHHHSCCTTEEEEEEESCGGGSC
T ss_pred             cCCCCeEEEecchhcCCHHHHHHHHHHHHhccccCCCEEEEEECcccCCHHHHHHHHHHHhcCCCCeEEEEEcCCccccC
Confidence            211000     00111122222222221    13456689999998776555667888887666677777776553 333


Q ss_pred             HHh-CCCCeeeCCCCCCCc
Q 036619          334 RMM-GSTDIISIEQLAEEE  351 (352)
Q Consensus       334 ~~~-~~~~~~~l~~L~~~e  351 (352)
                      ..+ +-...+.+.+++.++
T Consensus       160 ~~i~SRc~~i~~~~~~~~~  178 (239)
T d1njfa_         160 VTILSRCLQFHLKALDVEQ  178 (239)
T ss_dssp             HHHHTTSEEEECCCCCHHH
T ss_pred             hhHhhhhcccccccCcHHH
Confidence            333 235678888877543

>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=98.50  E-value=4.9e-07  Score=77.66  Aligned_cols=119  Identities=18%  Similarity=0.135  Sum_probs=78.1

Q ss_pred             cCCccccccchHHHHHHHHcCccc---cCCCCeEEEEEEecCCCcHHHHHHHHHhhhhh----hccCCeEEEEEeCCCCC
Q 036619          182 DEGEVCGRVDEKSELFSKLLCESS---EQQNGLQVISLVGLGGIGKTTLAQLAYNNDEV----KRNFEKVIWVCVSDTFD  254 (352)
Q Consensus       182 ~~~~~~gr~~~~~~l~~~L~~~~~---~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~----~~~F~~~~wv~vs~~~~  254 (352)
                      .++.+.||+.++++|.+.+...-.   .......++.++|++|+|||++++.+.+.-..    ........+++......
T Consensus        14 ~P~~~~~Re~e~~~l~~~l~~~~~~~~~~~~~~~~l~l~GppGtGKT~l~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~   93 (287)
T d1w5sa2          14 IPPELRVRRGEAEALARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVNAFNAPN   93 (287)
T ss_dssp             CCSSCSSSCHHHHHHHHHHHHHHHTSSCBCCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEEEGGGCCS
T ss_pred             CCCCCCCHHHHHHHHHHHHHHHHHcCCCCCCcceEEEeECCCCCCHHHHHHHHHHHHHhhcccccCCceeeeeccccccc
Confidence            346799999999999887642211   11122445667899999999999999985211    11123566778888788


Q ss_pred             HHHHHHHHHHHhCCCCC-CcccHHHHHHHHHHhc--CCceEEEEecCCC
Q 036619          255 QIRIAKAIIEGLGKSAS-GLNEFQSLMSRIQSSI--KGKKNFLVLDDVW  300 (352)
Q Consensus       255 ~~~~~~~i~~~l~~~~~-~~~~~~~~~~~l~~~l--~~kr~LlVlDdvw  300 (352)
                      ....+..+...+..... .......+...+.+..  .+...++++|.+.
T Consensus        94 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iide~d  142 (287)
T d1w5sa2          94 LYTILSLIVRQTGYPIQVRGAPALDILKALVDNLYVENHYLLVILDEFQ  142 (287)
T ss_dssp             HHHHHHHHHHHHTCCCCCTTCCHHHHHHHHHHHHHHHTCEEEEEEESTH
T ss_pred             hhhHHHHHhhhcccccccccchHHHHHHHHHHHHHhccCccccceeEEE
Confidence            88888888887776533 2333445555555544  3566777888774

>d1sxje2 c.37.1.20 (E:4-255) Replication factor C5 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C5
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.49  E-value=7.5e-08  Score=81.78  Aligned_cols=157  Identities=9%  Similarity=0.075  Sum_probs=78.1

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhh----hhccCCeEEEEEeCCC-------
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDE----VKRNFEKVIWVCVSDT-------  252 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~----~~~~F~~~~wv~vs~~-------  252 (352)
                      .+++|.++..+.|.+++....     ...-+.|+|++|+||||+|+.+++...    ....++...|...+..       
T Consensus        11 ~diig~~~~~~~L~~~~~~~~-----~~~~lll~Gp~G~GKTt~~~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~   85 (252)
T d1sxje2          11 NALSHNEELTNFLKSLSDQPR-----DLPHLLLYGPNGTGKKTRCMALLESIFGPGVYRLKIDVRQFVTASNRKLELNVV   85 (252)
T ss_dssp             GGCCSCHHHHHHHHTTTTCTT-----CCCCEEEECSTTSSHHHHHHTHHHHHSCTTCCC------------------CCE
T ss_pred             HHccCcHHHHHHHHHHHHcCC-----CCCeEEEECCCCCCHHHHHHHHHHhhcCccccccccccccccccccchhhhhhc
Confidence            458998888787777665432     233467999999999999999987421    1111222222211110       


Q ss_pred             --------------CCHHHHHHHHHHHhCCCCCCcccHHHHHHHHHHhcCCceEEEEecCCCCCCccChhHHHHhhccCC
Q 036619          253 --------------FDQIRIAKAIIEGLGKSASGLNEFQSLMSRIQSSIKGKKNFLVLDDVWDGDYNKWQPFFRCLKNGL  318 (352)
Q Consensus       253 --------------~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~  318 (352)
                                    .....................      ...-.....++.-++|||++.....+.+..+...+....
T Consensus        86 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------~~~~~~~~~~~~~iiiide~d~l~~~~~~~l~~~~e~~~  159 (252)
T d1sxje2          86 SSPYHLEITPSDMGNNDRIVIQELLKEVAQMEQVD------FQDSKDGLAHRYKCVIINEANSLTKDAQAALRRTMEKYS  159 (252)
T ss_dssp             ECSSEEEECCC----CCHHHHHHHHHHHTTTTC------------------CCEEEEEECTTSSCHHHHHHHHHHHHHST
T ss_pred             cCCccceeeecccccCCcceeeehhhhhhhhhhhh------hhhcccccCCCceEEEeccccccccccchhhhccccccc
Confidence                          000111111111111100000      000001112344589999998766566777777777666


Q ss_pred             CCcEEEEecCCh-HHHHH-hCCCCeeeCCCCCCCc
Q 036619          319 HGSKILVTTRNE-SVARM-MGSTDIISIEQLAEEE  351 (352)
Q Consensus       319 ~gs~IivTTR~~-~va~~-~~~~~~~~l~~L~~~e  351 (352)
                      ..+++|+||.+. .+-.. .+-...+++.+++.++
T Consensus       160 ~~~~~Il~tn~~~~i~~~l~sR~~~i~~~~~~~~~  194 (252)
T d1sxje2         160 KNIRLIMVCDSMSPIIAPIKSQCLLIRCPAPSDSE  194 (252)
T ss_dssp             TTEEEEEEESCSCSSCHHHHTTSEEEECCCCCHHH
T ss_pred             ccccceeeeccccchhhhhhcchheeeecccchhh
Confidence            677777776543 22221 1223567888877653

>d1iqpa2 c.37.1.20 (A:2-232) Replication factor C {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=98.48  E-value=8.5e-08  Score=80.49  Aligned_cols=144  Identities=15%  Similarity=0.121  Sum_probs=82.3

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCC-eEEEEEeCCCCCHHHHHHHH
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFE-KVIWVCVSDTFDQIRIAKAI  262 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~-~~~wv~vs~~~~~~~~~~~i  262 (352)
                      .+++|.++.+++|..++....      .+.+.++|++|+||||||+.+.+... ...+. ..+-++.+...+...+...+
T Consensus        24 ~diig~~~~~~~l~~~i~~~~------~~~lll~Gp~G~GKTtla~~iak~l~-~~~~~~~~~e~n~s~~~~~~~~~~~~   96 (231)
T d1iqpa2          24 DDIVGQEHIVKRLKHYVKTGS------MPHLLFAGPPGVGKTTAALALARELF-GENWRHNFLELNASDERGINVIREKV   96 (231)
T ss_dssp             TTCCSCHHHHHHHHHHHHHTC------CCEEEEESCTTSSHHHHHHHHHHHHH-GGGHHHHEEEEETTCHHHHHTTHHHH
T ss_pred             HHccCcHHHHHHHHHHHHcCC------CCeEEEECCCCCcHHHHHHHHHHHHH-hcccCCCeeEEecCcccchhHHHHHH
Confidence            569999999999999996533      44577999999999999999987421 11221 12223333321111111111


Q ss_pred             HHHhCCCCCCcccHHHHHHHHHHhcCCceEEEEecCCCCCCccChhHHHHhhccCCCCcEEEEecC-ChHHHHHh-CCCC
Q 036619          263 IEGLGKSASGLNEFQSLMSRIQSSIKGKKNFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKILVTTR-NESVARMM-GSTD  340 (352)
Q Consensus       263 ~~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTTR-~~~va~~~-~~~~  340 (352)
                      .....               .......+..++++|++.......+..+...+........+|+||. ...+...+ +...
T Consensus        97 ~~~~~---------------~~~~~~~~~~iilide~d~~~~~~~~~ll~~l~~~~~~~~~i~~~n~~~~i~~~l~sR~~  161 (231)
T d1iqpa2          97 KEFAR---------------TKPIGGASFKIIFLDEADALTQDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQSRCA  161 (231)
T ss_dssp             HHHHH---------------SCCGGGCSCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHTEE
T ss_pred             HHHHh---------------hhhccCCCceEEeehhhhhcchhHHHHHhhhcccCCcceEEEeccCChhhchHhHhCccc
Confidence            11000               0011134677899999977665667777777765544455555554 33333322 2245


Q ss_pred             eeeCCCCCC
Q 036619          341 IISIEQLAE  349 (352)
Q Consensus       341 ~~~l~~L~~  349 (352)
                      .+++.+.+.
T Consensus       162 ~i~~~~~~~  170 (231)
T d1iqpa2         162 IFRFRPLRD  170 (231)
T ss_dssp             EEECCCCCH
T ss_pred             cccccccch
Confidence            566666554

>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=98.38  E-value=6.5e-07  Score=80.50  Aligned_cols=144  Identities=18%  Similarity=0.210  Sum_probs=76.6

Q ss_pred             ccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhh---hh-hccCCeEEEE-EeCCCCCHHHHH
Q 036619          185 EVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNND---EV-KRNFEKVIWV-CVSDTFDQIRIA  259 (352)
Q Consensus       185 ~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~---~~-~~~F~~~~wv-~vs~~~~~~~~~  259 (352)
                      .++||++++++++..|....      -.-+.+||.+|+|||+|+..+...-   .+ ..-.+.++|. .++.-.      
T Consensus        23 ~~~gr~~ei~~~~~~L~r~~------k~n~llvG~~GvGKtaiv~~la~~i~~~~vp~~l~~~~i~~ld~~~l~------   90 (387)
T d1qvra2          23 PVIGRDEEIRRVIQILLRRT------KNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMGSLL------   90 (387)
T ss_dssp             CCCSCHHHHHHHHHHHHCSS------CCCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEECC----------
T ss_pred             CCcCcHHHHHHHHHHHhcCC------CCCCeEECCCCCCHHHHHHHHHHHHHhCCCCHHHcCceEEEeeHhhhh------
Confidence            47899999999999997644      1223578999999999887666531   11 1123445554 332210      


Q ss_pred             HHHHHHhCCCCCCcccHHHHHHH-HHHhcCC-ceEEEEecCCCCC--------CccChhHHHHhhccCCCCcEEEEecCC
Q 036619          260 KAIIEGLGKSASGLNEFQSLMSR-IQSSIKG-KKNFLVLDDVWDG--------DYNKWQPFFRCLKNGLHGSKILVTTRN  329 (352)
Q Consensus       260 ~~i~~~l~~~~~~~~~~~~~~~~-l~~~l~~-kr~LlVlDdvw~~--------~~~~~~~l~~~l~~~~~gs~IivTTR~  329 (352)
                             .+. ....+++..... +.+.... ..++|++|++..-        ..+.-+.|+++|..+  .-++|.+|..
T Consensus        91 -------ag~-~~~g~~e~r~~~i~~~~~~~~~~~ilfide~h~l~~~g~~~g~~d~a~~Lkp~L~rg--~~~~I~~tT~  160 (387)
T d1qvra2          91 -------AGA-KYRGEFEERLKAVIQEVVQSQGEVILFIDELHTVVGAGKAEGAVDAGNMLKPALARG--ELRLIGATTL  160 (387)
T ss_dssp             ---------------CHHHHHHHHHHHHHTTCSSEEEEECCC-------------------HHHHHTT--CCCEEEEECH
T ss_pred             -------ccc-CcchhHHHHHHHHHHHhccCCCceEEEeccHHHHhcCCCCCCcccHHHHHHHHHhCC--CcceeeecCH
Confidence                   000 001223332333 3333343 4799999999652        112345566667654  4567777777


Q ss_pred             hHHHHHhCC-------CCeeeCCCCCCCc
Q 036619          330 ESVARMMGS-------TDIISIEQLAEEE  351 (352)
Q Consensus       330 ~~va~~~~~-------~~~~~l~~L~~~e  351 (352)
                      ++... +..       ..++.+.+.+.++
T Consensus       161 ~ey~~-~e~d~al~rrF~~v~v~ep~~~~  188 (387)
T d1qvra2         161 DEYRE-IEKDPALERRFQPVYVDEPTVEE  188 (387)
T ss_dssp             HHHHH-HTTCTTTCSCCCCEEECCCCHHH
T ss_pred             HHHHH-hcccHHHHHhcccccCCCCcHHH
Confidence            76654 322       4456776666543

>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=98.34  E-value=1.3e-06  Score=71.92  Aligned_cols=150  Identities=9%  Similarity=0.081  Sum_probs=84.5

Q ss_pred             ccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCC
Q 036619          189 RVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGK  268 (352)
Q Consensus       189 r~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~  268 (352)
                      .+...+++.+.+....     -...+.++|+.|+||||+|+.+.+.-......       .........-...+......
T Consensus         7 ~~~~~~~l~~~~~~~~-----l~h~lLl~Gp~G~GKtt~a~~~a~~l~~~~~~-------~~~~~~~~~~~~~i~~~~~~   74 (207)
T d1a5ta2           7 LRPDFEKLVASYQAGR-----GHHALLIQALPGMGDDALIYALSRYLLCQQPQ-------GHKSCGHCRGCQLMQAGTHP   74 (207)
T ss_dssp             GHHHHHHHHHHHHTTC-----CCSEEEEECCTTSCHHHHHHHHHHHHTCSSCB-------TTBCCSCSHHHHHHHHTCCT
T ss_pred             cHHHHHHHHHHHHcCC-----cCeEEEEECCCCCcHHHHHHHHHHhccccccc-------ccccccccchhhhhhhcccc
Confidence            3455677777776533     24558899999999999999887631100000       00000000011111111111


Q ss_pred             C-------C-CCcccHHHHHHHHHHhc-----CCceEEEEecCCCCCCccChhHHHHhhccCCCCcEEEEecCCh-HHHH
Q 036619          269 S-------A-SGLNEFQSLMSRIQSSI-----KGKKNFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKILVTTRNE-SVAR  334 (352)
Q Consensus       269 ~-------~-~~~~~~~~~~~~l~~~l-----~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTTR~~-~va~  334 (352)
                      .       . ...-..+++. .+.+.+     .+++-++|+|++.....+....|+..+......+.+|+||.+. .+-.
T Consensus        75 ~~~~~~~~~~~~~i~~~~ir-~l~~~~~~~~~~~~~kviIide~d~l~~~a~n~Llk~lEep~~~~~fIl~t~~~~~ll~  153 (207)
T d1a5ta2          75 DYYTLAPEKGKNTLGVDAVR-EVTEKLNEHARLGGAKVVWVTDAALLTDAAANALLKTLEEPPAETWFFLATREPERLLA  153 (207)
T ss_dssp             TEEEECCCTTCSSBCHHHHH-HHHHHTTSCCTTSSCEEEEESCGGGBCHHHHHHHHHHHTSCCTTEEEEEEESCGGGSCH
T ss_pred             ccchhhhhhcccccccchhh-HHhhhhhhccccCccceEEechhhhhhhhhhHHHHHHHHhhcccceeeeeecChhhhhh
Confidence            0       0 0111223322 222222     3567799999998887777888999888877788888777765 3444


Q ss_pred             Hh-CCCCeeeCCCCCCCc
Q 036619          335 MM-GSTDIISIEQLAEEE  351 (352)
Q Consensus       335 ~~-~~~~~~~l~~L~~~e  351 (352)
                      .+ +-...+++.+++.++
T Consensus       154 tI~SRc~~i~~~~~~~~~  171 (207)
T d1a5ta2         154 TLRSRCRLHYLAPPPEQY  171 (207)
T ss_dssp             HHHTTSEEEECCCCCHHH
T ss_pred             hhcceeEEEecCCCCHHH
Confidence            33 335678888887654

>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=98.25  E-value=1.9e-06  Score=72.82  Aligned_cols=158  Identities=18%  Similarity=0.151  Sum_probs=82.8

Q ss_pred             CccccccchHHHHHHHHcCcc-----------ccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCC
Q 036619          184 GEVCGRVDEKSELFSKLLCES-----------SEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDT  252 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~-----------~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~  252 (352)
                      .+++|.+..+++|.++|....           ..+....+.+.++|++|+||||+|+.+++..     .-...+++.+..
T Consensus        14 ~dlig~~~~~~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~~lll~GPpG~GKTt~a~~la~~~-----~~~~~~~~~~~~   88 (253)
T d1sxja2          14 QQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQEL-----GYDILEQNASDV   88 (253)
T ss_dssp             GGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHT-----TCEEEEECTTSC
T ss_pred             HHhcCCHHHHHHHHHHHHhhhhcchhhhhhhcccCCCCCceEEEECCCCCCHHHHHHHHHHHH-----Hhhhhccccccc
Confidence            568999999999999885311           1112345678899999999999999999742     123456666655


Q ss_pred             CCHHHHHHHHHHHhCCCCCCcccHHHHHHHHHHhcCCceEEEEecCCCCCCccC---hhHHHHhhccCCCCcEEEEec-C
Q 036619          253 FDQIRIAKAIIEGLGKSASGLNEFQSLMSRIQSSIKGKKNFLVLDDVWDGDYNK---WQPFFRCLKNGLHGSKILVTT-R  328 (352)
Q Consensus       253 ~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdvw~~~~~~---~~~l~~~l~~~~~gs~IivTT-R  328 (352)
                      .+...+ ..................  .........++..++++|++.......   +..+........ ...|++++ .
T Consensus        89 ~~~~~~-~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~vi~ide~~~~~~~~~~~~~~~~~~~~~~~-~~ii~i~~~~  164 (253)
T d1sxja2          89 RSKTLL-NAGVKNALDNMSVVGYFK--HNEEAQNLNGKHFVIIMDEVDGMSGGDRGGVGQLAQFCRKTS-TPLILICNER  164 (253)
T ss_dssp             CCHHHH-HHTGGGGTTBCCSTTTTT--C----CCSSTTSEEEEECSGGGCCTTSTTHHHHHHHHHHHCS-SCEEEEESCT
T ss_pred             hhhHHH-HHHHHHHhhcchhhhhhh--hhhhcccccccceEEEeeeccccccchhhhhHHHhhhhcccc-cccccccccc
Confidence            544333 222222222111000000  001112235677889999986543222   344444333322 22233333 2


Q ss_pred             Ch-HHHHHhCCCCeeeCCCCCCC
Q 036619          329 NE-SVARMMGSTDIISIEQLAEE  350 (352)
Q Consensus       329 ~~-~va~~~~~~~~~~l~~L~~~  350 (352)
                      .. .+.........+++.+++.+
T Consensus       165 ~~~~~~~l~~~~~~i~f~~~~~~  187 (253)
T d1sxja2         165 NLPKMRPFDRVCLDIQFRRPDAN  187 (253)
T ss_dssp             TSSTTGGGTTTSEEEECCCCCHH
T ss_pred             cccccccccceeeeeeccccchh
Confidence            22 22222222456777776653

>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=98.07  E-value=6.2e-06  Score=68.98  Aligned_cols=50  Identities=30%  Similarity=0.368  Sum_probs=38.0

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .+++|.+..+++|..++..... .....+-+.++|++|+||||+|+.+.+.
T Consensus         9 ~divGqe~~~~~l~~~i~~~~~-~~~~~~~~L~~GPpGtGKT~lA~~la~~   58 (238)
T d1in4a2           9 DEFIGQENVKKKLSLALEAAKM-RGEVLDHVLLAGPPGLGKTTLAHIIASE   58 (238)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHH-HTCCCCCEEEESSTTSSHHHHHHHHHHH
T ss_pred             HHcCChHHHHHHHHHHHHHHHh-cCCCCCeEEEECCCCCcHHHHHHHHHhc
Confidence            4689999999999888753221 1123455779999999999999999874

>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=98.04  E-value=1.5e-05  Score=65.58  Aligned_cols=116  Identities=27%  Similarity=0.324  Sum_probs=68.9

Q ss_pred             EEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCcccHHHHHHHHHHhcCCce
Q 036619          212 QVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSASGLNEFQSLMSRIQSSIKGKK  291 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~kr  291 (352)
                      ..+-|+|+.|+|||.|++.+++..  ......+++++.      ..+...+...+...     ....    +.+.+. .-
T Consensus        37 n~l~l~G~~G~GKTHLl~A~~~~~--~~~~~~~~~~~~------~~~~~~~~~~~~~~-----~~~~----~~~~~~-~~   98 (213)
T d1l8qa2          37 NPIFIYGSVGTGKTHLLQAAGNEA--KKRGYRVIYSSA------DDFAQAMVEHLKKG-----TINE----FRNMYK-SV   98 (213)
T ss_dssp             SSEEEECSSSSSHHHHHHHHHHHH--HHTTCCEEEEEH------HHHHHHHHHHHHHT-----CHHH----HHHHHH-TC
T ss_pred             CcEEEECCCCCcHHHHHHHHHHHh--ccCccceEEech------HHHHHHHHHHHHcc-----chhh----HHHHHh-hc
Confidence            347799999999999999999863  333445555543      34444444443221     1111    222222 34


Q ss_pred             EEEEecCCCCCC-ccChhH-HHHhhcc-CCCCcEEEEecCCh---------HHHHHhCCCCeeeCC
Q 036619          292 NFLVLDDVWDGD-YNKWQP-FFRCLKN-GLHGSKILVTTRNE---------SVARMMGSTDIISIE  345 (352)
Q Consensus       292 ~LlVlDdvw~~~-~~~~~~-l~~~l~~-~~~gs~IivTTR~~---------~va~~~~~~~~~~l~  345 (352)
                      -+|+|||+.... ...|+. +...+.. ...|..||+||+..         ++...+....+++++
T Consensus        99 dll~iDDi~~i~~~~~~~~~lf~lin~~~~~~~~iiits~~~p~~l~~~~~dL~SRL~~g~~~~i~  164 (213)
T d1l8qa2          99 DLLLLDDVQFLSGKERTQIEFFHIFNTLYLLEKQIILASDRHPQKLDGVSDRLVSRFEGGILVEIE  164 (213)
T ss_dssp             SEEEEECGGGGTTCHHHHHHHHHHHHHHHHTTCEEEEEESSCGGGCTTSCHHHHHHHHTSEEEECC
T ss_pred             cchhhhhhhhhcCchHHHHHHHHHHHHHhhccceEEEecCCcchhccccchHHHHHhhCceEEEEC
Confidence            589999996532 235554 4444432 23577899999853         455556667778885

>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=97.93  E-value=3.8e-05  Score=62.22  Aligned_cols=119  Identities=13%  Similarity=0.034  Sum_probs=72.9

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhhhhh--hccCCeEEEEEeC-CCCCHHHHHHHHHHHhCCCCCCcccHHHHHHHHHHh
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNNDEV--KRNFEKVIWVCVS-DTFDQIRIAKAIIEGLGKSASGLNEFQSLMSRIQSS  286 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~--~~~F~~~~wv~vs-~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~  286 (352)
                      ....+.++|.+|+||||+|..+.+....  ..|.| ..++... ....+..+ +++.+.+...+                
T Consensus        14 ~~~~~l~~G~~g~gk~~~a~~l~~~i~~~~~~h~D-~~~i~~~~~~I~Id~I-R~i~~~~~~~~----------------   75 (198)
T d2gnoa2          14 EGISILINGEDLSYPREVSLELPEYVEKFPPKASD-VLEIDPEGENIGIDDI-RTIKDFLNYSP----------------   75 (198)
T ss_dssp             SSEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTT-EEEECCSSSCBCHHHH-HHHHHHHTSCC----------------
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHHHhccccCCCC-EEEEeCCcCCCCHHHH-HHHHHHHhhCc----------------
Confidence            4678899999999999999988864211  12223 3334322 12233332 22333332211                


Q ss_pred             cCCceEEEEecCCCCCCccChhHHHHhhccCCCCcEEEEecCCh-HHHHHhCC-CCeeeCCC
Q 036619          287 IKGKKNFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKILVTTRNE-SVARMMGS-TDIISIEQ  346 (352)
Q Consensus       287 l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTTR~~-~va~~~~~-~~~~~l~~  346 (352)
                      ..+++-++|+|++...+.+.++.|+..+.....++.+|++|.+. .+-..+.+ ...+++.+
T Consensus        76 ~~~~~KviIId~ad~l~~~aqNaLLK~LEEPp~~t~fiLit~~~~~ll~TI~SRC~~i~~~~  137 (198)
T d2gnoa2          76 ELYTRKYVIVHDCERMTQQAANAFLKALEEPPEYAVIVLNTRRWHYLLPTIKSRVFRVVVNV  137 (198)
T ss_dssp             SSSSSEEEEETTGGGBCHHHHHHTHHHHHSCCTTEEEEEEESCGGGSCHHHHTTSEEEECCC
T ss_pred             ccCCCEEEEEeCccccchhhhhHHHHHHhCCCCCceeeeccCChhhCHHHHhcceEEEeCCC
Confidence            13455689999999988888999999998776777777766654 44444433 44555543

>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=97.84  E-value=6.8e-05  Score=62.88  Aligned_cols=48  Identities=19%  Similarity=0.119  Sum_probs=33.8

Q ss_pred             CccccccchHHHHHHHHc-------CccccCCCCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          184 GEVCGRVDEKSELFSKLL-------CESSEQQNGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~-------~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..++|..+.++.+++.+.       ...   ...++-|.++|++|+|||+||+.+++.
T Consensus         9 ~~~i~~~~~i~~i~~~~~~~~~~~~~~~---~~p~~~vLL~GppGtGKT~la~alA~~   63 (246)
T d1d2na_           9 NGIIKWGDPVTRVLDDGELLVQQTKNSD---RTPLVSVLLEGPPHSGKTALAAKIAEE   63 (246)
T ss_dssp             TCCCCCSHHHHHHHHHHHHHHHHHHHCS---SCSEEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             cCCcCcCHHHHHHHHHHHHHHHHHhccC---CCCCeEEEEECcCCCCHHHHHHHHhhc
Confidence            347777776665554432       211   134677889999999999999999974

>d1lv7a_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Escherichia coli [TaxId: 562]

Probab=97.64  E-value=0.00015  Score=61.11  Aligned_cols=51  Identities=27%  Similarity=0.234  Sum_probs=35.2

Q ss_pred             CccccccchHHHHHH---HHcCccc---cCCCCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          184 GEVCGRVDEKSELFS---KLLCESS---EQQNGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~---~L~~~~~---~~~~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .+++|.++.+++|.+   ++.....   -+....+.+.++|++|+|||+||+.+.+.
T Consensus        12 ~Di~Gl~~~k~~l~e~v~~~~~~~~~~~~g~~~~~~iLL~GppGtGKT~la~~iA~~   68 (256)
T d1lv7a_          12 ADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGE   68 (256)
T ss_dssp             GGSCSCHHHHHHTHHHHHHHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHH
T ss_pred             HHHhchHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEeeCCCCCCccHHHHHHHHH
Confidence            468898888777754   4332211   01233566789999999999999999974

>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=97.64  E-value=0.00014  Score=61.42  Aligned_cols=51  Identities=22%  Similarity=0.179  Sum_probs=36.1

Q ss_pred             CccccccchHHHHHHHH----cCccc---cCCCCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          184 GEVCGRVDEKSELFSKL----LCESS---EQQNGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L----~~~~~---~~~~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .++.|-++.+++|.+.+    ..++.   .+-+.++-+.++|++|+|||+||+.+.+.
T Consensus         4 ~dv~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~l~~ala~~   61 (258)
T d1e32a2           4 DDVGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANE   61 (258)
T ss_dssp             GGCCSCSHHHHHHHHHHHHHHHCHHHHHHCCCCCCCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             hhhccHHHHHHHHHHHHHHHhcCHHHHHhCCCCCCceeEEecCCCCCchHHHHHHHHH
Confidence            35788888888887764    22110   01123556789999999999999999974

>d1qvra3 c.37.1.20 (A:536-850) ClpB, AAA+ modules {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Thermus thermophilus [TaxId: 274]

Probab=97.54  E-value=5.8e-05  Score=65.71  Aligned_cols=122  Identities=14%  Similarity=0.247  Sum_probs=66.3

Q ss_pred             ccccccchHHHHHHHHcCcc---ccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHH
Q 036619          185 EVCGRVDEKSELFSKLLCES---SEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKA  261 (352)
Q Consensus       185 ~~~gr~~~~~~l~~~L~~~~---~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~  261 (352)
                      .++|.++.++.+.+.+....   ........++.++|+.|+|||.||+.+.+.  +-..-...+-++.+.-.+...+   
T Consensus        24 ~v~GQ~~ai~~v~~~i~~~~~~l~~~~kp~~~~lf~Gp~G~GKt~lak~la~~--l~~~~~~~~~~~~~~~~~~~~~---   98 (315)
T d1qvra3          24 RVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAAT--LFDTEEAMIRIDMTEYMEKHAV---   98 (315)
T ss_dssp             HSCSCHHHHHHHHHHHHHHGGGCSCSSSCSEEEEEBSCSSSSHHHHHHHHHHH--HHSSGGGEEEECTTTCCSSGGG---
T ss_pred             eEeCHHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCcchHHHHHHHHHHH--hcCCCcceEEEeccccccchhh---
Confidence            47788888877766553211   112244568899999999999999988863  2111112223333332221110   


Q ss_pred             HHHHhCCCCCC---cccHHHHHHHHHHhcCCceEEEEecCCCCCCccChhHHHHhhcc
Q 036619          262 IIEGLGKSASG---LNEFQSLMSRIQSSIKGKKNFLVLDDVWDGDYNKWQPFFRCLKN  316 (352)
Q Consensus       262 i~~~l~~~~~~---~~~~~~~~~~l~~~l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~  316 (352)
                        ..+.+.+++   ......+...++   +....+|+||++.....+.++.|...+..
T Consensus        99 --~~L~g~~~gyvG~~~~~~l~~~~~---~~p~~Vvl~DEieK~~~~v~~~ll~~l~~  151 (315)
T d1qvra3          99 --SRLIGAPPGYVGYEEGGQLTEAVR---RRPYSVILFDEIEKAHPDVFNILLQILDD  151 (315)
T ss_dssp             --GGC--------------CHHHHHH---HCSSEEEEESSGGGSCHHHHHHHHHHHTT
T ss_pred             --hhhcCCCCCCcCcccCChHHHHHH---hCCCcEEEEehHhhcCHHHHHHHHHHhcc
Confidence              111111111   111122333333   24578999999988777788888887754

>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=97.50  E-value=2.7e-05  Score=64.99  Aligned_cols=50  Identities=30%  Similarity=0.375  Sum_probs=37.4

Q ss_pred             CccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          184 GEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .+++|.++.+++|..++..... ....++-+.++|++|+||||+|+.+++.
T Consensus         9 ddivGq~~~~~~L~~~i~~~~~-~~~~~~~~Ll~GPpG~GKTtla~~la~~   58 (239)
T d1ixsb2           9 DEYIGQERLKQKLRVYLEAAKA-RKEPLEHLLLFGPPGLGKTTLAHVIAHE   58 (239)
T ss_dssp             GGSCSCHHHHHHHHHHHHHHTT-SSSCCCCEEEECCTTSCHHHHHHHHHHH
T ss_pred             HHhCCHHHHHHHHHHHHHHHHh-cCCCCCeEEEECCCCCCHHHHHHHHHHH
Confidence            4689999888888777753221 1123555679999999999999999974

>d1r6bx3 c.37.1.20 (X:437-751) ClpA, an Hsp100 chaperone, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpA, an Hsp100 chaperone, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=97.50  E-value=5.7e-05  Score=65.78  Aligned_cols=134  Identities=14%  Similarity=0.199  Sum_probs=75.3

Q ss_pred             CccccccchHHHHHHHHcCcc---ccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHH
Q 036619          184 GEVCGRVDEKSELFSKLLCES---SEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAK  260 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~~~---~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~  260 (352)
                      ..++|.++.++.+...+....   ........++.++|+.|+|||.||+.+..-  .   +...+-++++.-.+...   
T Consensus        22 ~~viGQ~~a~~~v~~~v~~~~~~l~~~~~p~~~~lf~Gp~GvGKT~lak~la~~--l---~~~~i~~d~s~~~~~~~---   93 (315)
T d1r6bx3          22 MLVFGQDKAIEALTEAIKMARAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKA--L---GIELLRFDMSEYMERHT---   93 (315)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHHTTCSCTTSCSEEEEEECSTTSSHHHHHHHHHHH--H---TCEEEEEEGGGCSSSSC---
T ss_pred             CeecChHHHHHHHHHHHHHHHccCCCCCCCceEEEEECCCcchhHHHHHHHHhh--c---cCCeeEeccccccchhh---
Confidence            457888888888766653111   111244678899999999999999999863  2   23334444443211000   


Q ss_pred             HHHHHhCCCCCCcccHHHHHHHHHHhc-CCceEEEEecCCCCCCccChhHHHHhhccC-----------CCCcEEEEecC
Q 036619          261 AIIEGLGKSASGLNEFQSLMSRIQSSI-KGKKNFLVLDDVWDGDYNKWQPFFRCLKNG-----------LHGSKILVTTR  328 (352)
Q Consensus       261 ~i~~~l~~~~~~~~~~~~~~~~l~~~l-~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~-----------~~gs~IivTTR  328 (352)
                        ...+.+..++-. .......+...+ +....+++||++.....+.|+.+...+..+           ...+-||.||.
T Consensus        94 --~~~l~g~~~gy~-g~~~~~~l~~~~~~~~~~vvl~DeieKa~~~V~~~lLqild~G~ltd~~Gr~vdf~n~iiI~Tsn  170 (315)
T d1r6bx3          94 --VSRLIGAPPGYV-GFDQGGLLTDAVIKHPHAVLLLDEIEKAHPDVFNILLQVMDNGTLTDNNGRKADFRNVVLVMTTN  170 (315)
T ss_dssp             --CSSSCCCCSCSH-HHHHTTHHHHHHHHCSSEEEEEETGGGSCHHHHHHHHHHHHHSEEEETTTEEEECTTEEEEEEEC
T ss_pred             --hhhhcccCCCcc-ccccCChhhHHHHhCccchhhhcccccccchHhhhhHHhhccceecCCCCCccCccceEEEeccc
Confidence              011111111110 001111122222 355679999999888878888888887532           23455666665

>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=97.42  E-value=0.00046  Score=55.90  Aligned_cols=58  Identities=22%  Similarity=0.235  Sum_probs=38.9

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCH--HHHHHHHHHHhCCC
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQ--IRIAKAIIEGLGKS  269 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~--~~~~~~i~~~l~~~  269 (352)
                      ..+.||.++|+.|+||||.+-++....  + .....+.+-..+.+..  .+-++...+.++..
T Consensus         7 ~~p~vi~lvGptGvGKTTTiAKLA~~~--~-~~g~kV~lit~Dt~R~gA~eQL~~~a~~l~v~   66 (211)
T d2qy9a2           7 KAPFVILMVGVNGVGKTTTIGKLARQF--E-QQGKSVMLAAGDTFRAAAVEQLQVWGQRNNIP   66 (211)
T ss_dssp             CTTEEEEEECCTTSCHHHHHHHHHHHH--H-TTTCCEEEECCCTTCHHHHHHHHHHHHHTTCC
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHH--H-HCCCcEEEEecccccccchhhhhhhhhhcCCc
Confidence            457899999999999999887776543  2 2234566666666665  34455556665543

>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=97.23  E-value=0.001  Score=55.99  Aligned_cols=86  Identities=21%  Similarity=0.209  Sum_probs=61.4

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCC-----CcccHHHHHHHH
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSAS-----GLNEFQSLMSRI  283 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~-----~~~~~~~~~~~l  283 (352)
                      +.-++.-|+|..|+||||||-.++....-  .-..++||.....++.+.     +++++...+     .....++..+.+
T Consensus        58 ~~g~i~e~~G~~~~GKT~l~l~~~~~~q~--~g~~~vyIDtE~~~~~e~-----a~~~GvD~d~il~~~~~~~E~~~~~~  130 (269)
T d1mo6a1          58 PRGRVIEIYGPESSGKTTVALHAVANAQA--AGGVAAFIDAEHALDPDY-----AKKLGVDTDSLLVSQPDTGEQALEIA  130 (269)
T ss_dssp             CSSSEEEEECSSSSSHHHHHHHHHHHHHH--TTCEEEEEESSCCCCHHH-----HHHHTCCGGGCEEECCSSHHHHHHHH
T ss_pred             ccceeEEEecCCCcHHHHHHHHHHHHHhc--CCCEEEEEECCccCCHHH-----HHHhCCCHHHeEEecCCCHHHHHHHH
Confidence            55689999999999999999777764333  334699999999998765     455555432     234466666666


Q ss_pred             HHhcC-CceEEEEecCCCC
Q 036619          284 QSSIK-GKKNFLVLDDVWD  301 (352)
Q Consensus       284 ~~~l~-~kr~LlVlDdvw~  301 (352)
                      ..++. ++.-|||+|.+-.
T Consensus       131 ~~l~~~~~~~liIiDSi~a  149 (269)
T d1mo6a1         131 DMLIRSGALDIVVIDSVAA  149 (269)
T ss_dssp             HHHHHTTCEEEEEEECSTT
T ss_pred             HHHHhcCCCCEEEEecccc
Confidence            65554 5577999999854

>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=97.22  E-value=0.00079  Score=56.72  Aligned_cols=86  Identities=15%  Similarity=0.183  Sum_probs=61.6

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCC-----CcccHHHHHHHH
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSAS-----GLNEFQSLMSRI  283 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~-----~~~~~~~~~~~l  283 (352)
                      +.-++.-|+|.+|+||||||..++....-.  =..++|+.....++.+     +++.++...+     ...+.++..+.+
T Consensus        55 p~g~itei~G~~~sGKT~l~l~~~~~aqk~--g~~v~yiDtE~~~~~~-----~a~~~Gvd~d~i~~~~~~~~E~~~~~~  127 (268)
T d1xp8a1          55 PRGRITEIYGPESGGKTTLALAIVAQAQKA--GGTCAFIDAEHALDPV-----YARALGVNTDELLVSQPDNGEQALEIM  127 (268)
T ss_dssp             ETTSEEEEEESTTSSHHHHHHHHHHHHHHT--TCCEEEEESSCCCCHH-----HHHHTTCCGGGCEEECCSSHHHHHHHH
T ss_pred             cCceEEEEecCCccchHHHHHHHHHHHHhC--CCEEEEEECCccCCHH-----HHHHhCCCchhEEEEcCCCHHHHHHHH
Confidence            345799999999999999997777653322  2468999999988874     5667766533     234566666666


Q ss_pred             HHhcCC-ceEEEEecCCCC
Q 036619          284 QSSIKG-KKNFLVLDDVWD  301 (352)
Q Consensus       284 ~~~l~~-kr~LlVlDdvw~  301 (352)
                      ..+++. ..-|||+|-+-.
T Consensus       128 ~~l~~~~~~~liIiDSi~a  146 (268)
T d1xp8a1         128 ELLVRSGAIDVVVVDSVAA  146 (268)
T ss_dssp             HHHHTTTCCSEEEEECTTT
T ss_pred             HHHHhcCCCcEEEEecccc
Confidence            666643 456999999844

>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=97.19  E-value=0.00033  Score=55.80  Aligned_cols=26  Identities=38%  Similarity=0.457  Sum_probs=23.2

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .++-+|+|.|..|+||||||+.+...
T Consensus        20 ~~~~iIgI~G~~GSGKSTla~~L~~~   45 (198)
T d1rz3a_          20 AGRLVLGIDGLSRSGKTTLANQLSQT   45 (198)
T ss_dssp             SSSEEEEEEECTTSSHHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            45789999999999999999999864

>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=97.16  E-value=9.7e-05  Score=58.35  Aligned_cols=25  Identities=16%  Similarity=0.162  Sum_probs=22.6

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      -.+.|.|.|++|+||||||+.+...
T Consensus         6 ~~K~I~i~G~~GsGKTTla~~La~~   30 (192)
T d1lw7a2           6 FAKTVAILGGESSGKSVLVNKLAAV   30 (192)
T ss_dssp             TCEEEEEECCTTSHHHHHHHHHHHH
T ss_pred             cceEEEEECCCCCCHHHHHHHHHHH
Confidence            4688999999999999999999874

>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=97.15  E-value=0.00018  Score=60.13  Aligned_cols=51  Identities=31%  Similarity=0.300  Sum_probs=34.6

Q ss_pred             CccccccchHHHHHH---HHcCccc---cCCCCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          184 GEVCGRVDEKSELFS---KLLCESS---EQQNGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~---~L~~~~~---~~~~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .+++|-++.+++|.+   .+..++.   .+...++-+.++|++|+|||+||+.+.+.
T Consensus         9 ~di~G~~~~k~~l~~~i~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~aia~~   65 (247)
T d1ixza_           9 KDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGE   65 (247)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCSEEEEECCTTSSHHHHHHHHHHH
T ss_pred             HHHccHHHHHHHHHHHHHHHHCHHHHHHcCCCCCceEEEecCCCCChhHHHHHHHHH
Confidence            468898887766544   3322110   01133456789999999999999999974

>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=97.12  E-value=0.00028  Score=55.23  Aligned_cols=38  Identities=18%  Similarity=0.105  Sum_probs=28.4

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHhhhhhh-ccCCeEEEEE
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYNNDEVK-RNFEKVIWVC  248 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~-~~F~~~~wv~  248 (352)
                      ....+|.|+|++|+||||+|+.+...  .. .+++...++.
T Consensus         4 ~~g~~I~l~G~~GsGKTTia~~La~~--L~~~~~~~~~~~~   42 (183)
T d1m8pa3           4 TQGFTIFLTGYMNSGKDAIARALQVT--LNQQGGRSVSLLL   42 (183)
T ss_dssp             TCCEEEEEECSTTSSHHHHHHHHHHH--HHHHCSSCEEEEE
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHH--HhhcCCCchhhhh
Confidence            44688999999999999999999874  32 2445555553

>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=97.12  E-value=0.00011  Score=57.31  Aligned_cols=24  Identities=25%  Similarity=0.425  Sum_probs=21.7

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ++|+.|+|..|+|||||++.+.+.
T Consensus         2 ~Pvi~itG~~GSGKTTL~~~L~~~   25 (170)
T d1np6a_           2 IPLLAFAAWSGTGKTTLLKKLIPA   25 (170)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHH
Confidence            468999999999999999999874

>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=97.10  E-value=0.00014  Score=55.68  Aligned_cols=22  Identities=32%  Similarity=0.418  Sum_probs=19.6

Q ss_pred             EEEEEEecCCCcHHHHHHHHHh
Q 036619          212 QVISLVGLGGIGKTTLAQLAYN  233 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~  233 (352)
                      ++|.|.|++|+||||||+.+..
T Consensus         3 klIii~G~pGsGKTTla~~L~~   24 (152)
T d1ly1a_           3 KIILTIGCPGSGKSTWAREFIA   24 (152)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            5788999999999999998865

>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=97.07  E-value=0.00019  Score=57.53  Aligned_cols=26  Identities=23%  Similarity=0.238  Sum_probs=23.5

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      +.+.+|.|+|++|+||||+|+.+.+.
T Consensus         4 ~kp~iI~i~G~pGSGKsT~a~~La~~   29 (194)
T d1qf9a_           4 SKPNVVFVLGGPGSGKGTQCANIVRD   29 (194)
T ss_dssp             CCCEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHH
Confidence            45789999999999999999999874

>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=97.04  E-value=0.00011  Score=56.60  Aligned_cols=23  Identities=35%  Similarity=0.429  Sum_probs=20.2

Q ss_pred             EEEEEEecCCCcHHHHHHHHHhh
Q 036619          212 QVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      +.|.|+|++|+||||+|+.+...
T Consensus         3 k~I~l~G~~GsGKSTvak~La~~   25 (169)
T d1kaga_           3 RNIFLVGPMGAGKSTIGRQLAQQ   25 (169)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH
Confidence            35778899999999999999974

>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=97.03  E-value=0.00011  Score=62.34  Aligned_cols=51  Identities=25%  Similarity=0.211  Sum_probs=35.1

Q ss_pred             CccccccchHHHHHHHHc----Cccc---cCCCCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          184 GEVCGRVDEKSELFSKLL----CESS---EQQNGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~----~~~~---~~~~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .++.|-++.+++|.+.+.    .++.   .+-...+-|.++|++|+|||+||+.+++.
T Consensus         7 ~di~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~Gp~GtGKT~l~~ala~~   64 (265)
T d1r7ra3           7 EDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANE   64 (265)
T ss_dssp             SSCSSSSCCCCHHHHHTHHHHHCHHHHHHCCCCCCCEEEEBCCTTSSHHHHHHHHHHH
T ss_pred             HHhcCHHHHHHHHHHHHHHHhhCHHHHHhCCCCCCCeEEEECCCCCcchhHHHHHHHH
Confidence            457788877777766542    1110   01133566779999999999999999984

>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=97.02  E-value=0.00018  Score=56.07  Aligned_cols=23  Identities=22%  Similarity=0.398  Sum_probs=20.6

Q ss_pred             EEEEEEecCCCcHHHHHHHHHhh
Q 036619          212 QVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ++|.|.|++|+||||+|+.+...
T Consensus         3 klI~i~G~~GsGKTTva~~L~~~   25 (176)
T d2bdta1           3 KLYIITGPAGVGKSTTCKRLAAQ   25 (176)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            68999999999999999988853

>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=97.01  E-value=0.00034  Score=58.89  Aligned_cols=43  Identities=19%  Similarity=0.279  Sum_probs=30.1

Q ss_pred             chHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          191 DEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       191 ~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      +...+.+..|..... ....++.|.++|++|+||||||+.+++.
T Consensus        13 ~~~~~~~~~~~~~~~-~~~~P~~ilL~GpPGtGKT~la~~la~~   55 (273)
T d1gvnb_          13 NRLNDNLEELIQGKK-AVESPTAFLLGGQPGSGKTSLRSAIFEE   55 (273)
T ss_dssp             HHHHHHHHHHHTTCC-CCSSCEEEEEECCTTSCTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccc-CCCCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            334444455544332 2345778889999999999999999974

>d1l2ta_ c.37.1.12 (A:) MJ0796 {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: MJ0796
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=96.98  E-value=0.0022  Score=52.56  Aligned_cols=55  Identities=20%  Similarity=0.281  Sum_probs=35.2

Q ss_pred             HHHHHHhcCCceEEEEecCCCCC-CccChhHHHHhhcc--CCCCcEEEEecCChHHHH
Q 036619          280 MSRIQSSIKGKKNFLVLDDVWDG-DYNKWQPFFRCLKN--GLHGSKILVTTRNESVAR  334 (352)
Q Consensus       280 ~~~l~~~l~~kr~LlVlDdvw~~-~~~~~~~l~~~l~~--~~~gs~IivTTR~~~va~  334 (352)
                      .-.|...|..++-+|++|.--.. |...-..+...+..  ...|..||++|.+.++|.
T Consensus       153 RvaIAraL~~~P~lLllDEPTs~LD~~~~~~i~~~l~~l~~~~g~tii~vTHd~~~a~  210 (230)
T d1l2ta_         153 RVAIARALANNPPIILADQPTGALDSKTGEKIMQLLKKLNEEDGKTVVVVTHDINVAR  210 (230)
T ss_dssp             HHHHHHHHTTCCSEEEEESTTTTSCHHHHHHHHHHHHHHHHTTCCEEEEECSCHHHHT
T ss_pred             HHHHHhhhhcCCCEEEecCCccccCHHHHHHHHHHHHHHHHhhCCEEEEECCCHHHHH
Confidence            34455666777889999987432 22233344444443  244778999999998885

>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=96.94  E-value=0.00026  Score=55.60  Aligned_cols=24  Identities=38%  Similarity=0.397  Sum_probs=20.9

Q ss_pred             EEEEEEecCCCcHHHHHHHHHhhh
Q 036619          212 QVISLVGLGGIGKTTLAQLAYNND  235 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~  235 (352)
                      +.|.|+|++|+|||||++.+....
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            458899999999999999998753

>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=96.89  E-value=0.003  Score=52.49  Aligned_cols=46  Identities=22%  Similarity=0.250  Sum_probs=34.3

Q ss_pred             ccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          185 EVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       185 ~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ++||....++++.+.+..-..   .+.+ |.|.|..|+|||++|+.++..
T Consensus         1 ~~v~~S~~~~~~~~~~~~~a~---~~~p-vlI~Ge~GtGK~~~A~~ih~~   46 (247)
T d1ny5a2           1 EYVFESPKMKEILEKIKKISC---AECP-VLITGESGVGKEVVARLIHKL   46 (247)
T ss_dssp             CCCCCSHHHHHHHHHHHHHTT---CCSC-EEEECSTTSSHHHHHHHHHHH
T ss_pred             CeEecCHHHHHHHHHHHHHhC---CCCC-EEEECCCCcCHHHHHHHHHHh
Confidence            367887888888887765432   1223 578999999999999999863

>d1ukza_ c.37.1.1 (A:) Uridylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Uridylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.89  E-value=0.00031  Score=56.33  Aligned_cols=26  Identities=27%  Similarity=0.363  Sum_probs=23.7

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      +..+||.|.|++|+||||+|+.++..
T Consensus         6 ~~~~iI~i~GppGSGKsT~a~~La~~   31 (196)
T d1ukza_           6 DQVSVIFVLGGPGAGKGTQCEKLVKD   31 (196)
T ss_dssp             TTCEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHH
Confidence            56899999999999999999999874

>d1bifa1 c.37.1.7 (A:37-249) 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain
domain: 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=96.87  E-value=0.00028  Score=57.00  Aligned_cols=24  Identities=29%  Similarity=0.353  Sum_probs=21.8

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      +.+|.++|.+|+||||||+.+...
T Consensus         2 p~li~l~GlpgsGKSTla~~L~~~   25 (213)
T d1bifa1           2 PTLIVMVGLPARGKTYISKKLTRY   25 (213)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHH
Confidence            578999999999999999999864

>d1x6va3 c.37.1.4 (A:34-228) Adenosine-5'phosphosulfate kinase (APS kinase) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Adenosine-5'phosphosulfate kinase (APS kinase)
domain: Adenosine-5'phosphosulfate kinase (APS kinase)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.87  E-value=0.00032  Score=55.79  Aligned_cols=25  Identities=32%  Similarity=0.320  Sum_probs=22.0

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ...+|.++|++|+||||+|+.+...
T Consensus        18 ~g~vI~L~G~pGSGKTTiAk~La~~   42 (195)
T d1x6va3          18 RGCTVWLTGLSGAGKTTVSMALEEY   42 (195)
T ss_dssp             CCEEEEEESSCHHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHH
Confidence            4578889999999999999999873

>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=96.87  E-value=0.0021  Score=51.86  Aligned_cols=26  Identities=38%  Similarity=0.312  Sum_probs=21.4

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .+.+|+.++|+.|+||||.+-++...
T Consensus         8 ~~~~vi~lvGp~GvGKTTTiaKLA~~   33 (207)
T d1ls1a2           8 KDRNLWFLVGLQGSGKTTTAAKLALY   33 (207)
T ss_dssp             CSSEEEEEECCTTTTHHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHH
Confidence            34689999999999999988666654

>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=96.87  E-value=0.0011  Score=53.75  Aligned_cols=40  Identities=38%  Similarity=0.312  Sum_probs=24.1

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeC
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVS  250 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs  250 (352)
                      +.+.||.++|+.|+||||.+-++....+ .... .+..|++.
T Consensus        10 k~p~vi~lvGptGvGKTTTiAKLA~~~~-~~g~-kV~lit~D   49 (211)
T d1j8yf2          10 KIPYVIMLVGVQGTGKATTAGKLAYFYK-KKGF-KVGLVGAD   49 (211)
T ss_dssp             SSSEEEEEECSCCC----HHHHHHHHHH-HTTC-CEEEEECC
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHH-HCCC-ceEEEEee
Confidence            5689999999999999998866665433 2222 45556543

>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=96.87  E-value=0.00019  Score=55.87  Aligned_cols=23  Identities=39%  Similarity=0.482  Sum_probs=19.9

Q ss_pred             EEEEEEecCCCcHHHHHHHHHhh
Q 036619          212 QVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..|.|.|++|+||||+|+.+...
T Consensus         5 ~~I~i~G~pGsGKTTia~~La~~   27 (173)
T d1rkba_           5 PNILLTGTPGVGKTTLGKELASK   27 (173)
T ss_dssp             CCEEEECSTTSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHH
Confidence            45679999999999999999864

>d1y63a_ c.37.1.1 (A:) Probable kinase LmjF30.1890 {Leishmania major [TaxId: 5664]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Probable kinase LmjF30.1890
species: Leishmania major [TaxId: 5664]

Probab=96.86  E-value=0.00029  Score=54.93  Aligned_cols=26  Identities=27%  Similarity=0.322  Sum_probs=22.2

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ++...|.|.|++|+||||+|+.+...
T Consensus         3 pk~~~I~i~G~~GsGKTT~~~~La~~   28 (174)
T d1y63a_           3 PKGINILITGTPGTGKTSMAEMIAAE   28 (174)
T ss_dssp             CSSCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCCEEEEEeCCCCCHHHHHHHHHHH
Confidence            44567889999999999999999874

>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=96.85  E-value=0.0018  Score=54.32  Aligned_cols=84  Identities=18%  Similarity=0.230  Sum_probs=58.2

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCC-----CcccHHHHHHHHH
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSAS-----GLNEFQSLMSRIQ  284 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~-----~~~~~~~~~~~l~  284 (352)
                      .-+++-|+|++|+|||||+-+++....  ..=..++|+.....++...     ++.++...+     .....++..+.+.
T Consensus        53 ~g~itei~G~~gsGKTtl~l~~~~~~q--~~g~~~vyidtE~~~~~~~-----a~~~Gvd~d~v~~~~~~~~E~~~~~i~  125 (263)
T d1u94a1          53 MGRIVEIYGPESSGKTTLTLQVIAAAQ--REGKTCAFIDAEHALDPIY-----ARKLGVDIDNLLCSQPDTGEQALEICD  125 (263)
T ss_dssp             TTSEEEEECSTTSSHHHHHHHHHHHHH--HTTCCEEEEESSCCCCHHH-----HHHTTCCGGGCEEECCSSHHHHHHHHH
T ss_pred             CceEEEEecCCCcHHHHHHHHHHHHHH--cCCCEEEEEccccccCHHH-----HHHhCCCHHHEEEecCCCHHHHHHHHH
Confidence            457899999999999999988777543  3334689999998888643     456665422     2334555556565


Q ss_pred             HhcC-CceEEEEecCCC
Q 036619          285 SSIK-GKKNFLVLDDVW  300 (352)
Q Consensus       285 ~~l~-~kr~LlVlDdvw  300 (352)
                      ...+ +..-|||+|.+-
T Consensus       126 ~l~~~~~~~liViDSi~  142 (263)
T d1u94a1         126 ALARSGAVDVIVVDSVA  142 (263)
T ss_dssp             HHHHHTCCSEEEEECGG
T ss_pred             HHHhcCCCCEEEEECcc
Confidence            5554 344599999984

>d1knqa_ c.37.1.17 (A:) Gluconate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Gluconate kinase
domain: Gluconate kinase
species: Escherichia coli [TaxId: 562]

Probab=96.83  E-value=0.00035  Score=54.33  Aligned_cols=26  Identities=23%  Similarity=0.443  Sum_probs=23.2

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ...+++.|.|++|+||||+|+.+...
T Consensus         4 ~~~~iivl~G~~GsGKsT~a~~La~~   29 (171)
T d1knqa_           4 HDHHIYVLMGVSGSGKSAVASEVAHQ   29 (171)
T ss_dssp             TTSEEEEEECSTTSCHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            45789999999999999999999874

>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=96.81  E-value=0.0016  Score=52.55  Aligned_cols=58  Identities=19%  Similarity=0.126  Sum_probs=36.5

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCC-CCCHHHHHHHHHHHhCC
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSD-TFDQIRIAKAIIEGLGK  268 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~-~~~~~~~~~~i~~~l~~  268 (352)
                      ++.+|+.++|+.|+||||.+-++..... +.. ..+..|++.. .....+.++...+.++.
T Consensus         4 ~~~~vi~lvGptGvGKTTTiaKLA~~~~-~~g-~kV~lit~Dt~R~gA~eQL~~~a~~l~i   62 (207)
T d1okkd2           4 PKGRVVLVVGVNGVGKTTTIAKLGRYYQ-NLG-KKVMFCAGDTFRAAGGTQLSEWGKRLSI   62 (207)
T ss_dssp             CSSSEEEEECSTTSSHHHHHHHHHHHHH-TTT-CCEEEECCCCSSTTHHHHHHHHHHHHTC
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHH-HCC-CcEEEEEeccccccchhhHhhcccccCc
Confidence            4568999999999999999877776433 222 3566665543 23344445555554443

>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=96.78  E-value=0.0036  Score=50.57  Aligned_cols=58  Identities=24%  Similarity=0.152  Sum_probs=36.7

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCC-CCHHHHHHHHHHHhCC
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDT-FDQIRIAKAIIEGLGK  268 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~-~~~~~~~~~i~~~l~~  268 (352)
                      ..+.||.++|+.|+||||.+-+++....  .+-..+.-|++... ....+.++...+.++.
T Consensus         9 ~~p~vi~lvGptGvGKTTTiAKLAa~~~--~~~~kV~lit~Dt~R~gA~eQL~~~a~~l~i   67 (213)
T d1vmaa2           9 EPPFVIMVVGVNGTGKTTSCGKLAKMFV--DEGKSVVLAAADTFRAAAIEQLKIWGERVGA   67 (213)
T ss_dssp             SSCEEEEEECCTTSSHHHHHHHHHHHHH--HTTCCEEEEEECTTCHHHHHHHHHHHHHHTC
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHH--HCCCceEEEeecccccchhHHHHHHhhhcCc
Confidence            5688999999999999998877766432  22245666655432 2233445555555543

>d2awna2 c.37.1.12 (A:4-235) Maltose transport protein MalK, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Maltose transport protein MalK, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=96.78  E-value=0.0012  Score=54.15  Aligned_cols=23  Identities=30%  Similarity=0.485  Sum_probs=20.7

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYN  233 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~  233 (352)
                      -.+++|+|+.|+|||||.+.+..
T Consensus        26 Gei~~liGpsGsGKSTLl~~i~G   48 (232)
T d2awna2          26 GEFVVFVGPSGCGKSTLLRMIAG   48 (232)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHT
T ss_pred             CCEEEEECCCCChHHHHHHHHhc
Confidence            36899999999999999998875

>d1tf7a2 c.37.1.11 (A:256-497) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Circadian clock protein KaiC
species: Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]

Probab=96.76  E-value=0.0012  Score=54.51  Aligned_cols=86  Identities=20%  Similarity=0.217  Sum_probs=53.6

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCC---------------CCCc
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKS---------------ASGL  273 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~---------------~~~~  273 (352)
                      +.-.++.|+|.+|+|||+|+.++..+  ...+...++|++...+  ...+.+. +..++..               ....
T Consensus        24 ~~gsl~li~G~pGsGKT~l~~qia~~--~~~~~~~~~~is~e~~--~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~   98 (242)
T d1tf7a2          24 FKDSIILATGATGTGKTLLVSRFVEN--ACANKERAILFAYEES--RAQLLRN-AYSWGMDFEEMERQNLLKIVCAYPES   98 (242)
T ss_dssp             ESSCEEEEEECTTSSHHHHHHHHHHH--HHTTTCCEEEEESSSC--HHHHHHH-HHTTSCCHHHHHHTTSEEECCCCGGG
T ss_pred             cCCeEEEEEeCCCCCHHHHHHHHHHH--HHHhccccceeeccCC--HHHHHHH-HHHcCCChHHHhhcCceEEEEeecch
Confidence            34678999999999999999888774  4456677888887543  3333222 2222221               1112


Q ss_pred             ccHHHHHHHHHHhc-CCceEEEEecCC
Q 036619          274 NEFQSLMSRIQSSI-KGKKNFLVLDDV  299 (352)
Q Consensus       274 ~~~~~~~~~l~~~l-~~kr~LlVlDdv  299 (352)
                      .........+...+ +.+.-++|+|.+
T Consensus        99 ~~~~~~~~~i~~~i~~~~~~~vviDs~  125 (242)
T d1tf7a2          99 AGLEDHLQIIKSEINDFKPARIAIDSL  125 (242)
T ss_dssp             SCHHHHHHHHHHHHHTTCCSEEEEECH
T ss_pred             hhHHHHHHHHHHHHHhcCCceeeeecc
Confidence            33455555666555 445668899986

>d1v43a3 c.37.1.12 (A:7-245) Hypothetical protein PH0022, N-terminal domain {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Hypothetical protein PH0022, N-terminal domain
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=96.76  E-value=0.0034  Score=51.63  Aligned_cols=57  Identities=16%  Similarity=0.144  Sum_probs=34.5

Q ss_pred             HHHHHhcCCceEEEEecCCCCC-CccChhHHHHhhccC--CCCcEEEEecCChHHHHHhC
Q 036619          281 SRIQSSIKGKKNFLVLDDVWDG-DYNKWQPFFRCLKNG--LHGSKILVTTRNESVARMMG  337 (352)
Q Consensus       281 ~~l~~~l~~kr~LlVlDdvw~~-~~~~~~~l~~~l~~~--~~gs~IivTTR~~~va~~~~  337 (352)
                      -.|...|..++=+|+||.--.. |...-..+...+..-  ..|..||++|.+-..+..++
T Consensus       145 vaiAraL~~~P~iLllDEPts~LD~~~~~~i~~ll~~l~~~~g~tii~vTHd~~~a~~~~  204 (239)
T d1v43a3         145 VAVARAIVVEPDVLLMDEPLSNLDAKLRVAMRAEIKKLQQKLKVTTIYVTHDQVEAMTMG  204 (239)
T ss_dssp             HHHHHHHTTCCSEEEEESTTTTSCHHHHHHHHHHHHHHHHHHTCEEEEEESCHHHHHHHC
T ss_pred             HHHHhhhccCCCceeecCCcccCCHHHHHHHHHHHHHHHHhcCCeEEEEeCCHHHHHHhC
Confidence            4455666778889999986432 222222333333321  22677999999988776654

>d1ofha_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: HslU
species: Haemophilus influenzae [TaxId: 727]

Probab=96.72  E-value=0.00026  Score=61.36  Aligned_cols=51  Identities=24%  Similarity=0.298  Sum_probs=34.1

Q ss_pred             CccccccchHHHHHHHHcC--------ccccCCCCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          184 GEVCGRVDEKSELFSKLLC--------ESSEQQNGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L~~--------~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..++|.++.++.+...+..        ........++.+.++|++|+|||.||+.+.+.
T Consensus        14 ~~ViGQd~A~~~l~~av~~~~~r~~~~~~~~~~~~~~~iLl~GPpG~GKT~lAkalA~~   72 (309)
T d1ofha_          14 QHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKL   72 (309)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHHH
T ss_pred             CcccChHHHHHHHHHHHHHHHHHhccCCCCccCCCCceEEEECCCCCCHHHHHHHHhhc
Confidence            3578888877777654411        00000123466779999999999999999974

>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=96.71  E-value=0.00042  Score=54.48  Aligned_cols=25  Identities=32%  Similarity=0.418  Sum_probs=22.3

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHh
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYN  233 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~  233 (352)
                      +.+.+|.++|++|+||||+|+.+..
T Consensus        12 ~~p~liil~G~pGsGKST~a~~l~~   36 (172)
T d1yj5a2          12 PNPEVVVAVGFPGAGKSTFIQEHLV   36 (172)
T ss_dssp             SSCCEEEEECCTTSSHHHHHHHHTG
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHH
Confidence            4578999999999999999988865

>d1khta_ c.37.1.1 (A:) Adenylate kinase {Archaeon Methanococcus voltae [TaxId: 2188]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Archaeon Methanococcus voltae [TaxId: 2188]

Probab=96.69  E-value=0.00039  Score=54.75  Aligned_cols=23  Identities=43%  Similarity=0.738  Sum_probs=21.2

Q ss_pred             EEEEEEecCCCcHHHHHHHHHhh
Q 036619          212 QVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ++|.|.|++|+||||+++.+...
T Consensus         2 kiI~i~G~~GsGKsT~~~~L~~~   24 (190)
T d1khta_           2 KVVVVTGVPGVGSTTSSQLAMDN   24 (190)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHH
Confidence            68999999999999999999874

>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=96.67  E-value=0.00044  Score=53.88  Aligned_cols=24  Identities=21%  Similarity=0.236  Sum_probs=21.5

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .++|.|.|++|+||||+|+.+.+.
T Consensus         3 ~kiI~l~G~~GsGKsTva~~L~~~   26 (178)
T d1qhxa_           3 TRMIILNGGSSAGKSGIVRCLQSV   26 (178)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHH
Confidence            468999999999999999999873

>d1zp6a1 c.37.1.25 (A:6-181) Hypothetical protein Atu3015 {Agrobacterium tumefaciens [TaxId: 358]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Atu3015-like
domain: Hypothetical protein Atu3015
species: Agrobacterium tumefaciens [TaxId: 358]

Probab=96.66  E-value=0.00058  Score=53.20  Aligned_cols=24  Identities=38%  Similarity=0.522  Sum_probs=21.5

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHh
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYN  233 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~  233 (352)
                      ..++|.|.|++|+||||+|+.+..
T Consensus         3 ~g~iI~l~G~~GsGKSTia~~La~   26 (176)
T d1zp6a1           3 GGNILLLSGHPGSGKSTIAEALAN   26 (176)
T ss_dssp             TTEEEEEEECTTSCHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            357899999999999999999875

>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=96.65  E-value=0.00045  Score=53.72  Aligned_cols=23  Identities=35%  Similarity=0.326  Sum_probs=21.0

Q ss_pred             EEEEEEecCCCcHHHHHHHHHhh
Q 036619          212 QVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ++++|+|..|+|||||+..+...
T Consensus         2 kii~I~G~~gSGKTTli~~l~~~   24 (165)
T d1xjca_           2 NVWQVVGYKHSGKTTLMEKWVAA   24 (165)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHH
T ss_pred             cEEEEEeCCCCCHHHHHHHHHHH
Confidence            68999999999999999988874

>d2pmka1 c.37.1.12 (A:467-707) Haemolysin B ATP-binding protein {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Haemolysin B ATP-binding protein
species: Escherichia coli [TaxId: 562]

Probab=96.64  E-value=0.0042  Score=51.21  Aligned_cols=24  Identities=42%  Similarity=0.549  Sum_probs=21.2

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      -..++|+|..|.|||||++.+..-
T Consensus        29 Ge~vaIvG~sGsGKSTLl~ll~gl   52 (241)
T d2pmka1          29 GEVIGIVGRSGSGKSTLTKLIQRF   52 (241)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhc
Confidence            368999999999999999998763

>d1viaa_ c.37.1.2 (A:) Shikimate kinase (AroK) {Campylobacter jejuni [TaxId: 197]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Campylobacter jejuni [TaxId: 197]

Probab=96.62  E-value=0.00048  Score=53.40  Aligned_cols=21  Identities=38%  Similarity=0.605  Sum_probs=19.0

Q ss_pred             EEEEecCCCcHHHHHHHHHhh
Q 036619          214 ISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       214 i~I~G~~GiGKTtLa~~v~~~  234 (352)
                      |.|+||+|+||||+++.+...
T Consensus         3 I~liG~~GsGKsTi~k~La~~   23 (161)
T d1viaa_           3 IVFIGFMGSGKSTLARALAKD   23 (161)
T ss_dssp             EEEECCTTSCHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            678899999999999999874

>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=96.59  E-value=0.0041  Score=53.22  Aligned_cols=25  Identities=28%  Similarity=0.319  Sum_probs=23.1

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHh
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYN  233 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~  233 (352)
                      ..+-+|+|.|..|+||||+|+.+..
T Consensus        78 k~P~iIGIaG~sgSGKSTla~~L~~  102 (308)
T d1sq5a_          78 RIPYIISIAGSVAVGKSTTARVLQA  102 (308)
T ss_dssp             CCCEEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCCEEEEEeCCCCCCCcHHHHHHHH
Confidence            6689999999999999999999876

>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=96.56  E-value=0.00054  Score=53.65  Aligned_cols=21  Identities=38%  Similarity=0.548  Sum_probs=19.5

Q ss_pred             EEEEecCCCcHHHHHHHHHhh
Q 036619          214 ISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       214 i~I~G~~GiGKTtLa~~v~~~  234 (352)
                      |.|+|++|+|||||++.+...
T Consensus         3 i~I~G~~G~GKSTLl~~i~~~   23 (178)
T d1ye8a1           3 IIITGEPGVGKTTLVKKIVER   23 (178)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCcHHHHHHHHHHhc
Confidence            789999999999999999874

>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=96.55  E-value=0.0016  Score=53.57  Aligned_cols=123  Identities=18%  Similarity=0.173  Sum_probs=65.1

Q ss_pred             EEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEE----------------eCCCC------CH--------------
Q 036619          212 QVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVC----------------VSDTF------DQ--------------  255 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~----------------vs~~~------~~--------------  255 (352)
                      .+++|+|+.|+|||||.+.+..-.   ..-...+|+.                +.|.+      ++              
T Consensus        25 e~~~liGpnGaGKSTll~~i~Gl~---~p~~G~I~~~G~~i~~~~~~~r~ig~v~Q~~~l~~~ltV~enl~~~l~~~~~~  101 (240)
T d2onka1          25 DYCVLLGPTGAGKSVFLELIAGIV---KPDRGEVRLNGADITPLPPERRGIGFVPQDYALFPHLSVYRNIAYGLRNVERV  101 (240)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHTSS---CCSEEEEEETTEECTTSCTTTSCCBCCCSSCCCCTTSCHHHHHHTTCTTSCHH
T ss_pred             EEEEEECCCCChHHHHHHHHHcCC---CCCceEEEECCEECCcCCHHHcCceeeccchhhcccchhhHhhhhhhcccCHH
Confidence            377899999999999999998631   1112222221                11111      11              


Q ss_pred             --HHHHHHHHHHhCCCCC------CcccHHHHHHHHHHhcCCceEEEEecCCCCC-CccChhHHHHhhccC--CCCcEEE
Q 036619          256 --IRIAKAIIEGLGKSAS------GLNEFQSLMSRIQSSIKGKKNFLVLDDVWDG-DYNKWQPFFRCLKNG--LHGSKIL  324 (352)
Q Consensus       256 --~~~~~~i~~~l~~~~~------~~~~~~~~~~~l~~~l~~kr~LlVlDdvw~~-~~~~~~~l~~~l~~~--~~gs~Ii  324 (352)
                        .+-..++++.++....      ..+.-+.-.-.|...|-.++-+|+||.--.. |...-..+...+..-  ..|..||
T Consensus       102 ~~~~~v~~~l~~~gl~~~~~~~~~~LSGG~kQRvaiAral~~~P~illlDEPts~LD~~~~~~i~~~i~~l~~~~g~tvi  181 (240)
T d2onka1         102 ERDRRVREMAEKLGIAHLLDRKPARLSGGERQRVALARALVIQPRLLLLDEPLSAVDLKTKGVLMEELRFVQREFDVPIL  181 (240)
T ss_dssp             HHHHHHHHHHHTTTCTTTTTCCGGGSCHHHHHHHHHHHHHTTCCSSBEEESTTSSCCHHHHHHHHHHHHHHHHHHTCCEE
T ss_pred             HHHHHHHHHHHhcCcHhhhhCChhhCCHHHHHHHHHHHHHhccCCceEecCccccCCHHHHHHHHHHHHHHHHhcCCeEE
Confidence              1223445555544311      1111233334456667778888999986432 222222333333321  2266699


Q ss_pred             EecCChHHHHHhC
Q 036619          325 VTTRNESVARMMG  337 (352)
Q Consensus       325 vTTR~~~va~~~~  337 (352)
                      ++|.+.+.+..++
T Consensus       182 ~vtHd~~~~~~~a  194 (240)
T d2onka1         182 HVTHDLIEAAMLA  194 (240)
T ss_dssp             EEESCHHHHHHHC
T ss_pred             EEeCCHHHHHHhC
Confidence            9998876665543

>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=96.53  E-value=0.00068  Score=54.04  Aligned_cols=24  Identities=25%  Similarity=0.242  Sum_probs=21.6

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      +.+|.|.|++|+||||+|+.+++.
T Consensus         1 p~iI~i~GppGSGKsT~a~~La~~   24 (194)
T d1teva_           1 PLVVFVLGGPGAGKGTQCARIVEK   24 (194)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHH
Confidence            368999999999999999999974

>d2iyva1 c.37.1.2 (A:2-166) Shikimate kinase (AroK) {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=96.53  E-value=0.00061  Score=52.93  Aligned_cols=22  Identities=36%  Similarity=0.598  Sum_probs=18.5

Q ss_pred             EEEEEEecCCCcHHHHHHHHHhh
Q 036619          212 QVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ++| ++|++|+||||+++.+...
T Consensus         3 ~Iv-liG~~G~GKSTig~~La~~   24 (165)
T d2iyva1           3 KAV-LVGLPGSGKSTIGRRLAKA   24 (165)
T ss_dssp             SEE-EECSTTSSHHHHHHHHHHH
T ss_pred             cEE-EECCCCCCHHHHHHHHHHH
Confidence            444 5699999999999999974

>d1mv5a_ c.37.1.12 (A:) Multidrug resistance ABC transporter LmrA, C-terminal domain {Lactococcus lactis [TaxId: 1358]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Multidrug resistance ABC transporter LmrA, C-terminal domain
species: Lactococcus lactis [TaxId: 1358]

Probab=96.46  E-value=0.011  Score=48.64  Aligned_cols=23  Identities=30%  Similarity=0.424  Sum_probs=20.9

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYN  233 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~  233 (352)
                      -..++|+|+.|+|||||++.+..
T Consensus        28 Ge~vaivG~sGsGKSTLl~ll~g   50 (242)
T d1mv5a_          28 NSIIAFAGPSGGGKSTIFSLLER   50 (242)
T ss_dssp             TEEEEEECCTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHH
Confidence            47899999999999999999875

>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=96.43  E-value=0.00059  Score=53.31  Aligned_cols=22  Identities=32%  Similarity=0.354  Sum_probs=19.2

Q ss_pred             EEEEEecCCCcHHHHHHHHHhh
Q 036619          213 VISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .|.++|++|+||||+|+.+.+.
T Consensus         4 ~Iil~G~~GsGKSTia~~LA~~   25 (170)
T d1e6ca_           4 PIFMVGARGCGMTTVGRELARA   25 (170)
T ss_dssp             CEEEESCTTSSHHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            3568899999999999999874

>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=96.38  E-value=0.0039  Score=51.27  Aligned_cols=58  Identities=14%  Similarity=0.153  Sum_probs=35.8

Q ss_pred             HHHHHHhcCCceEEEEecCCCC-CCccChhHHHHhhccC--CCCcEEEEecCChHHHHHhC
Q 036619          280 MSRIQSSIKGKKNFLVLDDVWD-GDYNKWQPFFRCLKNG--LHGSKILVTTRNESVARMMG  337 (352)
Q Consensus       280 ~~~l~~~l~~kr~LlVlDdvw~-~~~~~~~~l~~~l~~~--~~gs~IivTTR~~~va~~~~  337 (352)
                      .-.|...|-.++-+|++|.--. -|...-..+...+..-  ..|..||++|.+.+.+..++
T Consensus       148 RvaiARaL~~~P~llllDEPt~~LD~~~~~~i~~~i~~l~~~~g~tvi~vTHd~~~~~~~~  208 (242)
T d1oxxk2         148 RVALARALVKDPSLLLLDEPFSNLDARMRDSARALVKEVQSRLGVTLLVVSHDPADIFAIA  208 (242)
T ss_dssp             HHHHHHHHTTCCSEEEEESTTTTSCGGGHHHHHHHHHHHHHHHCCEEEEEESCHHHHHHHC
T ss_pred             HHHHHhHHhhcccceeecCCccCCCHHHHHHHHHHHHHHHhccCCEEEEEECCHHHHHHhC
Confidence            3446667777888999998643 2333333444444321  23777999999977665543

>d1jj7a_ c.37.1.12 (A:) Peptide transporter Tap1, C-terminal ABC domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Peptide transporter Tap1, C-terminal ABC domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.36  E-value=0.019  Score=47.44  Aligned_cols=23  Identities=48%  Similarity=0.592  Sum_probs=20.8

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYN  233 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~  233 (352)
                      -.+++|+|+.|+|||||++.+..
T Consensus        40 Ge~vaivG~sGsGKSTLl~li~g   62 (251)
T d1jj7a_          40 GEVTALVGPNGSGKSTVAALLQN   62 (251)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCcHHHHHHHHhc
Confidence            46899999999999999999875

>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=96.36  E-value=0.0011  Score=52.74  Aligned_cols=25  Identities=36%  Similarity=0.522  Sum_probs=21.1

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ++.++| |+|++|+||||+|+.+...
T Consensus         2 ~~~rii-l~G~pGSGKsT~a~~La~~   26 (190)
T d1ak2a1           2 KGVRAV-LLGPPGAGKGTQAPKLAKN   26 (190)
T ss_dssp             CCCEEE-EECCTTSSHHHHHHHHHHH
T ss_pred             CccEEE-EECCCCCCHHHHHHHHHHH
Confidence            456777 7899999999999999864

>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=96.35  E-value=0.0026  Score=55.08  Aligned_cols=37  Identities=16%  Similarity=0.211  Sum_probs=28.7

Q ss_pred             HHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          194 SELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       194 ~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .++++.+....    .+..+|+|.|++|+|||||...+...
T Consensus        41 ~~ll~~~~~~~----~~~~~IgitG~pGaGKSTLi~~l~~~   77 (327)
T d2p67a1          41 TQLLDAIMPYC----GNTLRLGVTGTPGAGKSTFLEAFGML   77 (327)
T ss_dssp             HHHHHHHGGGC----SCSEEEEEEECTTSCHHHHHHHHHHH
T ss_pred             HHHHHHhhhcc----CCceEEEeeCCCCCCHHHHHHHHHHH
Confidence            45555555433    56899999999999999999888764

>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=96.32  E-value=0.0085  Score=50.14  Aligned_cols=99  Identities=18%  Similarity=0.145  Sum_probs=61.2

Q ss_pred             HHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCC-CHHHHHHHHHHHhCCC----
Q 036619          195 ELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTF-DQIRIAKAIIEGLGKS----  269 (352)
Q Consensus       195 ~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~-~~~~~~~~i~~~l~~~----  269 (352)
                      +.++.|..-..     -.-++|+|..|+|||+|+..+.++. .+.+=+.++++-+.+.. .+.++.+++.+.-...    
T Consensus        57 raID~l~pigk-----GQr~~If~~~g~GKt~l~~~i~~~~-~~~~~~v~V~~~iGer~~ev~~~~~~~~~~~~~~~~~~  130 (276)
T d2jdid3          57 KVVDLLAPYAK-----GGKIGLFGGAGVGKTVLIMELINNV-AKAHGGYSVFAGVGERTREGNDLYHEMIESGVINLKDA  130 (276)
T ss_dssp             HHHHHHSCEET-----TCEEEEEECTTSSHHHHHHHHHHHH-TTTCSSEEEEEEESCCHHHHHHHHHHHHHHTSSCSSSS
T ss_pred             eeeeeeccccC-----CCEEEeeCCCCCCHHHHHHHHHHHH-HhhCCCeEEEEEeccChHHHHHHHHHHHhcCccccccc
Confidence            56777765431     2348899999999999998888752 22334567888887754 4556677776642110    


Q ss_pred             C---------CCcccH-----HHHHHHHHHhc---CCceEEEEecCC
Q 036619          270 A---------SGLNEF-----QSLMSRIQSSI---KGKKNFLVLDDV  299 (352)
Q Consensus       270 ~---------~~~~~~-----~~~~~~l~~~l---~~kr~LlVlDdv  299 (352)
                      .         .+..-.     ....-.+.+++   +++..|+++||+
T Consensus       131 ~~~tvvv~~~s~~~~~~r~~~~~~a~~iAEyf~~~~G~~VLv~~Dsl  177 (276)
T d2jdid3         131 TSKVALVYGQMNEPPGARARVALTGLTVAEYFRDQEGQDVLLFIDNI  177 (276)
T ss_dssp             CCCEEEEEECTTSCHHHHHHHHHHHHHHHHHHHHTTCSCEEEEEECT
T ss_pred             cceEEEEEECCCCCHHHHHHHHHHHHHHHHHHHhcCCCeEEEEEcch
Confidence            0         011111     11223345554   389999999999

>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=96.32  E-value=0.0011  Score=52.15  Aligned_cols=23  Identities=22%  Similarity=0.375  Sum_probs=20.9

Q ss_pred             EEEEEEecCCCcHHHHHHHHHhh
Q 036619          212 QVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ++|.|.|++|+||||+++.+...
T Consensus         2 kiivi~G~~GsGKTT~~~~La~~   24 (194)
T d1nksa_           2 KIGIVTGIPGVGKSTVLAKVKEI   24 (194)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            68889999999999999999874

>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=96.31  E-value=0.0094  Score=50.25  Aligned_cols=81  Identities=16%  Similarity=0.157  Sum_probs=47.2

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCC-eEEEEEeCCCCCHHHHHHHHHHHhCC-------CCCCcccHHHHH
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFE-KVIWVCVSDTFDQIRIAKAIIEGLGK-------SASGLNEFQSLM  280 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~-~~~wv~vs~~~~~~~~~~~i~~~l~~-------~~~~~~~~~~~~  280 (352)
                      ..+-+|+|-|..|+|||||+..+...-.-+..+. .++-++..+-+-...-...+.+....       ..++..|..-+.
T Consensus        25 ~~P~iIGi~G~qGSGKSTl~~~l~~~L~~~~~~~~~v~~iS~DdfY~t~~~r~~L~~~~~~~pl~~~RG~PgThD~~ll~  104 (286)
T d1odfa_          25 KCPLFIFFSGPQGSGKSFTSIQIYNHLMEKYGGEKSIGYASIDDFYLTHEDQLKLNEQFKNNKLLQGRGLPGTHDMKLLQ  104 (286)
T ss_dssp             CSCEEEEEECCTTSSHHHHHHHHHHHHHHHHGGGSCEEEEEGGGGBCCHHHHHHHHHHTTTCGGGSSSCSTTSBCHHHHH
T ss_pred             CCCEEEEeECCCCCCHHHHHHHHHHHHHHHhCCCcceEeeccCCCCCCHHHHHHHhhhccccccceecCCCcchhHHHHH
Confidence            5578999999999999999988876321121222 34555555533322223334444322       235667777666


Q ss_pred             HHHHHhcCC
Q 036619          281 SRIQSSIKG  289 (352)
Q Consensus       281 ~~l~~~l~~  289 (352)
                      +.|..+.++
T Consensus       105 ~~l~~l~~~  113 (286)
T d1odfa_         105 EVLNTIFNN  113 (286)
T ss_dssp             HHHHHHTC-
T ss_pred             HHHHHHHhh
Confidence            666666543

>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=96.29  E-value=0.0045  Score=50.97  Aligned_cols=57  Identities=21%  Similarity=0.240  Sum_probs=34.2

Q ss_pred             HHHHHhcCCceEEEEecCCCCC-CccChhHHHHhhcc-CCCCcEEEEecCChHHHHHhC
Q 036619          281 SRIQSSIKGKKNFLVLDDVWDG-DYNKWQPFFRCLKN-GLHGSKILVTTRNESVARMMG  337 (352)
Q Consensus       281 ~~l~~~l~~kr~LlVlDdvw~~-~~~~~~~l~~~l~~-~~~gs~IivTTR~~~va~~~~  337 (352)
                      -.+...|..+.=+|+||.--.. |......+...+.. ...|-.||+||.+-+.+..++
T Consensus       142 v~iA~al~~~p~illLDEPt~gLD~~~~~~i~~~i~~~~~~g~tii~~tH~l~~~~~~~  200 (238)
T d1vpla_         142 LLIARALMVNPRLAILDEPTSGLDVLNAREVRKILKQASQEGLTILVSSHNMLEVEFLC  200 (238)
T ss_dssp             HHHHHHHTTCCSEEEEESTTTTCCHHHHHHHHHHHHHHHHTTCEEEEEECCHHHHTTTC
T ss_pred             HHHHHHHhcCCCEEEecCCCCCCCHHHHHHHHHHHHHHHhcCCEEEEEeCCHHHHHHhC
Confidence            3455666777778899987442 22233334444432 123667999999887766543

>d1ckea_ c.37.1.1 (A:) CMP kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: CMP kinase
species: Escherichia coli [TaxId: 562]

Probab=96.28  E-value=0.00098  Score=54.12  Aligned_cols=24  Identities=33%  Similarity=0.401  Sum_probs=21.9

Q ss_pred             EEEEEEecCCCcHHHHHHHHHhhh
Q 036619          212 QVISLVGLGGIGKTTLAQLAYNND  235 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~  235 (352)
                      +||+|.|++|+||||+|+.+.++.
T Consensus         4 piI~I~GppGSGKgT~ak~La~~~   27 (225)
T d1ckea_           4 PVITIDGPSGAGKGTLCKAMAEAL   27 (225)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHh
Confidence            499999999999999999999853

>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=96.24  E-value=0.00099  Score=52.87  Aligned_cols=24  Identities=21%  Similarity=0.205  Sum_probs=20.4

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      +..|.|.|++|+||||+|+.+.+.
T Consensus         3 Pm~I~i~GppGsGKsT~a~~La~~   26 (189)
T d1zaka1           3 PLKVMISGAPASGKGTQCELIKTK   26 (189)
T ss_dssp             SCCEEEEESTTSSHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHH
Confidence            345779999999999999999874

>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=96.19  E-value=0.0015  Score=51.98  Aligned_cols=25  Identities=24%  Similarity=0.323  Sum_probs=20.6

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ....|.|.|++|+||||+|+.+...
T Consensus         5 r~mrIiliG~PGSGKtT~a~~La~~   29 (189)
T d2ak3a1           5 RLLRAAIMGAPGSGKGTVSSRITKH   29 (189)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             cceeEEEECCCCCCHHHHHHHHHHH
Confidence            3445568899999999999999874

>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=96.14  E-value=0.0016  Score=52.74  Aligned_cols=24  Identities=17%  Similarity=0.148  Sum_probs=21.5

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      +-||+|.|..|+||||||+.+...
T Consensus         2 P~iIgI~G~~gSGKSTla~~L~~~   25 (213)
T d1uj2a_           2 PFLIGVSGGTASGKSSVCAKIVQL   25 (213)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHH
Confidence            568999999999999999988764

>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=96.12  E-value=0.0017  Score=51.49  Aligned_cols=23  Identities=35%  Similarity=0.398  Sum_probs=20.6

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHH
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAY  232 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~  232 (352)
                      .+-+|+|.|+.|+||||+|+.+-
T Consensus         2 ~p~IIgitG~~gSGKstva~~l~   24 (191)
T d1uf9a_           2 HPIIIGITGNIGSGKSTVAALLR   24 (191)
T ss_dssp             CCEEEEEEECTTSCHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHH
Confidence            46899999999999999998774

>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=96.11  E-value=0.0036  Score=54.09  Aligned_cols=38  Identities=18%  Similarity=0.291  Sum_probs=29.1

Q ss_pred             HHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          193 KSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       193 ~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..++++.+....    .+..+|+|.|++|+|||||...+...
T Consensus        37 ~~~~~~~~~~~~----~~~~~igitG~pGaGKSTli~~l~~~   74 (323)
T d2qm8a1          37 VRDLIDAVLPQT----GRAIRVGITGVPGVGKSTTIDALGSL   74 (323)
T ss_dssp             HHHHHHHHGGGC----CCSEEEEEECCTTSCHHHHHHHHHHH
T ss_pred             HHHHHHHhhhcc----CCceEEeeeCCCCCCHHHHHHHHHHH
Confidence            445555555443    56799999999999999999887764

>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=96.10  E-value=0.0033  Score=53.11  Aligned_cols=96  Identities=13%  Similarity=0.016  Sum_probs=53.5

Q ss_pred             HHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEe-CCCCCHHHHHHHHHHHhCCC----
Q 036619          195 ELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCV-SDTFDQIRIAKAIIEGLGKS----  269 (352)
Q Consensus       195 ~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~v-s~~~~~~~~~~~i~~~l~~~----  269 (352)
                      ++++.|..-.     .-..++|+|..|+|||+|+..+.++.. .++-++++.+.+ ....  + -..++.+.....    
T Consensus        32 r~ID~l~Pig-----rGQr~~I~g~~g~GKT~l~~~i~~~~~-~~~~~~v~~~~~iger~--~-ev~~~~~~~~~~vv~~  102 (289)
T d1xpua3          32 RVLDLASPIG-----RGQRGLIVAPPKAGKTMLLQNIAQSIA-YNHPDCVLMVLLIDERP--E-EVTEMQRLVKGEVVAS  102 (289)
T ss_dssp             HHHHHHSCCB-----TTCEEEEEECSSSSHHHHHHHHHHHHH-HHCTTSEEEEEEEEECH--H-HHHHHHHHCSSEEEEE
T ss_pred             eeeeeccccc-----CCCeeeEeCCCCCCHHHHHHHHHHHHh-hcCCCeEEEEEeeceeH--H-HHHhHHhhcceEEEec
Confidence            6788886544     235678999999999999999987633 334444444433 3222  1 122333332221    


Q ss_pred             CCCccc-----HHHHHHHHHHhc--CCceEEEEecCC
Q 036619          270 ASGLNE-----FQSLMSRIQSSI--KGKKNFLVLDDV  299 (352)
Q Consensus       270 ~~~~~~-----~~~~~~~l~~~l--~~kr~LlVlDdv  299 (352)
                      ..+...     .....-.+.+++  +++..||++||+
T Consensus       103 t~d~~~~~r~~~~~~a~~iAEyfrd~G~dVLli~Dsl  139 (289)
T d1xpua3         103 TFDEPASRHVQVAEMVIEKAKRLVEHKKDVIILLDSI  139 (289)
T ss_dssp             ETTSCHHHHHHHHHHHHHHHHHHHTTTCEEEEEESCH
T ss_pred             cCCCchhHHHHHHHHHHHHHHHHHHhccCceeecCcH
Confidence            001110     111223334444  589999999998

>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=96.07  E-value=0.0016  Score=51.86  Aligned_cols=25  Identities=28%  Similarity=0.302  Sum_probs=22.4

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..++|.|.|++|+||||+|+.+...
T Consensus         7 ~~~iI~l~G~pGSGKsT~a~~La~~   31 (194)
T d3adka_           7 KSKIIFVVGGPGSGKGTQCEKIVQK   31 (194)
T ss_dssp             TSCEEEEEECTTSSHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHH
Confidence            4678999999999999999999874

>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=96.04  E-value=0.01  Score=50.89  Aligned_cols=23  Identities=26%  Similarity=0.368  Sum_probs=20.0

Q ss_pred             EEEEEEecCCCcHHHHHHHHHhh
Q 036619          212 QVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .++.++|++|+|||.||+.+...
T Consensus       124 g~~l~~G~pG~GKT~la~ala~~  146 (321)
T d1w44a_         124 GMVIVTGKGNSGKTPLVHALGEA  146 (321)
T ss_dssp             EEEEEECSSSSCHHHHHHHHHHH
T ss_pred             ceEEEECCCCccHHHHHHHHHHH
Confidence            55667899999999999999984

>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=96.03  E-value=0.0016  Score=51.10  Aligned_cols=21  Identities=38%  Similarity=0.498  Sum_probs=19.1

Q ss_pred             EEEEecCCCcHHHHHHHHHhh
Q 036619          214 ISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       214 i~I~G~~GiGKTtLa~~v~~~  234 (352)
                      |.|.|++|+||||+|+.+...
T Consensus         3 I~i~G~pGSGKsT~a~~La~~   23 (182)
T d1zina1           3 LVLMGLPGAGKGTQAEKIVAA   23 (182)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            679999999999999999874

>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=95.99  E-value=0.01  Score=48.25  Aligned_cols=50  Identities=18%  Similarity=0.231  Sum_probs=34.5

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHhhhhhhc----cCCeEEEEEeCCCCCHHHH
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYNNDEVKR----NFEKVIWVCVSDTFDQIRI  258 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~----~F~~~~wv~vs~~~~~~~~  258 (352)
                      +.-+++-|.|.+|+|||||+.++..+.....    .-...+|+.....++....
T Consensus        32 ~~G~~~li~G~pGsGKT~l~lq~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~   85 (251)
T d1szpa2          32 ETGSITELFGEFRTGKSQLCHTLAVTCQIPLDIGGGEGKCLYIDTEGTFRPVRL   85 (251)
T ss_dssp             ESSSEEEEEESTTSSHHHHHHHHTTTTTSCTTTTCCSCEEEEEESSSCCCGGGG
T ss_pred             cCCeEEEEEcCCCCCHHHHHHHHHHHhhhhhhhccCCceEEEEeecchHHHHHH
Confidence            3457899999999999999977765432211    2246888887777664433

>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=95.95  E-value=0.0019  Score=52.48  Aligned_cols=23  Identities=26%  Similarity=0.397  Sum_probs=20.7

Q ss_pred             EEEEEEecCCCcHHHHHHHHHhh
Q 036619          212 QVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      -+|+|-|++|+||||+|+.+..+
T Consensus         4 i~IaIdGp~GsGKgT~ak~La~~   26 (223)
T d1q3ta_           4 IQIAIDGPASSGKSTVAKIIAKD   26 (223)
T ss_dssp             CEEEEECSSCSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            36889999999999999999875

>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=95.92  E-value=0.0021  Score=50.58  Aligned_cols=22  Identities=41%  Similarity=0.481  Sum_probs=19.6

Q ss_pred             EEEEEecCCCcHHHHHHHHHhh
Q 036619          213 VISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .|.|.|++|+||||+|+.++..
T Consensus         2 ~I~i~G~pGSGKsT~a~~La~~   23 (182)
T d1s3ga1           2 NIVLMGLPGAGKGTQADRIVEK   23 (182)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            3678999999999999999975

>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=95.88  E-value=0.002  Score=50.58  Aligned_cols=21  Identities=33%  Similarity=0.351  Sum_probs=19.1

Q ss_pred             EEEEecCCCcHHHHHHHHHhh
Q 036619          214 ISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       214 i~I~G~~GiGKTtLa~~v~~~  234 (352)
                      |.|.|++|+||||+|+.+++.
T Consensus         3 I~i~G~pGsGKsT~a~~La~~   23 (181)
T d2cdna1           3 VLLLGPPGAGKGTQAVKLAEK   23 (181)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            678899999999999999975

>d1m7ga_ c.37.1.4 (A:) Adenosine-5'phosphosulfate kinase (APS kinase) {Fungus (Penicillium chrysogenum) [TaxId: 5076]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Adenosine-5'phosphosulfate kinase (APS kinase)
domain: Adenosine-5'phosphosulfate kinase (APS kinase)
species: Fungus (Penicillium chrysogenum) [TaxId: 5076]

Probab=95.86  E-value=0.0027  Score=51.23  Aligned_cols=26  Identities=35%  Similarity=0.284  Sum_probs=22.8

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .+..+|-+.|++|+||||||+.+...
T Consensus        22 ~kg~vIwltGlsGsGKTTia~~L~~~   47 (208)
T d1m7ga_          22 QRGLTIWLTGLSASGKSTLAVELEHQ   47 (208)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            45689999999999999999998863

>d1znwa1 c.37.1.1 (A:20-201) Guanylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=95.75  E-value=0.0025  Score=50.12  Aligned_cols=23  Identities=26%  Similarity=0.468  Sum_probs=20.4

Q ss_pred             EEEEEEecCCCcHHHHHHHHHhh
Q 036619          212 QVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ++|.|+|+.|+|||||++.+...
T Consensus         3 ~iivl~GpsG~GK~tl~~~L~~~   25 (182)
T d1znwa1           3 RVVVLSGPSAVGKSTVVRCLRER   25 (182)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHhh
Confidence            57889999999999999998764

>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=95.73  E-value=0.0029  Score=53.10  Aligned_cols=37  Identities=24%  Similarity=0.295  Sum_probs=25.7

Q ss_pred             EEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeC
Q 036619          212 QVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVS  250 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs  250 (352)
                      +.|+|+|-||+||||+|-.+..-- .+..+ .++-|...
T Consensus         2 r~Iai~gKGGvGKTT~a~nLA~~L-A~~G~-rVllID~D   38 (269)
T d1cp2a_           2 RQVAIYGKGGIGKSTTTQNLTSGL-HAMGK-TIMVVGCD   38 (269)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHH-HTTTC-CEEEEEEC
T ss_pred             CEEEEECCCcCCHHHHHHHHHHHH-HhCCC-cEEEEecC
Confidence            689999999999999997776532 12223 45555553

>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=95.68  E-value=0.0027  Score=50.44  Aligned_cols=26  Identities=23%  Similarity=0.095  Sum_probs=23.0

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .++.+|+|-|.-|+||||+++.+...
T Consensus         7 ~kp~~I~ieG~~GsGKTTl~~~L~~~   32 (197)
T d2vp4a1           7 TQPFTVLIEGNIGSGKTTYLNHFEKY   32 (197)
T ss_dssp             CCCEEEEEECSTTSCHHHHHHTTGGG
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHHH
Confidence            56789999999999999999988763

>d1e4va1 c.37.1.1 (A:1-121,A:157-214) Adenylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Escherichia coli [TaxId: 562]

Probab=95.67  E-value=0.0029  Score=49.51  Aligned_cols=21  Identities=38%  Similarity=0.400  Sum_probs=18.9

Q ss_pred             EEEEecCCCcHHHHHHHHHhh
Q 036619          214 ISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       214 i~I~G~~GiGKTtLa~~v~~~  234 (352)
                      |.|.|++|+||||+|+.++..
T Consensus         3 I~i~G~pGSGKsT~~~~La~~   23 (179)
T d1e4va1           3 IILLGAPVAGKGTQAQFIMEK   23 (179)
T ss_dssp             EEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            568999999999999999874

>d1v5wa_ c.37.1.11 (A:) Meiotic recombination protein DMC1/LIM15 homolog {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Meiotic recombination protein DMC1/LIM15 homolog
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.57  E-value=0.091  Score=42.54  Aligned_cols=50  Identities=20%  Similarity=0.226  Sum_probs=36.8

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHhhhh----hhccCCeEEEEEeCCCCCHHHH
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYNNDE----VKRNFEKVIWVCVSDTFDQIRI  258 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~----~~~~F~~~~wv~vs~~~~~~~~  258 (352)
                      +.-+++.|+|.+|+|||+||.++..+..    ....+..+.|+.....+.....
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            4568999999999999999977765322    2234567888888877765443

>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=95.54  E-value=0.0032  Score=49.34  Aligned_cols=23  Identities=30%  Similarity=0.460  Sum_probs=19.3

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .+++ |.|++|+||||+|+.+...
T Consensus         3 mrIv-l~G~pGSGKtT~a~~La~~   25 (180)
T d1akya1           3 IRMV-LIGPPGAGKGTQAPNLQER   25 (180)
T ss_dssp             CEEE-EECCTTSSHHHHHHHHHHH
T ss_pred             eEEE-EECCCCCCHHHHHHHHHHH
Confidence            4444 7799999999999999874

>d2i1qa2 c.37.1.11 (A:65-322) DNA repair protein Rad51, catalytic domain {Archaeon Methanococcus voltae [TaxId: 2188]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Archaeon Methanococcus voltae [TaxId: 2188]

Probab=95.46  E-value=0.041  Score=44.53  Aligned_cols=57  Identities=21%  Similarity=0.246  Sum_probs=36.1

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhhhhhhc--------------cCCeEEEEEeCCCCCHHHHHHHHHHHhC
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNNDEVKR--------------NFEKVIWVCVSDTFDQIRIAKAIIEGLG  267 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~--------------~F~~~~wv~vs~~~~~~~~~~~i~~~l~  267 (352)
                      .-.++.|.|.+|+|||+++..+..+.....              ....+.|+.....++.. ....+...+.
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            457999999999999999977765432211              12246788776655543 3334444443

>d1lvga_ c.37.1.1 (A:) Guanylate kinase {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.46  E-value=0.003  Score=50.18  Aligned_cols=21  Identities=33%  Similarity=0.589  Sum_probs=18.9

Q ss_pred             EEEEecCCCcHHHHHHHHHhh
Q 036619          214 ISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       214 i~I~G~~GiGKTtLa~~v~~~  234 (352)
                      |.|+|+.|+|||||++.+...
T Consensus         3 Ivl~GPsGsGK~tl~~~L~~~   23 (190)
T d1lvga_           3 VVLSGPSGAGKSTLLKKLFQE   23 (190)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHh
Confidence            669999999999999998864

>d1g8pa_ c.37.1.20 (A:) ATPase subunit of magnesium chelatase, BchI {Rhodobacter capsulatus [TaxId: 1061]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ATPase subunit of magnesium chelatase, BchI
species: Rhodobacter capsulatus [TaxId: 1061]

Probab=95.46  E-value=0.003  Score=54.86  Aligned_cols=45  Identities=20%  Similarity=0.218  Sum_probs=32.1

Q ss_pred             CCccccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHh
Q 036619          183 EGEVCGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYN  233 (352)
Q Consensus       183 ~~~~~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~  233 (352)
                      -+.++|.+..+..|.-.+....      ..-+.|+|.+|+||||||+.+..
T Consensus         6 f~~I~Gq~~~kral~laa~~~~------~h~vLl~G~pG~GKT~lar~~~~   50 (333)
T d1g8pa_           6 FSAIVGQEDMKLALLLTAVDPG------IGGVLVFGDRGTGKSTAVRALAA   50 (333)
T ss_dssp             GGGSCSCHHHHHHHHHHHHCGG------GCCEEEECCGGGCTTHHHHHHHH
T ss_pred             hhhccCcHHHHHHHHHHHhccC------CCeEEEECCCCccHHHHHHHHHH
Confidence            3578999877665554443222      23477999999999999998853

>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=95.44  E-value=0.0091  Score=50.38  Aligned_cols=26  Identities=27%  Similarity=0.367  Sum_probs=21.4

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..+++|.+.|-||+||||+|..+...
T Consensus         6 ~~p~~i~~sGKGGVGKTTvaa~lA~~   31 (296)
T d1ihua1           6 NIPPYLFFTGKGGVGKTSISCATAIR   31 (296)
T ss_dssp             SCCSEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCcChHHHHHHHHHHH
Confidence            34788899999999999988776653

>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=95.43  E-value=0.0038  Score=49.32  Aligned_cols=21  Identities=33%  Similarity=0.572  Sum_probs=19.0

Q ss_pred             EEEEecCCCcHHHHHHHHHhh
Q 036619          214 ISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       214 i~I~G~~GiGKTtLa~~v~~~  234 (352)
                      |.|+|+.|+|||||++.+.+.
T Consensus         4 Ivl~GpsG~GK~tl~~~L~~~   24 (186)
T d1gkya_           4 IVISGPSGTGKSTLLKKLFAE   24 (186)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHh
Confidence            679999999999999998764

>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=95.35  E-value=0.0043  Score=50.78  Aligned_cols=22  Identities=36%  Similarity=0.446  Sum_probs=19.8

Q ss_pred             EEEEEecCCCcHHHHHHHHHhh
Q 036619          213 VISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ||.|+|+.|+|||||...+.++
T Consensus         2 vi~v~G~~GsGKTTLl~~ll~~   23 (244)
T d1yrba1           2 IVVFVGTAGSGKTTLTGEFGRY   23 (244)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEEcCCCCcHHHHHHHHHHH
Confidence            7899999999999999888754

>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=95.21  E-value=0.005  Score=48.26  Aligned_cols=23  Identities=17%  Similarity=0.476  Sum_probs=20.2

Q ss_pred             EEEEEEecCCCcHHHHHHHHHhh
Q 036619          212 QVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      +.|.|+|+.|+|||||++.+...
T Consensus         4 k~ivl~Gpsg~GK~tl~~~L~~~   26 (178)
T d1kgda_           4 KTLVLLGAHGVGRRHIKNTLITK   26 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CcEEEECCCCCCHHHHHHHHHHh
Confidence            56889999999999999988853

>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=95.19  E-value=0.0041  Score=52.54  Aligned_cols=24  Identities=25%  Similarity=0.365  Sum_probs=18.4

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHh
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYN  233 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~  233 (352)
                      +..||+|.|..|+||||+++.+.+
T Consensus         3 k~pIIgIaG~SGSGKTTva~~l~~   26 (288)
T d1a7ja_           3 KHPIISVTGSSGAGTSTVKHTFDQ   26 (288)
T ss_dssp             TSCEEEEESCC---CCTHHHHHHH
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHH
Confidence            456999999999999999988776

>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=95.19  E-value=0.081  Score=43.84  Aligned_cols=49  Identities=20%  Similarity=0.138  Sum_probs=30.1

Q ss_pred             EEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHH
Q 036619          212 QVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAII  263 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~  263 (352)
                      .++.|.|.+|+|||+++..+..+......+ .+++++..  .+...+...++
T Consensus        36 ~l~vi~G~~G~GKT~~~~~la~~~a~~~g~-~v~~~s~E--~~~~~~~~r~~   84 (277)
T d1cr2a_          36 EVIMVTSGSGMGKSTFVRQQALQWGTAMGK-KVGLAMLE--ESVEETAEDLI   84 (277)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHHHHTSCC-CEEEEESS--SCHHHHHHHHH
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHhhhhhccc-ceeEeeec--cchhhHHhHHH
Confidence            567799999999999997776543233333 35555443  34444444433

>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=95.18  E-value=0.015  Score=50.76  Aligned_cols=52  Identities=15%  Similarity=0.121  Sum_probs=32.2

Q ss_pred             EEEEEEecCCCcHHHHHHHHHhhh-hhhccCCeEEEEEeCCCCCHHHHHHHHH
Q 036619          212 QVISLVGLGGIGKTTLAQLAYNND-EVKRNFEKVIWVCVSDTFDQIRIAKAII  263 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~-~~~~~F~~~~wv~vs~~~~~~~~~~~i~  263 (352)
                      ++..|.|++|.||||++..+...- +....-...+.++....-....+...+.
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            577889999999999986654321 1111223467777766555555544443

>d1ihua2 c.37.1.10 (A:308-586) Arsenite-translocating ATPase ArsA {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Arsenite-translocating ATPase ArsA
species: Escherichia coli [TaxId: 562]

Probab=95.17  E-value=0.019  Score=48.00  Aligned_cols=35  Identities=37%  Similarity=0.467  Sum_probs=26.1

Q ss_pred             HHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHh
Q 036619          193 KSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYN  233 (352)
Q Consensus       193 ~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~  233 (352)
                      +..+.+.+-.      ...+||.+.|-||+||||+|-.+..
T Consensus         8 ~~~~~~~~~~------~~~~iii~sGKGGVGKTT~a~nLA~   42 (279)
T d1ihua2           8 LSALVDDIAR------NEHGLIMLMGKGGVGKTTMAAAIAV   42 (279)
T ss_dssp             HHHHHHHHHT------TSCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             HHHHHHHhhc------CCCEEEEEECCCCCCHHHHHHHHHH
Confidence            4445555543      4579999999999999999866655

>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=95.14  E-value=0.0055  Score=50.36  Aligned_cols=58  Identities=19%  Similarity=0.177  Sum_probs=35.2

Q ss_pred             HHHHHHhcCCceEEEEecCCCCC-CccChhHHHHhhccC--CCCcEEEEecCChHHHHHhC
Q 036619          280 MSRIQSSIKGKKNFLVLDDVWDG-DYNKWQPFFRCLKNG--LHGSKILVTTRNESVARMMG  337 (352)
Q Consensus       280 ~~~l~~~l~~kr~LlVlDdvw~~-~~~~~~~l~~~l~~~--~~gs~IivTTR~~~va~~~~  337 (352)
                      .-.|...|..++-+|++|.--.. |...-..+...+..-  ..|..||++|.+-+.+..++
T Consensus       147 Rv~IAraL~~~P~iLllDEPt~~LD~~~~~~i~~~l~~l~~~~g~tvi~vTHd~~~~~~~~  207 (240)
T d1g2912         147 RVALGRAIVRKPQVFLMDEPLSNLDAKLRVRMRAELKKLQRQLGVTTIYVTHDQVEAMTMG  207 (240)
T ss_dssp             HHHHHHHHHTCCSEEEEECTTTTSCHHHHHHHHHHHHHHHHHHTCEEEEEESCHHHHHHHC
T ss_pred             HHHHHHHHhcCCCEEEecCCCcccCHHHHHHHHHHHHHHHhccCCEEEEEcCCHHHHHHhC
Confidence            34456667778889999986432 222223344444321  23777999999987776544

>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=95.11  E-value=0.0043  Score=49.69  Aligned_cols=24  Identities=38%  Similarity=0.462  Sum_probs=21.3

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      -.+++|+|+.|+|||||.+.++.-
T Consensus        27 Gei~~l~G~NGsGKSTLl~~i~gl   50 (200)
T d1sgwa_          27 GNVVNFHGPNGIGKTTLLKTISTY   50 (200)
T ss_dssp             TCCEEEECCTTSSHHHHHHHHTTS
T ss_pred             CCEEEEECCCCChHHHHHHHHhcc
Confidence            358999999999999999999863

>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=95.08  E-value=0.007  Score=47.85  Aligned_cols=26  Identities=31%  Similarity=0.529  Sum_probs=22.4

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..++.|+|+|.+|+|||||...+.+.
T Consensus        21 ~~~~~I~lvG~~n~GKSTLin~L~g~   46 (195)
T d1svia_          21 GGLPEIALAGRSNVGKSSFINSLINR   46 (195)
T ss_dssp             SCCCEEEEEEBTTSSHHHHHHHHHTC
T ss_pred             CCCCEEEEECCCCCCHHHHHHHhcCC
Confidence            44667999999999999999999853

>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=95.07  E-value=0.054  Score=39.68  Aligned_cols=53  Identities=21%  Similarity=0.210  Sum_probs=33.7

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhC
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLG  267 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~  267 (352)
                      +..++..|+++.|.|||+++-.++..      ...++.+.+....-..+..+.+.+.+.
T Consensus         6 ~~~~~~ll~apTGsGKT~~~~~~~~~------~~~~vli~~P~~~l~~q~~~~~~~~~~   58 (136)
T d1a1va1           6 QSFQVAHLHAPTGSGKSTKVPAAYAA------QGYKVLVLNPSVAATLGFGAYMSKAHG   58 (136)
T ss_dssp             SSCEEEEEECCTTSCTTTHHHHHHHT------TTCCEEEEESCHHHHHHHHHHHHHHHS
T ss_pred             cCCCEEEEEeCCCCCHHHHHHHHHHH------cCCcEEEEcChHHHHHHHHHHHHHHhh
Confidence            34678889999999999998655532      234566666654444444444554443

>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=95.07  E-value=0.01  Score=45.91  Aligned_cols=23  Identities=30%  Similarity=0.521  Sum_probs=19.2

Q ss_pred             EEEEEEecCCCcHHHHHHHHHhh
Q 036619          212 QVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .-|.|+|.+|+|||||...+...
T Consensus        14 ~kI~lvG~~~vGKTsLl~~l~~~   36 (186)
T d1f6ba_          14 GKLVFLGLDNAGKTTLLHMLKDD   36 (186)
T ss_dssp             EEEEEEEETTSSHHHHHHHHSCC
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            44669999999999999887654

>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=95.07  E-value=0.0064  Score=51.48  Aligned_cols=39  Identities=28%  Similarity=0.345  Sum_probs=26.6

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCC
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSD  251 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~  251 (352)
                      .+.|+|.|-||+||||+|..+...  ....-..++-|....
T Consensus         2 Mr~IaisgKGGVGKTT~a~NLA~~--LA~~G~rVLlID~Dp   40 (289)
T d2afhe1           2 MRQCAIYGKGGIGKSTTTQNLVAA--LAEMGKKVMIVGCDP   40 (289)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHH--HHHTTCCEEEEEECS
T ss_pred             ccEEEEECCCCCCHHHHHHHHHHH--HHHCCCCEEEEecCC
Confidence            467889999999999999777653  222222455566544

>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=95.04  E-value=0.026  Score=46.10  Aligned_cols=50  Identities=28%  Similarity=0.318  Sum_probs=35.4

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHhhhhh----hccCCeEEEEEeCCCCCHHHH
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYNNDEV----KRNFEKVIWVCVSDTFDQIRI  258 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~----~~~F~~~~wv~vs~~~~~~~~  258 (352)
                      +.-+++.|.|.+|+|||||+.++..+...    .......+|+......+...+
T Consensus        34 p~G~~~li~G~pGsGKT~~~lq~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   87 (254)
T d1pzna2          34 ETQAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTENTFRPERI   87 (254)
T ss_dssp             ESSEEEEEEESTTSSHHHHHHHHHHHTTSCGGGTSCSCEEEEEESSSCCCHHHH
T ss_pred             cCCEEEEEEcCCCCCHHHHHHHHHHHhhchHHhcCCCceEEEEeccchhHHHHH
Confidence            44689999999999999999777653211    122457888888777765444

>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=95.03  E-value=0.006  Score=46.14  Aligned_cols=21  Identities=38%  Similarity=0.401  Sum_probs=18.4

Q ss_pred             EEEEecCCCcHHHHHHHHHhh
Q 036619          214 ISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       214 i~I~G~~GiGKTtLa~~v~~~  234 (352)
                      |.|+|.+|+|||||...+..+
T Consensus         3 ivlvG~~~vGKSsLi~~l~~~   23 (160)
T d1r8sa_           3 ILMVGLDAAGKTTILYKLKLG   23 (160)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhcC
Confidence            569999999999999888765

>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=95.02  E-value=0.006  Score=50.11  Aligned_cols=57  Identities=19%  Similarity=0.257  Sum_probs=35.0

Q ss_pred             HHHHHhcCCceEEEEecCCCCC-CccChhHHHHhhcc--CCCCcEEEEecCChHHHHHhC
Q 036619          281 SRIQSSIKGKKNFLVLDDVWDG-DYNKWQPFFRCLKN--GLHGSKILVTTRNESVARMMG  337 (352)
Q Consensus       281 ~~l~~~l~~kr~LlVlDdvw~~-~~~~~~~l~~~l~~--~~~gs~IivTTR~~~va~~~~  337 (352)
                      -.|...|..++-+|++|.--.. |...-..+...+..  ...|..||++|.+-..+..++
T Consensus       149 vaiAraL~~~P~lLllDEPt~~LD~~~~~~i~~~l~~l~~~~g~tvi~vTHdl~~~~~~~  208 (240)
T d3dhwc1         149 VAIARALASNPKVLLCDEATSALDPATTRSILELLKDINRRLGLTILLITHEMDVVKRIC  208 (240)
T ss_dssp             HHHHHHHHTCCSEEEEESGGGSSCHHHHHHHHHHHHHHHHHHCCEEEEEBSCHHHHHHHC
T ss_pred             HHHhhhhccCCCeEEeccccccCCHHHhhHHHHHHHHHHhccCCEEEEEcCCHHHHHHhC
Confidence            3455666778889999985332 22222334444432  123778999999988877654

>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=94.96  E-value=0.0086  Score=52.47  Aligned_cols=26  Identities=27%  Similarity=0.096  Sum_probs=22.9

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      +..+.+.++|++|+|||++|..+.+.
T Consensus       152 ~~~~~~~~~g~~~~gk~~~~~~~~~~  177 (362)
T d1svma_         152 PKKRYWLFKGPIDSGKTTLAAALLEL  177 (362)
T ss_dssp             TTCCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCcCeEEEECCCCCCHHHHHHHHHHH
Confidence            45678899999999999999999984

>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=94.94  E-value=0.0064  Score=50.49  Aligned_cols=23  Identities=39%  Similarity=0.567  Sum_probs=20.7

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYN  233 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~  233 (352)
                      -.+++|+|+.|+|||||++.+..
T Consensus        41 Ge~iaivG~sGsGKSTLl~ll~g   63 (253)
T d3b60a1          41 GKTVALVGRSGSGKSTIASLITR   63 (253)
T ss_dssp             TCEEEEEECTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCChHHHHHHHHhc
Confidence            45899999999999999999865

>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=94.93  E-value=0.066  Score=42.49  Aligned_cols=23  Identities=35%  Similarity=0.520  Sum_probs=20.3

Q ss_pred             EEEEEEecCCCcHHHHHHHHHhh
Q 036619          212 QVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      +.|+|-|+.|+||||+++.+.+.
T Consensus         3 kfIviEG~dGsGKsT~~~~L~~~   25 (210)
T d4tmka_           3 KYIVIEGLEGAGKTTARNVVVET   25 (210)
T ss_dssp             CEEEEEECTTSCHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHH
Confidence            46889999999999999999874

>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=94.92  E-value=0.02  Score=45.93  Aligned_cols=23  Identities=26%  Similarity=0.355  Sum_probs=20.7

Q ss_pred             EEEEEEecCCCcHHHHHHHHHhh
Q 036619          212 QVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..|+|-|+.|+||||+++.+.+.
T Consensus         4 ~lI~ieG~dGsGKsT~~~~L~~~   26 (209)
T d1nn5a_           4 ALIVLEGVDRAGKSTQSRKLVEA   26 (209)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            57889999999999999999874

>d1upta_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARL1 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL1 [TaxId: 9606]

Probab=94.89  E-value=0.0067  Score=46.22  Aligned_cols=24  Identities=33%  Similarity=0.477  Sum_probs=20.1

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .++ |.|+|.+|+|||||.+.+.++
T Consensus         5 e~k-I~ivG~~~vGKSSLi~~~~~~   28 (169)
T d1upta_           5 EMR-ILILGLDGAGKTTILYRLQVG   28 (169)
T ss_dssp             CEE-EEEECSTTSSHHHHHHHHHHS
T ss_pred             ceE-EEEECCCCCCHHHHHHHHhCC
Confidence            344 669999999999999888765

>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=94.83  E-value=0.0068  Score=50.45  Aligned_cols=23  Identities=35%  Similarity=0.450  Sum_probs=20.9

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYN  233 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~  233 (352)
                      -.+++|+|+.|.|||||++.+..
T Consensus        28 GEi~~iiG~sGsGKSTLl~~i~G   50 (258)
T d1b0ua_          28 GDVISIIGSSGSGKSTFLRCINF   50 (258)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCcHHHHHHHHHc
Confidence            46899999999999999999975

>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=94.78  E-value=0.008  Score=50.71  Aligned_cols=24  Identities=29%  Similarity=0.472  Sum_probs=21.4

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      -.+++|+|+.|+|||||++.+..-
T Consensus        62 Ge~vaivG~nGsGKSTLl~~i~Gl   85 (281)
T d1r0wa_          62 GEMLAITGSTGSGKTSLLMLILGE   85 (281)
T ss_dssp             TCEEEEEESTTSSHHHHHHHHHTS
T ss_pred             CCEEEEECCCCChHHHHHHHHhCC
Confidence            468999999999999999999764

>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=94.76  E-value=0.029  Score=46.85  Aligned_cols=85  Identities=13%  Similarity=0.135  Sum_probs=47.4

Q ss_pred             EEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCC-HHHHHHHHHHHhCCC---------CCCc-cc--HHHH
Q 036619          213 VISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFD-QIRIAKAIIEGLGKS---------ASGL-NE--FQSL  279 (352)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~-~~~~~~~i~~~l~~~---------~~~~-~~--~~~~  279 (352)
                      -++|+|..|+|||+|+......  ...+-..++++-+..... +..+..++.+.-...         .... ..  .-..
T Consensus        69 r~~Ifg~~g~GKt~l~~~~~~~--~~~~~~v~V~~~iGer~~Ev~e~~~~~~~~~~~~~tvvv~~tsd~p~~~r~~a~~~  146 (276)
T d1fx0a3          69 RELIIGDRQTGKTAVATDTILN--QQGQNVICVYVAIGQKASSVAQVVTNFQERGAMEYTIVVAETADSPATLQYLAPYT  146 (276)
T ss_dssp             BCBEEESSSSSHHHHHHHHHHT--CCTTTCEEEEEEESCCHHHHHHHHHHTGGGTGGGSEEEEEECTTSCGGGTTHHHHH
T ss_pred             eEeeccCCCCChHHHHHHHHhh--hcccCceeeeeeecchhHHHHHHHHhhccCCcceeeeecccccCccHHHHHHHHHH
Confidence            4778999999999999765443  123345677777766543 223333333210000         0000 00  1122


Q ss_pred             HHHHHHhc--CCceEEEEecCC
Q 036619          280 MSRIQSSI--KGKKNFLVLDDV  299 (352)
Q Consensus       280 ~~~l~~~l--~~kr~LlVlDdv  299 (352)
                      .-.+.+++  ++++.|+++||+
T Consensus       147 a~tiAEyfrd~G~~Vlll~Dsl  168 (276)
T d1fx0a3         147 GAALAEYFMYRERHTLIIYDDL  168 (276)
T ss_dssp             HHHHHHHHHHTTCEEEEEEECH
T ss_pred             HHHHHHHHHHcCCceeEEeecc
Confidence            33344444  589999999998

>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=94.73  E-value=0.0099  Score=48.62  Aligned_cols=24  Identities=25%  Similarity=0.354  Sum_probs=22.0

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ++.|+|=|+-|+||||+++.+.+.
T Consensus         2 pk~IviEG~~GsGKST~~~~L~~~   25 (241)
T d2ocpa1           2 PRRLSIEGNIAVGKSTFVKLLTKT   25 (241)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCcHHHHHHHHHHH
Confidence            689999999999999999999864

>d1s96a_ c.37.1.1 (A:) Guanylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Escherichia coli [TaxId: 562]

Probab=94.71  E-value=0.0081  Score=48.18  Aligned_cols=23  Identities=22%  Similarity=0.322  Sum_probs=20.4

Q ss_pred             EEEEEEecCCCcHHHHHHHHHhh
Q 036619          212 QVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .++.|+|+.|+|||||.+.+...
T Consensus         3 ~livi~GPSG~GK~tl~~~L~~~   25 (205)
T d1s96a_           3 TLYIVSAPSGAGKSSLIQALLKT   25 (205)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHhh
Confidence            57889999999999999988864

>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=94.59  E-value=0.014  Score=45.12  Aligned_cols=25  Identities=36%  Similarity=0.496  Sum_probs=20.3

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..++ |.++|.+|+|||||...+...
T Consensus        15 ~~~k-I~vvG~~~vGKSsLi~~l~~~   39 (176)
T d1fzqa_          15 QEVR-ILLLGLDNAGKTTLLKQLASE   39 (176)
T ss_dssp             SCEE-EEEEESTTSSHHHHHHHHCCS
T ss_pred             CEEE-EEEECCCCCCHHHHHHHHhcC
Confidence            3344 669999999999999988764

>d1z06a1 c.37.1.8 (A:32-196) Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-33b
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=94.54  E-value=0.0093  Score=45.61  Aligned_cols=21  Identities=29%  Similarity=0.373  Sum_probs=18.6

Q ss_pred             EEEEecCCCcHHHHHHHHHhh
Q 036619          214 ISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       214 i~I~G~~GiGKTtLa~~v~~~  234 (352)
                      |.++|.+|+|||||+..+.++
T Consensus         5 v~liG~~~vGKTsLl~~~~~~   25 (165)
T d1z06a1           5 IIVIGDSNVGKTCLTYRFCAG   25 (165)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            679999999999999888764

>d3d31a2 c.37.1.12 (A:1-229) Sulfate/molybdate ABC transporter, ATP-binding protein {Methanosarcina acetivorans [TaxId: 2214]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Sulfate/molybdate ABC transporter, ATP-binding protein
species: Methanosarcina acetivorans [TaxId: 2214]

Probab=94.51  E-value=0.0074  Score=49.14  Aligned_cols=58  Identities=17%  Similarity=0.199  Sum_probs=34.3

Q ss_pred             HHHHHHhcCCceEEEEecCCCCC-CccChhHHHHhhcc--CCCCcEEEEecCChHHHHHhC
Q 036619          280 MSRIQSSIKGKKNFLVLDDVWDG-DYNKWQPFFRCLKN--GLHGSKILVTTRNESVARMMG  337 (352)
Q Consensus       280 ~~~l~~~l~~kr~LlVlDdvw~~-~~~~~~~l~~~l~~--~~~gs~IivTTR~~~va~~~~  337 (352)
                      .-.|...|-.++=+|+||.--.. |...-..+...+..  ...|..||++|.+...+..++
T Consensus       135 RvaiAraL~~~P~iLllDEPts~LD~~~~~~i~~~l~~l~~~~g~tii~vtHd~~~~~~~~  195 (229)
T d3d31a2         135 RVALARALVTNPKILLLDEPLSALDPRTQENAREMLSVLHKKNKLTVLHITHDQTEARIMA  195 (229)
T ss_dssp             HHHHHHHTTSCCSEEEEESSSTTSCHHHHHHHHHHHHHHHHHTTCEEEEEESCHHHHHHHC
T ss_pred             chhhhhhhhccCCceeecCCCcCCCHHHHHHHHHHHHHHHhcCCcEEEEEcCCHHHHHHhC
Confidence            34456667778888899986432 22222333333332  123777999998887666543

>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=94.48  E-value=0.028  Score=45.29  Aligned_cols=38  Identities=26%  Similarity=0.238  Sum_probs=28.4

Q ss_pred             EEEEEE-ecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCC
Q 036619          212 QVISLV-GLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSD  251 (352)
Q Consensus       212 ~vi~I~-G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~  251 (352)
                      +||+|+ |-||+||||+|..+...  ..+.-..++.|....
T Consensus         2 kvIav~s~KGGvGKTtia~nlA~~--la~~g~~VlliD~D~   40 (232)
T d1hyqa_           2 RTITVASGKGGTGKTTITANLGVA--LAQLGHDVTIVDADI   40 (232)
T ss_dssp             EEEEEEESSSCSCHHHHHHHHHHH--HHHTTCCEEEEECCC
T ss_pred             EEEEEECCCCCChHHHHHHHHHHH--HHhCCCCEEEEeCCC
Confidence            788888 77999999999888764  333334677887643

>d2a5ja1 c.37.1.8 (A:9-181) Rab2b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab2b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.43  E-value=0.0099  Score=45.98  Aligned_cols=21  Identities=24%  Similarity=0.379  Sum_probs=18.4

Q ss_pred             EEEEecCCCcHHHHHHHHHhh
Q 036619          214 ISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       214 i~I~G~~GiGKTtLa~~v~~~  234 (352)
                      |.|+|.+|+|||+|+..+.++
T Consensus         6 ivvvG~~~vGKTsli~r~~~~   26 (173)
T d2a5ja1           6 YIIIGDTGVGKSCLLLQFTDK   26 (173)
T ss_dssp             EEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHhcC
Confidence            668999999999999887765

>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=94.39  E-value=0.01  Score=48.84  Aligned_cols=24  Identities=33%  Similarity=0.423  Sum_probs=21.3

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      -.+++|+|+.|.|||||.+.+..-
T Consensus        32 Gei~~liGpnGaGKSTl~~~i~Gl   55 (240)
T d1ji0a_          32 GQIVTLIGANGAGKTTTLSAIAGL   55 (240)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CCEEEEECCCCCcHHHHHHHHhCC
Confidence            368999999999999999999763

>d1z2aa1 c.37.1.8 (A:8-171) Rab23 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab23
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=94.39  E-value=0.01  Score=45.36  Aligned_cols=21  Identities=29%  Similarity=0.545  Sum_probs=18.0

Q ss_pred             EEEEecCCCcHHHHHHHHHhh
Q 036619          214 ISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       214 i~I~G~~GiGKTtLa~~v~~~  234 (352)
                      |.++|.+|+|||||+..+.+.
T Consensus         5 v~liG~~~vGKSsLi~rl~~~   25 (164)
T d1z2aa1           5 MVVVGNGAVGKSSMIQRYCKG   25 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            569999999999999877754

>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=94.36  E-value=0.0077  Score=49.17  Aligned_cols=24  Identities=25%  Similarity=0.311  Sum_probs=21.6

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .+.|+|-|+-|+||||+++.+.+.
T Consensus         2 ~k~I~ieG~dGsGKST~~~~L~~~   25 (241)
T d1p5zb_           2 IKKISIEGNIAAGKSTFVNILKQL   25 (241)
T ss_dssp             CEEEEEECSTTSSHHHHHTTTGGG
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHH
Confidence            478999999999999999988864

>d1z0fa1 c.37.1.8 (A:8-173) Rab14 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab14
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.35  E-value=0.011  Score=45.36  Aligned_cols=22  Identities=23%  Similarity=0.323  Sum_probs=18.6

Q ss_pred             EEEEEecCCCcHHHHHHHHHhh
Q 036619          213 VISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      -|.|+|.+|+|||+|+..+.++
T Consensus         6 KivlvG~~~vGKTsli~~~~~~   27 (166)
T d1z0fa1           6 KYIIIGDMGVGKSCLLHQFTEK   27 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3679999999999999887654

>d1ksha_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL2 [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL2 [TaxId: 10090]

Probab=94.34  E-value=0.01  Score=45.40  Aligned_cols=21  Identities=29%  Similarity=0.461  Sum_probs=18.5

Q ss_pred             EEEEecCCCcHHHHHHHHHhh
Q 036619          214 ISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       214 i~I~G~~GiGKTtLa~~v~~~  234 (352)
                      |.|+|.+|+|||||...+.+.
T Consensus         5 i~ivG~~~~GKTsLi~~l~~~   25 (165)
T d1ksha_           5 LLMLGLDNAGKTTILKKFNGE   25 (165)
T ss_dssp             EEEECSTTSSHHHHHHHHTTC
T ss_pred             EEEECCCCCCHHHHHHHHcCC
Confidence            569999999999999988764

>d1moza_ c.37.1.8 (A:) ADP-ribosylation factor {Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]

Probab=94.33  E-value=0.014  Score=45.39  Aligned_cols=25  Identities=32%  Similarity=0.530  Sum_probs=20.1

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ...+++ ++|.+|+|||||...+...
T Consensus        16 k~~KI~-lvG~~~vGKTsLi~~l~~~   40 (182)
T d1moza_          16 KELRIL-ILGLDGAGKTTILYRLQIG   40 (182)
T ss_dssp             SCEEEE-EEEETTSSHHHHHHHTCCS
T ss_pred             ceEEEE-EECCCCCCHHHHHHHHhcC
Confidence            445554 9999999999999887654

>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=94.29  E-value=0.011  Score=47.30  Aligned_cols=21  Identities=33%  Similarity=0.400  Sum_probs=18.6

Q ss_pred             EEEEEEecCCCcHHHHHHHHH
Q 036619          212 QVISLVGLGGIGKTTLAQLAY  232 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~  232 (352)
                      -+|+|+|+.|+||||.|+.+-
T Consensus         4 ~iIgitG~igSGKStv~~~l~   24 (208)
T d1vhta_           4 YIVALTGGIGSGKSTVANAFA   24 (208)
T ss_dssp             EEEEEECCTTSCHHHHHHHHH
T ss_pred             EEEEEECCCcCCHHHHHHHHH
Confidence            389999999999999998664

>d1yzqa1 c.37.1.8 (A:14-177) Rab6 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab6
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.24  E-value=0.012  Score=44.83  Aligned_cols=21  Identities=24%  Similarity=0.398  Sum_probs=18.4

Q ss_pred             EEEEecCCCcHHHHHHHHHhh
Q 036619          214 ISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       214 i~I~G~~GiGKTtLa~~v~~~  234 (352)
                      |.|+|.+|+|||+|++.+.++
T Consensus         3 v~vvG~~~vGKTsLi~r~~~~   23 (164)
T d1yzqa1           3 LVFLGEQSVGKTSLITRFMYD   23 (164)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678999999999999887754

>d2erxa1 c.37.1.8 (A:6-176) di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: di-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.24  E-value=0.012  Score=45.33  Aligned_cols=21  Identities=29%  Similarity=0.615  Sum_probs=18.2

Q ss_pred             EEEEecCCCcHHHHHHHHHhh
Q 036619          214 ISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       214 i~I~G~~GiGKTtLa~~v~~~  234 (352)
                      |.++|.+|+|||||...+.++
T Consensus         5 i~viG~~~vGKTsLi~r~~~~   25 (171)
T d2erxa1           5 VAVFGAGGVGKSSLVLRFVKG   25 (171)
T ss_dssp             EEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            568999999999999887764

>d2ew1a1 c.37.1.8 (A:4-174) Rab30 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab30
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.22  E-value=0.013  Score=45.24  Aligned_cols=22  Identities=36%  Similarity=0.520  Sum_probs=19.0

Q ss_pred             EEEEEecCCCcHHHHHHHHHhh
Q 036619          213 VISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      -|.|+|.+|+|||||.+.+.++
T Consensus         7 Ki~lvG~~~vGKTsLi~~l~~~   28 (171)
T d2ew1a1           7 KIVLIGNAGVGKTCLVRRFTQG   28 (171)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4679999999999999888764

>d1g6ha_ c.37.1.12 (A:) MJ1267 {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: MJ1267
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=94.19  E-value=0.012  Score=48.90  Aligned_cols=24  Identities=29%  Similarity=0.372  Sum_probs=21.4

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      -.+++|+|+.|.|||||++.+..-
T Consensus        30 Gei~~liG~nGaGKSTLl~~i~Gl   53 (254)
T d1g6ha_          30 GDVTLIIGPNGSGKSTLINVITGF   53 (254)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CCEEEEECCCCCcHHHHHHHHHCC
Confidence            358999999999999999999864

>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=94.19  E-value=0.023  Score=43.24  Aligned_cols=27  Identities=30%  Similarity=0.208  Sum_probs=23.2

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhhhh
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNNDE  236 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~~~  236 (352)
                      ...+|.+.|.=|+||||+++.+.+.-.
T Consensus        32 ~g~ii~L~G~LGaGKTtfvr~~~~~lg   58 (158)
T d1htwa_          32 KAIMVYLNGDLGAGKTTLTRGMLQGIG   58 (158)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHHHTT
T ss_pred             CCeEEEEecCCCccHHHHHHHHHhhcc
Confidence            356899999999999999999997643

>d3raba_ c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab3a
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=94.14  E-value=0.013  Score=45.14  Aligned_cols=22  Identities=23%  Similarity=0.356  Sum_probs=18.8

Q ss_pred             EEEEEecCCCcHHHHHHHHHhh
Q 036619          213 VISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      -|.++|.+|+|||||...+.++
T Consensus         7 Ki~vvG~~~vGKTsLi~~l~~~   28 (169)
T d3raba_           7 KILIIGNSSVGKTSFLFRYADD   28 (169)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHcC
Confidence            3679999999999999877654

>d1egaa1 c.37.1.8 (A:4-182) GTPase Era, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Era, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=94.13  E-value=0.016  Score=44.71  Aligned_cols=25  Identities=28%  Similarity=0.352  Sum_probs=22.1

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      -+..|+|+|.+|+|||||...+.+.
T Consensus         4 ~~~~I~iiG~~nvGKSSLin~L~~~   28 (179)
T d1egaa1           4 YCGFIAIVGRPNVGKSTLLNKLLGQ   28 (179)
T ss_dssp             EEEEEEEECSSSSSHHHHHHHHHTC
T ss_pred             cccEEEEECCCCCCHHHHHHHHhCC
Confidence            3678999999999999999999864

>d1z0ja1 c.37.1.8 (A:2-168) Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-22a
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=94.12  E-value=0.013  Score=44.96  Aligned_cols=21  Identities=24%  Similarity=0.475  Sum_probs=18.3

Q ss_pred             EEEEecCCCcHHHHHHHHHhh
Q 036619          214 ISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       214 i~I~G~~GiGKTtLa~~v~~~  234 (352)
                      |.|+|.+|+|||||.+.+.++
T Consensus         7 i~lvG~~~vGKTsli~rl~~~   27 (167)
T d1z0ja1           7 VCLLGDTGVGKSSIMWRFVED   27 (167)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            568999999999999888764

>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=94.09  E-value=0.013  Score=44.88  Aligned_cols=21  Identities=29%  Similarity=0.594  Sum_probs=18.3

Q ss_pred             EEEEecCCCcHHHHHHHHHhh
Q 036619          214 ISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       214 i~I~G~~GiGKTtLa~~v~~~  234 (352)
                      |.++|.+|+|||+|...+.++
T Consensus         6 i~lvG~~~vGKTsLi~r~~~~   26 (167)
T d1kaoa_           6 VVVLGSGGVGKSALTVQFVTG   26 (167)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            568999999999999887764

>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=94.08  E-value=0.013  Score=44.89  Aligned_cols=21  Identities=38%  Similarity=0.564  Sum_probs=18.3

Q ss_pred             EEEEecCCCcHHHHHHHHHhh
Q 036619          214 ISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       214 i~I~G~~GiGKTtLa~~v~~~  234 (352)
                      |.|+|.+|+|||+|...+.++
T Consensus         6 ivlvG~~~vGKTsLi~r~~~~   26 (167)
T d1z08a1           6 VVLLGEGCVGKTSLVLRYCEN   26 (167)
T ss_dssp             EEEECCTTSCHHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            579999999999999887654

>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=94.08  E-value=0.02  Score=51.42  Aligned_cols=50  Identities=26%  Similarity=0.361  Sum_probs=32.2

Q ss_pred             CccccccchHHHHHHHH--------cCccccCCCCeEEEEEEecCCCcHHHHHHHHHh
Q 036619          184 GEVCGRVDEKSELFSKL--------LCESSEQQNGLQVISLVGLGGIGKTTLAQLAYN  233 (352)
Q Consensus       184 ~~~~gr~~~~~~l~~~L--------~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~  233 (352)
                      ..++|.++.+..|--.+        ........-..+-|.++|+.|+|||.||+.+..
T Consensus        14 ~yVvGQ~~AKk~lsvav~nhyrR~~~~~~~~~ei~ksNILliGPTGvGKTlLAr~LAk   71 (443)
T d1g41a_          14 QHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAK   71 (443)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHHHHSCTTTTTTCCCCCEEEECCTTSSHHHHHHHHHH
T ss_pred             CcccCcHHHHHHHHHHHHHHHHHhhcccccccccccccEEEECCCCCCHHHHHHHHHH
Confidence            35677766666553333        111111112355688999999999999999986

>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=94.07  E-value=0.018  Score=44.64  Aligned_cols=25  Identities=24%  Similarity=0.283  Sum_probs=21.9

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..+.|+|+|.+|+|||||.+.+...
T Consensus         4 ~~~~I~lvG~~~~GKSSLin~l~~~   28 (178)
T d1wf3a1           4 YSGFVAIVGKPNVGKSTLLNNLLGV   28 (178)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHTS
T ss_pred             cCcEEEEECCCCCCHHHHHHHHhCC
Confidence            3568999999999999999998864

>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=94.06  E-value=0.014  Score=44.65  Aligned_cols=22  Identities=32%  Similarity=0.450  Sum_probs=18.9

Q ss_pred             EEEEEecCCCcHHHHHHHHHhh
Q 036619          213 VISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      -|.++|.+|+|||||...+.+.
T Consensus         4 Ki~vvG~~~vGKTSli~~l~~~   25 (166)
T d1g16a_           4 KILLIGDSGVGKSCLLVRFVED   25 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3679999999999999887764

>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=94.03  E-value=0.014  Score=46.65  Aligned_cols=21  Identities=43%  Similarity=0.507  Sum_probs=18.8

Q ss_pred             EEEEEEecCCCcHHHHHHHHH
Q 036619          212 QVISLVGLGGIGKTTLAQLAY  232 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~  232 (352)
                      -+|+|.|..|+||||+|+.+-
T Consensus         3 ~iIgITG~igSGKStv~~~l~   23 (205)
T d1jjva_           3 YIVGLTGGIGSGKTTIANLFT   23 (205)
T ss_dssp             EEEEEECSTTSCHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHH
Confidence            589999999999999998764

>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=93.98  E-value=0.015  Score=44.76  Aligned_cols=21  Identities=33%  Similarity=0.553  Sum_probs=18.4

Q ss_pred             EEEEecCCCcHHHHHHHHHhh
Q 036619          214 ISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       214 i~I~G~~GiGKTtLa~~v~~~  234 (352)
                      |.++|.+|+|||+|++.+.+.
T Consensus         4 i~lvG~~~vGKTsLi~~~~~~   24 (168)
T d2gjsa1           4 VLLLGAPGVGKSALARIFGGV   24 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEECCCCcCHHHHHHHHhCC
Confidence            678999999999999887654

>d2f7sa1 c.37.1.8 (A:5-190) Rab27b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab27b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.97  E-value=0.013  Score=45.71  Aligned_cols=22  Identities=32%  Similarity=0.394  Sum_probs=18.9

Q ss_pred             EEEEEecCCCcHHHHHHHHHhh
Q 036619          213 VISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      -|.|+|.+|+|||||+..+.+.
T Consensus         7 Ki~ivG~~~vGKTsLi~~l~~~   28 (186)
T d2f7sa1           7 KLLALGDSGVGKTTFLYRYTDN   28 (186)
T ss_dssp             EEEEESCTTSSHHHHHHHHHCS
T ss_pred             EEEEECCCCcCHHHHHHHHhcC
Confidence            3669999999999999888764

>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=93.97  E-value=0.014  Score=44.98  Aligned_cols=22  Identities=32%  Similarity=0.542  Sum_probs=18.7

Q ss_pred             EEEEEecCCCcHHHHHHHHHhh
Q 036619          213 VISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      -|.|+|.+|+|||||...+.++
T Consensus         4 Ki~~vG~~~vGKSsLi~~~~~~   25 (175)
T d1ky3a_           4 KVIILGDSGVGKTSLMHRYVND   25 (175)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHcC
Confidence            3679999999999999887653

>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=93.97  E-value=0.015  Score=44.65  Aligned_cols=22  Identities=27%  Similarity=0.409  Sum_probs=19.0

Q ss_pred             EEEEEecCCCcHHHHHHHHHhh
Q 036619          213 VISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .|+|+|.+|+|||||.+.+...
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            5889999999999999988753

>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=93.96  E-value=0.015  Score=44.72  Aligned_cols=21  Identities=33%  Similarity=0.589  Sum_probs=18.2

Q ss_pred             EEEEecCCCcHHHHHHHHHhh
Q 036619          214 ISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       214 i~I~G~~GiGKTtLa~~v~~~  234 (352)
                      |.|+|.+|+|||+|...+.++
T Consensus         8 i~lvG~~~vGKTsLi~r~~~~   28 (171)
T d2erya1           8 LVVVGGGGVGKSALTIQFIQS   28 (171)
T ss_dssp             EEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            668999999999999877664

>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=93.96  E-value=0.14  Score=42.74  Aligned_cols=100  Identities=15%  Similarity=0.150  Sum_probs=52.7

Q ss_pred             HHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhc-cCC-----eEEEEEeCCCCC-HHHHHHHHHHHhC
Q 036619          195 ELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKR-NFE-----KVIWVCVSDTFD-QIRIAKAIIEGLG  267 (352)
Q Consensus       195 ~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~-~F~-----~~~wv~vs~~~~-~~~~~~~i~~~l~  267 (352)
                      +.++.|..-..     -.-++|+|.+|+|||+|+..+..+..... ..+     .++++-+..... +..+...+...-.
T Consensus        57 raID~l~pig~-----GQr~~If~~~g~GKt~ll~~~~~~~~~~~~~~~~~~~~~~v~~~IGer~~E~~e~~~~~~~~~~  131 (285)
T d2jdia3          57 KAVDSLVPIGR-----GQRELIIGDRQTGKTSIAIDTIINQKRFNDGTDEKKKLYCIYVAIGQKRSTVAQLVKRLTDADA  131 (285)
T ss_dssp             HHHHHHSCCBT-----TCBCEEEESTTSSHHHHHHHHHHHTHHHHTSSCTTTCCEEEEEEESCCHHHHHHHHHHHHHTTC
T ss_pred             eEEecccCccC-----CCEEEeecCCCCChHHHHHHHHHhHHhhccccccccceEEEEeeeCccHHHHHHHHHHhccccc
Confidence            56777765432     24578999999999999976665422111 111     345555655443 3344444433211


Q ss_pred             CC-------CCCcccH-----HHHHHHHHHhc--CCceEEEEecCC
Q 036619          268 KS-------ASGLNEF-----QSLMSRIQSSI--KGKKNFLVLDDV  299 (352)
Q Consensus       268 ~~-------~~~~~~~-----~~~~~~l~~~l--~~kr~LlVlDdv  299 (352)
                      ..       ..+....     -...-.+.+++  ++|..|+++||+
T Consensus       132 ~~~tvvv~~ts~~~~~~r~~~~~~a~tiAEyfrd~G~~VLll~Dsl  177 (285)
T d2jdia3         132 MKYTIVVSATASDAAPLQYLAPYSGCSMGEYFRDNGKHALIIYDDL  177 (285)
T ss_dssp             GGGEEEEEECTTSCHHHHHHHHHHHHHHHHHHHHTTCEEEEEEETH
T ss_pred             ccceEEEEECCCCCHHHHHHHHHHHHHHHHHHHHcCCcEEEEEcCh
Confidence            10       0011111     11112233333  689999999998

>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=93.95  E-value=0.016  Score=46.14  Aligned_cols=22  Identities=32%  Similarity=0.530  Sum_probs=19.7

Q ss_pred             EEEEEecCCCcHHHHHHHHHhh
Q 036619          213 VISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .|+|-|.-|+||||+++.+.+.
T Consensus         2 lI~ieG~dGsGKST~~~~L~~~   23 (208)
T d1gsia_           2 LIAIEGVDGAGKRTLVEKLSGA   23 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            5889999999999999998863

>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=93.94  E-value=0.015  Score=44.73  Aligned_cols=21  Identities=24%  Similarity=0.520  Sum_probs=18.2

Q ss_pred             EEEEecCCCcHHHHHHHHHhh
Q 036619          214 ISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       214 i~I~G~~GiGKTtLa~~v~~~  234 (352)
                      |.++|.+|+|||+|...+.++
T Consensus         5 i~lvG~~~vGKTsli~r~~~~   25 (168)
T d2atva1           5 LAIFGRAGVGKSALVVRFLTK   25 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            458999999999999888764

>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=93.91  E-value=0.015  Score=43.76  Aligned_cols=22  Identities=36%  Similarity=0.567  Sum_probs=18.9

Q ss_pred             EEEEEecCCCcHHHHHHHHHhh
Q 036619          213 VISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      -|.++|.+|+|||||...+.+.
T Consensus         2 KI~liG~~nvGKSSLln~l~~~   23 (166)
T d2qtvb1           2 KLLFLGLDNAGKTTLLHMLKND   23 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            3779999999999999887764

>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=93.89  E-value=0.016  Score=44.73  Aligned_cols=22  Identities=23%  Similarity=0.366  Sum_probs=18.5

Q ss_pred             EEEEEecCCCcHHHHHHHHHhh
Q 036619          213 VISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      -|.++|.+|+|||||+..+..+
T Consensus         7 KI~lvG~~~vGKTsll~~~~~~   28 (174)
T d2bmea1           7 KFLVIGNAGTGKSCLLHQFIEK   28 (174)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3779999999999999877653

>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=93.89  E-value=0.018  Score=46.73  Aligned_cols=25  Identities=40%  Similarity=0.492  Sum_probs=22.3

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .++|..|.|.-|.|||||.+.+...
T Consensus         2 ~iPv~iitGFLGaGKTTll~~lL~~   26 (222)
T d1nija1           2 PIAVTLLTGFLGAGKTTLLRHILNE   26 (222)
T ss_dssp             CEEEEEEEESSSSSCHHHHHHHHHS
T ss_pred             CCCEEEEeeCCCCCHHHHHHHHHhc
Confidence            4789999999999999999888764

>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=93.87  E-value=0.015  Score=44.65  Aligned_cols=22  Identities=23%  Similarity=0.374  Sum_probs=18.6

Q ss_pred             EEEEEecCCCcHHHHHHHHHhh
Q 036619          213 VISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      -|.++|.+|+|||+|+..+.++
T Consensus         8 Ki~vvG~~~vGKTsLi~~l~~~   29 (170)
T d1r2qa_           8 KLVLLGESAVGKSSLVLRFVKG   29 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3679999999999999877754

>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=93.87  E-value=0.012  Score=46.89  Aligned_cols=49  Identities=16%  Similarity=0.169  Sum_probs=31.7

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhhhhhhc----cCCeEEEEEeCCCCCHHHH
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNNDEVKR----NFEKVIWVCVSDTFDQIRI  258 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~----~F~~~~wv~vs~~~~~~~~  258 (352)
                      .-.++.|.|++|+|||+||.++..+.....    .+....++..........+
T Consensus        22 ~G~v~~i~G~~GsGKT~l~l~la~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   74 (242)
T d1n0wa_          22 TGSITEMFGEFRTGKTQICHTLAVTCQLPIDRGGGEGKAMYIDTEGTFRPERL   74 (242)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSSCCCHHHH
T ss_pred             CCEEEEEEeCCCCCHHHHHHHHHHHHHHhhccccccceehhhhhhhhhHHHHH
Confidence            346889999999999999977765432222    2234556665555554433

>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=93.83  E-value=0.017  Score=44.25  Aligned_cols=21  Identities=38%  Similarity=0.703  Sum_probs=18.5

Q ss_pred             EEEEecCCCcHHHHHHHHHhh
Q 036619          214 ISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       214 i~I~G~~GiGKTtLa~~v~~~  234 (352)
                      |.++|.+|+|||+|...+.++
T Consensus         6 i~viG~~~vGKTsli~~l~~~   26 (166)
T d1ctqa_           6 LVVVGAGGVGKSALTIQLIQN   26 (166)
T ss_dssp             EEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            678999999999999888764

>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=93.83  E-value=0.015  Score=44.90  Aligned_cols=22  Identities=32%  Similarity=0.496  Sum_probs=18.9

Q ss_pred             EEEEEecCCCcHHHHHHHHHhh
Q 036619          213 VISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      -|.|+|..|+|||||+..+.++
T Consensus         6 Ki~vvG~~~vGKTsLi~~~~~~   27 (175)
T d2f9la1           6 KVVLIGDSGVGKSNLLSRFTRN   27 (175)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4779999999999999877654

>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=93.82  E-value=0.021  Score=43.62  Aligned_cols=23  Identities=22%  Similarity=0.442  Sum_probs=19.2

Q ss_pred             EEEEEEecCCCcHHHHHHHHHhh
Q 036619          212 QVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .-|.|+|..|+|||||...+.++
T Consensus         5 ~Kv~liG~~~vGKTsLl~~~~~~   27 (167)
T d1xtqa1           5 RKIAILGYRSVGKSSLTIQFVEG   27 (167)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCcCHHHHHHHHHhC
Confidence            45678999999999999887654

>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=93.76  E-value=0.016  Score=45.95  Aligned_cols=22  Identities=32%  Similarity=0.398  Sum_probs=19.5

Q ss_pred             EEEEEecCCCcHHHHHHHHHhh
Q 036619          213 VISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .|+|+|.+|+|||||...+.+.
T Consensus         5 ~V~lvG~~n~GKTSLln~l~~~   26 (209)
T d1nrjb_           5 SIIIAGPQNSGKTSLLTLLTTD   26 (209)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            6789999999999999888754

>d1zj6a1 c.37.1.8 (A:2-178) ADP-ribosylation factor {Human (Homo sapiens), ARL5A [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL5A [TaxId: 9606]

Probab=93.67  E-value=0.019  Score=44.17  Aligned_cols=23  Identities=35%  Similarity=0.406  Sum_probs=19.1

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .+ |.|+|.+|+|||||...+..+
T Consensus        16 ~k-I~vvG~~~~GKSsLi~rl~~~   38 (177)
T d1zj6a1          16 HK-VIIVGLDNAGKTTILYQFSMN   38 (177)
T ss_dssp             EE-EEEEESTTSSHHHHHHHHHTT
T ss_pred             EE-EEEECCCCCCHHHHHHHHhcC
Confidence            44 569999999999999877654

>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=93.67  E-value=0.028  Score=43.29  Aligned_cols=23  Identities=30%  Similarity=0.531  Sum_probs=19.1

Q ss_pred             EEEEEEecCCCcHHHHHHHHHhh
Q 036619          212 QVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      --|.|+|.+|+|||+|...+.++
T Consensus         7 ~Kv~lvG~~~vGKTsLi~r~~~~   29 (173)
T d2fn4a1           7 HKLVVVGGGGVGKSALTIQFIQS   29 (173)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCcCHHHHHHHHHhC
Confidence            34569999999999999887764

>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=93.65  E-value=0.018  Score=44.13  Aligned_cols=21  Identities=29%  Similarity=0.593  Sum_probs=18.1

Q ss_pred             EEEEecCCCcHHHHHHHHHhh
Q 036619          214 ISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       214 i~I~G~~GiGKTtLa~~v~~~  234 (352)
                      |.++|.+|+|||+|...+..+
T Consensus         6 ivvvG~~~vGKTsli~r~~~~   26 (167)
T d1c1ya_           6 LVVLGSGGVGKSALTVQFVQG   26 (167)
T ss_dssp             EEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHcC
Confidence            568999999999999877654

>d1l7vc_ c.37.1.12 (C:) ABC transporter involved in vitamin B12 uptake, BtuD {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: ABC transporter involved in vitamin B12 uptake, BtuD
species: Escherichia coli [TaxId: 562]

Probab=93.60  E-value=0.014  Score=47.70  Aligned_cols=23  Identities=35%  Similarity=0.473  Sum_probs=20.5

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYN  233 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~  233 (352)
                      -.+++|+|+.|.|||||.+.+..
T Consensus        25 Gei~~iiG~nGaGKSTLl~~l~G   47 (231)
T d1l7vc_          25 GEILHLVGPNGAGKSTLLARMAG   47 (231)
T ss_dssp             TCEEECBCCTTSSHHHHHHHHHT
T ss_pred             CCEEEEECCCCCcHHHHHHHHhC
Confidence            36899999999999999998875

>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=93.58  E-value=0.019  Score=44.50  Aligned_cols=22  Identities=27%  Similarity=0.362  Sum_probs=19.5

Q ss_pred             EEEEEecCCCcHHHHHHHHHhh
Q 036619          213 VISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      -|+|+|.+|+|||||...+.+.
T Consensus         2 ~I~lvG~~nvGKSsLin~l~~~   23 (184)
T d2cxxa1           2 TIIFAGRSNVGKSTLIYRLTGK   23 (184)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4789999999999999998864

>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=93.58  E-value=0.019  Score=45.25  Aligned_cols=22  Identities=27%  Similarity=0.452  Sum_probs=19.0

Q ss_pred             EEEEEecCCCcHHHHHHHHHhh
Q 036619          213 VISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      -|.|+|.+|+|||||...+.++
T Consensus         8 KivvvG~~~vGKTsli~~l~~~   29 (194)
T d2bcgy1           8 KLLLIGNSGVGKSCLLLRFSDD   29 (194)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEEECCCCcCHHHHHHHHhhC
Confidence            3679999999999999887764

>d1kmqa_ c.37.1.8 (A:) RhoA {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoA
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.58  E-value=0.019  Score=44.36  Aligned_cols=22  Identities=32%  Similarity=0.459  Sum_probs=18.4

Q ss_pred             EEEEEecCCCcHHHHHHHHHhh
Q 036619          213 VISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      -|.|+|.+|+|||+|...+.++
T Consensus         4 KivvvG~~~vGKTsLi~~~~~~   25 (177)
T d1kmqa_           4 KLVIVGDGACGKTCLLIVNSKD   25 (177)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3568999999999999877764

>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=93.54  E-value=0.012  Score=45.69  Aligned_cols=20  Identities=30%  Similarity=0.458  Sum_probs=18.5

Q ss_pred             EEEEecCCCcHHHHHHHHHh
Q 036619          214 ISLVGLGGIGKTTLAQLAYN  233 (352)
Q Consensus       214 i~I~G~~GiGKTtLa~~v~~  233 (352)
                      |+|+|.+|+|||||...+.+
T Consensus         4 VaivG~~nvGKSTLin~L~~   23 (180)
T d1udxa2           4 VGLVGYPNAGKSSLLAAMTR   23 (180)
T ss_dssp             EEEECCGGGCHHHHHHHHCS
T ss_pred             EEEECCCCCCHHHHHHHHhC
Confidence            89999999999999999865

>d1ek0a_ c.37.1.8 (A:) Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ypt51
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=93.52  E-value=0.019  Score=44.02  Aligned_cols=21  Identities=24%  Similarity=0.457  Sum_probs=17.8

Q ss_pred             EEEEecCCCcHHHHHHHHHhh
Q 036619          214 ISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       214 i~I~G~~GiGKTtLa~~v~~~  234 (352)
                      |.++|..|+|||+|...+.+.
T Consensus         6 i~vvG~~~vGKTsLi~~~~~~   26 (170)
T d1ek0a_           6 LVLLGEAAVGKSSIVLRFVSN   26 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            558999999999999877654

>d2hyda1 c.37.1.12 (A:324-578) Putative multidrug export ATP-binding/permease protein SAV1866 {Staphylococcus aureus [TaxId: 1280]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative multidrug export ATP-binding/permease protein SAV1866
species: Staphylococcus aureus [TaxId: 1280]

Probab=93.43  E-value=0.011  Score=49.01  Aligned_cols=23  Identities=35%  Similarity=0.535  Sum_probs=20.3

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYN  233 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~  233 (352)
                      -..++|+|..|+|||||++.+..
T Consensus        44 Ge~vaivG~sGsGKSTLl~ll~g   66 (255)
T d2hyda1          44 GETVAFVGMSGGGKSTLINLIPR   66 (255)
T ss_dssp             TCEEEEECSTTSSHHHHHTTTTT
T ss_pred             CCEEEEECCCCCcHHHHHHHHHh
Confidence            46889999999999999998764

>d2atxa1 c.37.1.8 (A:9-193) RhoQ {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoQ
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.42  E-value=0.021  Score=44.57  Aligned_cols=22  Identities=36%  Similarity=0.415  Sum_probs=18.9

Q ss_pred             EEEEEecCCCcHHHHHHHHHhh
Q 036619          213 VISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      -|.|+|.+|+|||+|...+.++
T Consensus        11 Ki~lvG~~~vGKTsLi~r~~~~   32 (185)
T d2atxa1          11 KCVVVGDGAVGKTCLLMSYAND   32 (185)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhhC
Confidence            4779999999999999887764

>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=93.42  E-value=0.021  Score=49.98  Aligned_cols=24  Identities=38%  Similarity=0.394  Sum_probs=20.9

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHh
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYN  233 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~  233 (352)
                      .+..+..+|+.|+|||.||+.+..
T Consensus        67 p~~niLfiGPTGvGKTElAk~LA~   90 (364)
T d1um8a_          67 SKSNILLIGPTGSGKTLMAQTLAK   90 (364)
T ss_dssp             CCCCEEEECCTTSSHHHHHHHHHH
T ss_pred             CCcceeeeCCCCccHHHHHHHHHh
Confidence            466788999999999999998875

>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=93.41  E-value=0.02  Score=45.49  Aligned_cols=22  Identities=32%  Similarity=0.336  Sum_probs=19.4

Q ss_pred             EEEEEecCCCcHHHHHHHHHhh
Q 036619          213 VISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      -|.|+|.+|+|||||...+...
T Consensus         2 ~V~ivG~~~~GKTsLl~~l~~~   23 (207)
T d2fh5b1           2 AVLFVGLCDSGKTLLFVRLLTG   23 (207)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            5889999999999999888764

>d1svsa1 c.37.1.8 (A:32-60,A:182-347) Transducin (alpha subunit) {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=93.39  E-value=0.022  Score=44.48  Aligned_cols=21  Identities=29%  Similarity=0.384  Sum_probs=17.8

Q ss_pred             EEEEecCCCcHHHHHHHHHhh
Q 036619          214 ISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       214 i~I~G~~GiGKTtLa~~v~~~  234 (352)
                      |.++|.+|+|||+|.+.+..+
T Consensus         5 ivllG~~~vGKTsl~~r~~~~   25 (195)
T d1svsa1           5 LLLLGAGESGKSTIVKQMKII   25 (195)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhhC
Confidence            568999999999999877654

>d2g6ba1 c.37.1.8 (A:58-227) Rab26 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab26
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.32  E-value=0.022  Score=43.74  Aligned_cols=22  Identities=36%  Similarity=0.444  Sum_probs=18.8

Q ss_pred             EEEEEecCCCcHHHHHHHHHhh
Q 036619          213 VISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      -|.|+|.+|+|||+|+..+.+.
T Consensus         8 Ki~vvG~~~vGKTsli~~~~~~   29 (170)
T d2g6ba1           8 KVMLVGDSGVGKTCLLVRFKDG   29 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4789999999999999877654

>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=93.30  E-value=0.063  Score=43.18  Aligned_cols=37  Identities=35%  Similarity=0.376  Sum_probs=26.7

Q ss_pred             EEEEEE-ecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeC
Q 036619          212 QVISLV-GLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVS  250 (352)
Q Consensus       212 ~vi~I~-G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs  250 (352)
                      +||+|+ +-||+||||+|..+...  ....-..++-|...
T Consensus         3 ~vIav~~~kGGvGKTtia~nLA~~--la~~g~~VlliD~D   40 (237)
T d1g3qa_           3 RIISIVSGKGGTGKTTVTANLSVA--LGDRGRKVLAVDGD   40 (237)
T ss_dssp             EEEEEECSSTTSSHHHHHHHHHHH--HHHTTCCEEEEECC
T ss_pred             eEEEEECCCCCCcHHHHHHHHHHH--HHhCCCCEEEEeCC
Confidence            689999 66999999999888764  22333456666654

>d1g6oa_ c.37.1.11 (A:) Hexameric traffic ATPase, HP0525 {Helicobacter pylori [TaxId: 210]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hexameric traffic ATPase, HP0525
species: Helicobacter pylori [TaxId: 210]

Probab=93.26  E-value=0.22  Score=42.38  Aligned_cols=104  Identities=18%  Similarity=0.228  Sum_probs=54.6

Q ss_pred             EEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCcccHHHHHHHHHHhcCCceE
Q 036619          213 VISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSASGLNEFQSLMSRIQSSIKGKKN  292 (352)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~kr~  292 (352)
                      -|.|.|..|+|||||.+.+...  +.. -..++-+.-........- ..+ .++  .....-   ...+.++..|+...=
T Consensus       168 nili~G~tgSGKTT~l~al~~~--i~~-~~rivtiEd~~El~l~~~-~~~-~~~--~~~~~~---~~~~ll~~~lR~~pd  237 (323)
T d1g6oa_         168 NVIVCGGTGSGKTTYIKSIMEF--IPK-EERIISIEDTEEIVFKHH-KNY-TQL--FFGGNI---TSADCLKSCLRMRPD  237 (323)
T ss_dssp             CEEEEESTTSSHHHHHHHHGGG--SCT-TCCEEEEESSCCCCCSSC-SSE-EEE--ECBTTB---CHHHHHHHHTTSCCS
T ss_pred             CEEEEeeccccchHHHHHHhhh--ccc-ccceeeccchhhhhcccc-ccc-cee--ccccch---hHHHHHHHHhccCCC
Confidence            3779999999999999998863  211 112222211111110000 000 000  000111   234556677777777


Q ss_pred             EEEecCCCCCCccChhHHHHhhccCCCCcEEEEecCChH
Q 036619          293 FLVLDDVWDGDYNKWQPFFRCLKNGLHGSKILVTTRNES  331 (352)
Q Consensus       293 LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTTR~~~  331 (352)
                      .||+..+...  +.|.. ..++..+..|  ++.|..-.+
T Consensus       238 ~iivgEiR~~--ea~~~-l~a~~tGh~g--~~tT~Ha~s  271 (323)
T d1g6oa_         238 RIILGELRSS--EAYDF-YNVLCSGHKG--TLTTLHAGS  271 (323)
T ss_dssp             EEEESCCCST--HHHHH-HHHHHTTCSC--EEEEECCSS
T ss_pred             cccCCccCch--hHHHH-HHHHHhcCCc--EEEEECCCC
Confidence            8999999764  66764 4556565555  455555443

>d1mh1a_ c.37.1.8 (A:) Rac {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rac
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.26  E-value=0.029  Score=43.57  Aligned_cols=22  Identities=36%  Similarity=0.380  Sum_probs=18.8

Q ss_pred             EEEEEecCCCcHHHHHHHHHhh
Q 036619          213 VISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      -|.|+|.+|+|||+|...+.++
T Consensus         7 KivviG~~~vGKTsli~~~~~~   28 (183)
T d1mh1a_           7 KCVVVGDGAVGKTCLLISYTTN   28 (183)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4679999999999999877764

>d1tf7a1 c.37.1.11 (A:14-255) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Circadian clock protein KaiC
species: Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]

Probab=93.25  E-value=0.039  Score=44.33  Aligned_cols=41  Identities=20%  Similarity=0.151  Sum_probs=27.1

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCC
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSD  251 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~  251 (352)
                      .-.++.|.|.+|+|||+||.++..+. ....-..++|++...
T Consensus        25 ~G~~~~I~G~~G~GKT~la~~~~~~~-~~~~~~~~~~~s~e~   65 (242)
T d1tf7a1          25 IGRSTLVSGTSGTGKTLFSIQFLYNG-IIEFDEPGVFVTFEE   65 (242)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHH-HHHHCCCEEEEESSS
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHHH-HHhcCCCcccccccC
Confidence            45788899999999999996654322 222223466666544

>d1wb9a2 c.37.1.12 (A:567-800) DNA repair protein MutS, the C-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: DNA repair protein MutS, the C-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=93.23  E-value=0.23  Score=40.15  Aligned_cols=111  Identities=12%  Similarity=0.114  Sum_probs=56.0

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhhhhhh-------------ccCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCcccHH
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNNDEVK-------------RNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSASGLNEFQ  277 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~-------------~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~  277 (352)
                      -+++.|.|+...||||+.+.+.-..-..             ..|+. ++..+...-++..-....          ..++.
T Consensus        41 ~~~~iiTGpN~~GKSt~lk~i~l~~~laq~G~~VpA~~a~~~~~d~-I~~~~~~~d~~~~~~S~F----------~~E~~  109 (234)
T d1wb9a2          41 RRMLIITGPNMGGKSTYMRQTALIALMAYIGSYVPAQKVEIGPIDR-IFTRVGAADDLASGRSTF----------MVEMT  109 (234)
T ss_dssp             SCEEEEECCTTSSHHHHHHHHHHHHHHHTTTCCBSSSEEEECCCCE-EEEEEC-----------C----------HHHHH
T ss_pred             ceEEEEeccCchhhHHHHHHHHHHHHHHHcCCeEecCceecccchh-heeEEccCcccccchhHH----------HHHHH
Confidence            4678899999999999999887542111             11222 222222222111100000          01222


Q ss_pred             HHHHHHHHhcCCceEEEEecCCCCCC-ccChhHH----HHhhccCCCCcEEEEecCChHHHHH
Q 036619          278 SLMSRIQSSIKGKKNFLVLDDVWDGD-YNKWQPF----FRCLKNGLHGSKILVTTRNESVARM  335 (352)
Q Consensus       278 ~~~~~l~~~l~~kr~LlVlDdvw~~~-~~~~~~l----~~~l~~~~~gs~IivTTR~~~va~~  335 (352)
                      ++...+..  .+++.|+++|.+.... ..+=..+    ...+. ...++.+|+||....++..
T Consensus       110 ~~~~il~~--~~~~sLvliDE~~~gT~~~eg~~l~~a~l~~l~-~~~~~~~i~tTH~~~l~~~  169 (234)
T d1wb9a2         110 ETANILHN--ATEYSLVLMDEIGRGTSTYDGLSLAWACAENLA-NKIKALTLFATHYFELTQL  169 (234)
T ss_dssp             HHHHHHHH--CCTTEEEEEESCCCCSSSSHHHHHHHHHHHHHH-HTTCCEEEEECSCGGGGGH
T ss_pred             HHHHHHHh--cccccEEeecccccCCChhhhhHHHHHhhhhhh-ccccceEEEecchHHHhhh
Confidence            33332222  4678899999997632 2221122    22222 2346789999998876643

>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=93.20  E-value=0.026  Score=45.97  Aligned_cols=22  Identities=32%  Similarity=0.428  Sum_probs=20.3

Q ss_pred             EEEEEEecCCCcHHHHHHHHHh
Q 036619          212 QVISLVGLGGIGKTTLAQLAYN  233 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~  233 (352)
                      .+|+|.|..|+||||+|+.+.+
T Consensus         2 ~iIgiTG~igSGKsTva~~l~e   23 (241)
T d1deka_           2 KLIFLSGVKRSGKDTTADFIMS   23 (241)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            6899999999999999999875

>d1zd9a1 c.37.1.8 (A:18-181) ADP-ribosylation factor {Human (Homo sapiens), ARL8A [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL8A [TaxId: 9606]

Probab=93.18  E-value=0.024  Score=43.23  Aligned_cols=21  Identities=38%  Similarity=0.528  Sum_probs=17.8

Q ss_pred             EEEEecCCCcHHHHHHHHHhh
Q 036619          214 ISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       214 i~I~G~~GiGKTtLa~~v~~~  234 (352)
                      |.++|.+|+|||||...+...
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            458899999999999877654

>d1u8za_ c.37.1.8 (A:) Ras-related protein RalA {Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein RalA
species: Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]

Probab=93.08  E-value=0.025  Score=43.38  Aligned_cols=24  Identities=33%  Similarity=0.603  Sum_probs=19.8

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      +--|.|+|.+|+|||||.+.+.++
T Consensus         4 ~~KivlvG~~~vGKTsli~~~~~~   27 (168)
T d1u8za_           4 LHKVIMVGSGGVGKSALTLQFMYD   27 (168)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eeEEEEECCCCcCHHHHHHHHHhC
Confidence            445779999999999999887654

>d2g3ya1 c.37.1.8 (A:73-244) GTP-binding protein GEM {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein GEM
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.07  E-value=0.024  Score=43.61  Aligned_cols=21  Identities=38%  Similarity=0.624  Sum_probs=18.0

Q ss_pred             EEEEEecCCCcHHHHHHHHHh
Q 036619          213 VISLVGLGGIGKTTLAQLAYN  233 (352)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~  233 (352)
                      -|.++|.+|+|||+|.+.+..
T Consensus         5 Kv~lvG~~~vGKTsLi~~~~~   25 (172)
T d2g3ya1           5 RVVLIGEQGVGKSTLANIFAG   25 (172)
T ss_dssp             EEEEECCTTSSHHHHHHHHHC
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            366999999999999987764

>d1vg8a_ c.37.1.8 (A:) Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab7
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=93.06  E-value=0.025  Score=44.00  Aligned_cols=21  Identities=33%  Similarity=0.574  Sum_probs=18.4

Q ss_pred             EEEEecCCCcHHHHHHHHHhh
Q 036619          214 ISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       214 i~I~G~~GiGKTtLa~~v~~~  234 (352)
                      |.++|.+|+|||||+..+.+.
T Consensus         5 v~vvG~~~vGKSSLi~~l~~~   25 (184)
T d1vg8a_           5 VIILGDSGVGKTSLMNQYVNK   25 (184)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            669999999999999887764

>d1x3sa1 c.37.1.8 (A:2-178) Rab18 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab18
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.06  E-value=0.025  Score=43.73  Aligned_cols=21  Identities=29%  Similarity=0.536  Sum_probs=18.3

Q ss_pred             EEEEecCCCcHHHHHHHHHhh
Q 036619          214 ISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       214 i~I~G~~GiGKTtLa~~v~~~  234 (352)
                      |.++|.+|+|||||.+.+.++
T Consensus        10 i~vvG~~~vGKTsli~~l~~~   30 (177)
T d1x3sa1          10 ILIIGESGVGKSSLLLRFTDD   30 (177)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            679999999999999877654

>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=92.99  E-value=0.026  Score=43.30  Aligned_cols=21  Identities=33%  Similarity=0.686  Sum_probs=18.2

Q ss_pred             EEEEecCCCcHHHHHHHHHhh
Q 036619          214 ISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       214 i~I~G~~GiGKTtLa~~v~~~  234 (352)
                      |.++|..|+|||+|...+.++
T Consensus         7 i~lvG~~~vGKTsll~~~~~~   27 (169)
T d1x1ra1           7 LVVVGDGGVGKSALTIQFFQK   27 (169)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            558899999999999888764

>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=92.96  E-value=0.026  Score=43.41  Aligned_cols=24  Identities=38%  Similarity=0.574  Sum_probs=19.2

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      +--|.++|.+|+|||||...+.++
T Consensus         6 ~~KI~vvG~~~vGKSSli~~~~~~   29 (174)
T d1wmsa_           6 LFKVILLGDGGVGKSSLMNRYVTN   29 (174)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECCCCCCHHHHHHHHHhC
Confidence            334779999999999999776653

>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=92.96  E-value=0.024  Score=44.48  Aligned_cols=18  Identities=39%  Similarity=0.573  Sum_probs=16.3

Q ss_pred             EEEEecCCCcHHHHHHHH
Q 036619          214 ISLVGLGGIGKTTLAQLA  231 (352)
Q Consensus       214 i~I~G~~GiGKTtLa~~v  231 (352)
                      |.|+|.+|+|||||...+
T Consensus         5 ivllG~~~vGKTsll~r~   22 (200)
T d1zcba2           5 ILLLGAGESGKSTFLKQM   22 (200)
T ss_dssp             EEEECSTTSSHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHH
Confidence            569999999999999777

>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=92.88  E-value=0.02  Score=44.65  Aligned_cols=21  Identities=33%  Similarity=0.575  Sum_probs=18.8

Q ss_pred             EEEEEecCCCcHHHHHHHHHh
Q 036619          213 VISLVGLGGIGKTTLAQLAYN  233 (352)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~  233 (352)
                      -|+|+|.+++|||||...+.+
T Consensus         3 ~VaiiG~~nvGKSSLin~L~~   23 (185)
T d1lnza2           3 DVGLVGFPSVGKSTLLSVVSS   23 (185)
T ss_dssp             CEEEESSTTSSHHHHHHHSEE
T ss_pred             eEEEECCCCCCHHHHHHHHhC
Confidence            389999999999999998865

>d1i2ma_ c.37.1.8 (A:) Ran {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ran
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.87  E-value=0.017  Score=44.49  Aligned_cols=21  Identities=43%  Similarity=0.646  Sum_probs=17.0

Q ss_pred             EEEEecCCCcHHHHHHHHHhh
Q 036619          214 ISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       214 i~I~G~~GiGKTtLa~~v~~~  234 (352)
                      |.++|.+|+|||+|...+.++
T Consensus         6 i~vvG~~~vGKTsli~~~~~~   26 (170)
T d1i2ma_           6 LVLVGDGGTGKTTFVKRHLTG   26 (170)
T ss_dssp             EEEEECTTSSHHHHHHTTC--
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            568899999999999877654

>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=92.86  E-value=0.053  Score=44.79  Aligned_cols=40  Identities=25%  Similarity=0.351  Sum_probs=28.6

Q ss_pred             chHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          191 DEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       191 ~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..+.++...+....    ...--|.|+|.+|+|||||...++..
T Consensus        16 ~~l~e~~~~l~~~~----~~~l~I~LvG~tg~GKSSliN~ilg~   55 (257)
T d1h65a_          16 TKLLELLGNLKQED----VNSLTILVMGKGGVGKSSTVNSIIGE   55 (257)
T ss_dssp             HHHHHHHHHHHHTT----CCEEEEEEEESTTSSHHHHHHHHHTS
T ss_pred             HHHHHHHHHHhhcC----CCCcEEEEECCCCCcHHHHHHHHhCC
Confidence            34455666665433    33455779999999999999999875

>d1m7ba_ c.37.1.8 (A:) RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoE (RND3)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=92.82  E-value=0.03  Score=43.46  Aligned_cols=21  Identities=33%  Similarity=0.419  Sum_probs=18.1

Q ss_pred             EEEEecCCCcHHHHHHHHHhh
Q 036619          214 ISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       214 i~I~G~~GiGKTtLa~~v~~~  234 (352)
                      |.++|..|+|||+|++.+.+.
T Consensus         5 ivliG~~~vGKTsli~r~~~~   25 (179)
T d1m7ba_           5 IVVVGDSQCGKTALLHVFAKD   25 (179)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            458999999999999877764

>d2bcjq2 c.37.1.8 (Q:38-66,Q:184-354) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=92.81  E-value=0.03  Score=43.79  Aligned_cols=21  Identities=29%  Similarity=0.360  Sum_probs=17.8

Q ss_pred             EEEEecCCCcHHHHHHHHHhh
Q 036619          214 ISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       214 i~I~G~~GiGKTtLa~~v~~~  234 (352)
                      |.++|.+|+|||+|...+..+
T Consensus         5 iv~lG~~~vGKTsll~r~~~~   25 (200)
T d2bcjq2           5 LLLLGTGESGKSTFIKQMRII   25 (200)
T ss_dssp             EEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            458999999999999887654

>d1yksa1 c.37.1.14 (A:185-324) YFV helicase domain {Yellow fever virus [TaxId: 11089]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RNA helicase
domain: YFV helicase domain
species: Yellow fever virus [TaxId: 11089]

Probab=92.80  E-value=0.16  Score=36.60  Aligned_cols=18  Identities=28%  Similarity=0.032  Sum_probs=14.4

Q ss_pred             EEEEEEecCCCcHHHHHH
Q 036619          212 QVISLVGLGGIGKTTLAQ  229 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~  229 (352)
                      ....|+++.|.|||..|-
T Consensus         8 ~~~il~~~tGsGKT~~~~   25 (140)
T d1yksa1           8 MTTVLDFHPGAGKTRRFL   25 (140)
T ss_dssp             CEEEECCCTTSSTTTTHH
T ss_pred             CcEEEEcCCCCChhHHHH
Confidence            455688999999997774

>d2gj8a1 c.37.1.8 (A:216-376) Probable tRNA modification GTPase TrmE (MnmE), G domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable tRNA modification GTPase TrmE (MnmE), G domain
species: Escherichia coli [TaxId: 562]

Probab=92.77  E-value=0.032  Score=42.15  Aligned_cols=21  Identities=19%  Similarity=0.316  Sum_probs=18.2

Q ss_pred             EEEEecCCCcHHHHHHHHHhh
Q 036619          214 ISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       214 i~I~G~~GiGKTtLa~~v~~~  234 (352)
                      |+++|.+|+|||||...+...
T Consensus         4 I~lvG~~nvGKSsLin~l~~~   24 (161)
T d2gj8a1           4 VVIAGRPNAGKSSLLNALAGR   24 (161)
T ss_dssp             EEEEESTTSSHHHHHHHHHTS
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            569999999999999888743

>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=92.75  E-value=0.022  Score=43.91  Aligned_cols=25  Identities=28%  Similarity=0.373  Sum_probs=20.4

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..++ |.++|.+|+|||||.+.+.+.
T Consensus        11 k~~k-IvlvG~~~vGKTSli~rl~~~   35 (173)
T d1e0sa_          11 KEMR-ILMLGLDAAGKTTILYKLKLG   35 (173)
T ss_dssp             CCEE-EEEEEETTSSHHHHHHHTTCC
T ss_pred             CeEE-EEEECCCCCCHHHHHHHHhcC
Confidence            3466 458999999999999988764

>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=92.66  E-value=0.036  Score=44.48  Aligned_cols=24  Identities=33%  Similarity=0.504  Sum_probs=21.2

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      -+.|+|-|+-|+||||+++.+.+.
T Consensus         3 Gk~I~iEG~DGsGKST~~~~L~~~   26 (214)
T d1tmka_           3 GKLILIEGLDRTGKTTQCNILYKK   26 (214)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHHHH
T ss_pred             eEEEEEECCCCCcHHHHHHHHHHH
Confidence            467899999999999999999863

>d2ngra_ c.37.1.8 (A:) CDC42 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: CDC42
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.64  E-value=0.032  Score=43.69  Aligned_cols=21  Identities=38%  Similarity=0.425  Sum_probs=17.7

Q ss_pred             EEEEecCCCcHHHHHHHHHhh
Q 036619          214 ISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       214 i~I~G~~GiGKTtLa~~v~~~  234 (352)
                      |.++|.+|+|||+|...+.++
T Consensus         6 vvllG~~~vGKTSli~r~~~~   26 (191)
T d2ngra_           6 CVVVGDGAVGKTCLLISYTTN   26 (191)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            558999999999999777654

>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=92.36  E-value=0.035  Score=42.93  Aligned_cols=22  Identities=18%  Similarity=0.285  Sum_probs=18.5

Q ss_pred             EEEEEecCCCcHHHHHHHHHhh
Q 036619          213 VISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      -|.++|.+|+|||||...+.+.
T Consensus         7 ki~vlG~~~vGKTsLi~~~~~~   28 (175)
T d2bmja1           7 RLGVLGDARSGKSSLIHRFLTG   28 (175)
T ss_dssp             EEEEECCTTTTHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4569999999999999877654

>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=92.35  E-value=0.036  Score=43.01  Aligned_cols=23  Identities=30%  Similarity=0.577  Sum_probs=19.7

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ++ |+|+|..|+|||||...+.+.
T Consensus         9 ~k-V~iiG~~~~GKSTLin~l~~~   31 (186)
T d1mkya2           9 IK-VAIVGRPNVGKSTLFNAILNK   31 (186)
T ss_dssp             EE-EEEECSTTSSHHHHHHHHHTS
T ss_pred             CE-EEEECCCCCCHHHHHHHHHCC
Confidence            44 689999999999999888764

>d1puia_ c.37.1.8 (A:) Probable GTPase EngB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngB
species: Escherichia coli [TaxId: 562]

Probab=92.18  E-value=0.03  Score=43.25  Aligned_cols=26  Identities=15%  Similarity=0.192  Sum_probs=21.3

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      +....|+|+|.+++|||||.+.+...
T Consensus        14 ~~~~~I~lvG~~NvGKSSL~n~L~~~   39 (188)
T d1puia_          14 DTGIEVAFAGRSNAGKSSALNTLTNQ   39 (188)
T ss_dssp             SCSEEEEEEECTTSSHHHHHTTTCCC
T ss_pred             ccCCEEEEECCCCCCHHHHHHHHhCC
Confidence            34567889999999999999887653

>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=91.67  E-value=0.026  Score=43.41  Aligned_cols=22  Identities=27%  Similarity=0.385  Sum_probs=8.6

Q ss_pred             EEEEEecCCCcHHHHHHHHHhh
Q 036619          213 VISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      -|.|+|.+|+|||||...+.++
T Consensus         8 Ki~vvG~~~vGKTsLi~~l~~~   29 (173)
T d2fu5c1           8 KLLLIGDSGVGKTCVLFRFSED   29 (173)
T ss_dssp             EEEEECCCCC------------
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3679999999999999766653

>d1azta2 c.37.1.8 (A:35-65,A:202-391) Transducin (alpha subunit) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=91.59  E-value=0.047  Score=43.92  Aligned_cols=22  Identities=27%  Similarity=0.401  Sum_probs=18.2

Q ss_pred             EEEEEEecCCCcHHHHHHHHHh
Q 036619          212 QVISLVGLGGIGKTTLAQLAYN  233 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~  233 (352)
                      .-|.++|.+|+|||||.+.+..
T Consensus         7 ~KilllG~~~vGKTsll~~~~~   28 (221)
T d1azta2           7 HRLLLLGAGESGKSTIVKQMRI   28 (221)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhc
Confidence            3457999999999999977654

>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=91.42  E-value=0.085  Score=42.42  Aligned_cols=35  Identities=26%  Similarity=0.353  Sum_probs=26.4

Q ss_pred             chHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          191 DEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       191 ~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..++.|.++|..         +...++|..|+|||||...+..+
T Consensus        84 ~g~~~L~~~l~~---------kt~~~~G~SGVGKSTLiN~L~~~  118 (225)
T d1u0la2          84 MGIEELKEYLKG---------KISTMAGLSGVGKSSLLNAINPG  118 (225)
T ss_dssp             TTHHHHHHHHSS---------SEEEEECSTTSSHHHHHHHHSTT
T ss_pred             hhHhhHHHHhcC---------CeEEEECCCCCCHHHHHHhhcch
Confidence            346677777731         35578999999999999998764

>d1byia_ c.37.1.10 (A:) Dethiobiotin synthetase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Dethiobiotin synthetase
species: Escherichia coli [TaxId: 562]

Probab=91.07  E-value=0.071  Score=42.23  Aligned_cols=23  Identities=17%  Similarity=0.195  Sum_probs=19.6

Q ss_pred             EEEEEEecC-CCcHHHHHHHHHhh
Q 036619          212 QVISLVGLG-GIGKTTLAQLAYNN  234 (352)
Q Consensus       212 ~vi~I~G~~-GiGKTtLa~~v~~~  234 (352)
                      +.+-|.|.| |+||||++-.+..-
T Consensus         2 ~~~~i~gt~~GVGKTtvs~~La~a   25 (224)
T d1byia_           2 KRYFVTGTDTEVGKTVASCALLQA   25 (224)
T ss_dssp             EEEEEEESSTTSCHHHHHHHHHHH
T ss_pred             ceEEEEECCCCccHHHHHHHHHHH
Confidence            467899998 99999999888763

>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=91.07  E-value=0.067  Score=44.57  Aligned_cols=25  Identities=24%  Similarity=0.205  Sum_probs=21.3

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHh
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYN  233 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~  233 (352)
                      .+++-|+|+|-.|.|||||+..+..
T Consensus         4 ~~iRni~i~gh~~~GKTtL~e~ll~   28 (276)
T d2bv3a2           4 KRLRNIGIAAHIDAGKTTTTERILY   28 (276)
T ss_dssp             GGEEEEEEEECTTSCHHHHHHHHHH
T ss_pred             hhceEEEEEeCCCCCHHHHHHHHHH
Confidence            4588999999999999999966643

>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=90.70  E-value=0.072  Score=41.14  Aligned_cols=22  Identities=23%  Similarity=0.273  Sum_probs=18.8

Q ss_pred             EEEEEEecCCCcHHHHHHHHHh
Q 036619          212 QVISLVGLGGIGKTTLAQLAYN  233 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~  233 (352)
                      .-+.|.|.+|+||||||-.+..
T Consensus        15 ~gvl~~G~sG~GKStlal~l~~   36 (176)
T d1kkma_          15 LGVLITGDSGVGKSETALELVQ   36 (176)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEEEeCCCCCHHHHHHHHHH
Confidence            4577999999999999987765

>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=90.66  E-value=0.022  Score=42.99  Aligned_cols=21  Identities=33%  Similarity=0.520  Sum_probs=18.9

Q ss_pred             EEEEecCCCcHHHHHHHHHhh
Q 036619          214 ISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       214 i~I~G~~GiGKTtLa~~v~~~  234 (352)
                      |+++|.+|+|||||...+...
T Consensus         3 I~liG~~n~GKSSLin~l~g~   23 (160)
T d1xzpa2           3 MVIVGKPNVGKSTLLNRLLNE   23 (160)
T ss_dssp             EEEECCHHHHTCHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            689999999999999988764

>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=90.65  E-value=0.14  Score=42.63  Aligned_cols=26  Identities=27%  Similarity=0.364  Sum_probs=23.7

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .++.||+|+|+-+.|||+|...++..
T Consensus        30 ~~v~vvsi~G~~~sGKS~llN~l~~~   55 (277)
T d1f5na2          30 QPMVVVAIVGLYRTGKSYLMNKLAGK   55 (277)
T ss_dssp             SBEEEEEEEEBTTSSHHHHHHHHTTC
T ss_pred             CCEEEEEEECCCCCCHHHHHHHHcCC
Confidence            46999999999999999999999864

>d1nlfa_ c.37.1.11 (A:) Hexameric replicative helicase repA {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hexameric replicative helicase repA
species: Escherichia coli [TaxId: 562]

Probab=90.61  E-value=0.074  Score=43.96  Aligned_cols=23  Identities=39%  Similarity=0.419  Sum_probs=18.9

Q ss_pred             EEEEEEecCCCcHHHHHHHHHhh
Q 036619          212 QVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      .+..|+|.+|+|||||+-.++-.
T Consensus        30 ~~~~i~G~~G~GKS~l~l~la~~   52 (274)
T d1nlfa_          30 TVGALVSPGGAGKSMLALQLAAQ   52 (274)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHH
T ss_pred             cEEEEEeCCCCCHHHHHHHHHHH
Confidence            46679999999999999776653

>d1ewqa2 c.37.1.12 (A:542-765) DNA repair protein MutS, the C-terminal domain {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: ABC transporter ATPase domain-like
domain: DNA repair protein MutS, the C-terminal domain
species: Thermus aquaticus [TaxId: 271]

Probab=90.56  E-value=1.1  Score=35.65  Aligned_cols=105  Identities=16%  Similarity=0.216  Sum_probs=56.0

Q ss_pred             EEEEEecCCCcHHHHHHHHHhhhhhh-------------ccCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCcccHHHH
Q 036619          213 VISLVGLGGIGKTTLAQLAYNNDEVK-------------RNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSASGLNEFQSL  279 (352)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~~~~~-------------~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~  279 (352)
                      ++.|.|+...||||+.+.+.-..-..             ..|+. ++..+...-++.              .+.+....=
T Consensus        37 ~~iiTGpN~~GKSt~lk~i~l~~ilAq~G~~vpA~~~~i~~~d~-I~~~~~~~d~~~--------------~~~StF~~e  101 (224)
T d1ewqa2          37 LVLITGPNMAGKSTFLRQTALIALLAQVGSFVPAEEAHLPLFDG-IYTRIGASDDLA--------------GGKSTFMVE  101 (224)
T ss_dssp             EEEEESCSSSSHHHHHHHHHHHHHHHTTTCCBSSSEEEECCCSE-EEEECCC--------------------CCSHHHHH
T ss_pred             EEEEECCCccccchhhhhhHHHHHHHhccceeecCceEEeecce-EEEEECCCcccc--------------CCccHHHHh
Confidence            67899999999999998876542111             12222 222222211111              111111111


Q ss_pred             HHHHHHhc--CCceEEEEecCCCCCCcc------ChhHHHHhhccCCCCcEEEEecCChHHHHH
Q 036619          280 MSRIQSSI--KGKKNFLVLDDVWDGDYN------KWQPFFRCLKNGLHGSKILVTTRNESVARM  335 (352)
Q Consensus       280 ~~~l~~~l--~~kr~LlVlDdvw~~~~~------~~~~l~~~l~~~~~gs~IivTTR~~~va~~  335 (352)
                      ...+...+  .+++.|+++|.+......      .|. +...|..  .++.+++||...++...
T Consensus       102 l~~~~~il~~~~~~sLvliDE~~~gT~~~eg~ala~a-ile~L~~--~~~~~i~tTH~~eL~~l  162 (224)
T d1ewqa2         102 MEEVALILKEATENSLVLLDEVGRGTSSLDGVAIATA-VAEALHE--RRAYTLFATHYFELTAL  162 (224)
T ss_dssp             HHHHHHHHHHCCTTEEEEEESTTTTSCHHHHHHHHHH-HHHHHHH--HTCEEEEECCCHHHHTC
T ss_pred             HHHHHHHhccCCCCcEEeecccccCcchhhhcchHHH-HHHHHhh--cCcceEEeeechhhhhh
Confidence            22333333  367899999999764211      122 2233332  37789999999888753

>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=90.44  E-value=0.082  Score=40.80  Aligned_cols=22  Identities=36%  Similarity=0.365  Sum_probs=18.7

Q ss_pred             EEEEEEecCCCcHHHHHHHHHh
Q 036619          212 QVISLVGLGGIGKTTLAQLAYN  233 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~  233 (352)
                      .-+.|.|..|+||||||-.+..
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            4567899999999999977765

>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=90.28  E-value=0.21  Score=43.86  Aligned_cols=122  Identities=13%  Similarity=0.207  Sum_probs=66.8

Q ss_pred             ccccchHHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCH--HHHHHHHHH
Q 036619          187 CGRVDEKSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQ--IRIAKAIIE  264 (352)
Q Consensus       187 ~gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~--~~~~~~i~~  264 (352)
                      .|.....-+.+..+...      .-++|.|.|+.|.||||+...+.+.  +...-..+  +++.++...  ..+     .
T Consensus       140 LG~~~~~~~~l~~l~~~------~~GliLvtGpTGSGKSTTl~~~l~~--~~~~~~~i--~tiEdPiE~~~~~~-----~  204 (401)
T d1p9ra_         140 LGMTAHNHDNFRRLIKR------PHGIILVTGPTGSGKSTTLYAGLQE--LNSSERNI--LTVEDPIEFDIDGI-----G  204 (401)
T ss_dssp             SCCCHHHHHHHHHHHTS------SSEEEEEECSTTSCHHHHHHHHHHH--HCCTTSCE--EEEESSCCSCCSSS-----E
T ss_pred             hcccHHHHHHHHHHHhh------hhceEEEEcCCCCCccHHHHHHhhh--hcCCCceE--EEeccCcccccCCC-----C
Confidence            45544444444444432      3589999999999999999888763  22221122  344443211  000     0


Q ss_pred             HhCCCCCCcccHHHHHHHHHHhcCCceEEEEecCCCCCCccChhHHHHhhccCCCCcEEEEecCChH
Q 036619          265 GLGKSASGLNEFQSLMSRIQSSIKGKKNFLVLDDVWDGDYNKWQPFFRCLKNGLHGSKILVTTRNES  331 (352)
Q Consensus       265 ~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTTR~~~  331 (352)
                      +...   ...........++..|+...=.|++.++.+.     +....++.....|.-|+-|-...+
T Consensus       205 q~~v---~~~~~~~~~~~l~~~lR~dPDvi~igEiRd~-----~ta~~a~~aa~tGhlV~tTlHa~~  263 (401)
T d1p9ra_         205 QTQV---NPRVDMTFARGLRAILRQDPDVVMVGEIRDL-----ETAQIAVQASLTGHLVMSTLHTNT  263 (401)
T ss_dssp             EEEC---BGGGTBCHHHHHHHHGGGCCSEEEESCCCSH-----HHHHHHHHHHHTTCEEEEEECCSS
T ss_pred             eeee---cCCcCCCHHHHHHHHHhhcCCEEEecCcCCh-----HHHHHHHHHHhcCCeEEEEeccCc
Confidence            0000   0111123456677888878888999999443     444445544445776666666544

>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=89.85  E-value=0.099  Score=40.05  Aligned_cols=22  Identities=27%  Similarity=0.296  Sum_probs=18.7

Q ss_pred             EEEEEEecCCCcHHHHHHHHHh
Q 036619          212 QVISLVGLGGIGKTTLAQLAYN  233 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~  233 (352)
                      .-+.|.|..|+||||||-.+..
T Consensus        16 ~gvli~G~sg~GKS~la~~l~~   37 (169)
T d1ko7a2          16 VGVLITGDSGIGKSETALELIK   37 (169)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEEEeCCCCCHHHHHHHHHH
Confidence            4567999999999999977765

>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=89.70  E-value=0.11  Score=43.06  Aligned_cols=22  Identities=41%  Similarity=0.676  Sum_probs=19.2

Q ss_pred             eEEEEEEecCCCcHHHHHHHHH
Q 036619          211 LQVISLVGLGGIGKTTLAQLAY  232 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~  232 (352)
                      ++.|+|+|-.|.|||||+..+.
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            5789999999999999997663

>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=88.90  E-value=0.23  Score=42.37  Aligned_cols=24  Identities=33%  Similarity=0.439  Sum_probs=21.3

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      +-.|.|=|.-|+||||+++.+.+.
T Consensus         6 ~~rI~iEG~iGsGKSTl~~~L~~~   29 (333)
T d1p6xa_           6 IVRIYLDGVYGIGKSTTGRVMASA   29 (333)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHSG
T ss_pred             eEEEEEECCccCCHHHHHHHHHHH
Confidence            567788899999999999999985

>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=88.73  E-value=0.13  Score=39.62  Aligned_cols=21  Identities=29%  Similarity=0.366  Sum_probs=19.0

Q ss_pred             EEEEEecCCCcHHHHHHHHHh
Q 036619          213 VISLVGLGGIGKTTLAQLAYN  233 (352)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~  233 (352)
                      -|+|+|.+.+|||||...+..
T Consensus         7 nIaiiG~~naGKSTL~n~L~~   27 (179)
T d1wb1a4           7 NLGIFGHIDHGKTTLSKVLTE   27 (179)
T ss_dssp             EEEEEECTTSSHHHHHHHHHT
T ss_pred             EEEEEeCCCCcHHHHHHHHHH
Confidence            589999999999999988864

>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=88.57  E-value=0.11  Score=41.71  Aligned_cols=22  Identities=32%  Similarity=0.388  Sum_probs=19.4

Q ss_pred             EEEEEEecCCCcHHHHHHHHHh
Q 036619          212 QVISLVGLGGIGKTTLAQLAYN  233 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~  233 (352)
                      ++|+|+|-.+.|||||+..+..
T Consensus         6 p~IaIiGh~d~GKSTL~~~L~~   27 (227)
T d1g7sa4           6 PIVSVLGHVDHGKTTLLDHIRG   27 (227)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEEeCCCccHHHHHHHHHh
Confidence            5699999999999999987754

>d2fz4a1 c.37.1.19 (A:24-229) DNA repair protein RAD25 {Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: DNA repair protein RAD25
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=88.51  E-value=2.2  Score=32.96  Aligned_cols=92  Identities=16%  Similarity=0.195  Sum_probs=45.3

Q ss_pred             EEEecCCCcHHHHHHHHHhhhhhhccCCeEEEEEeCCCCCHHHHHHHHHHHhCCCC--------CC-----cccHHHHHH
Q 036619          215 SLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFDQIRIAKAIIEGLGKSA--------SG-----LNEFQSLMS  281 (352)
Q Consensus       215 ~I~G~~GiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~--------~~-----~~~~~~~~~  281 (352)
                      .|+++.|.|||.+|-.+...      +...+.|-+.. ..+..-+.+-++.++...        ..     ....+.+..
T Consensus        89 ll~~~tG~GKT~~a~~~~~~------~~~~~Liv~p~-~~L~~q~~~~~~~~~~~~~~~~~~~~~~~~~i~i~t~~~~~~  161 (206)
T d2fz4a1          89 CIVLPTGSGKTHVAMAAINE------LSTPTLIVVPT-LALAEQWKERLGIFGEEYVGEFSGRIKELKPLTVSTYDSAYV  161 (206)
T ss_dssp             EEEESSSTTHHHHHHHHHHH------SCSCEEEEESS-HHHHHHHHHHHGGGCGGGEEEESSSCBCCCSEEEEEHHHHHH
T ss_pred             EEEeCCCCCceehHHhHHHH------hcCceeEEEcc-cchHHHHHHHHHhhcccchhhcccccccccccccceehhhhh
Confidence            36789999999988766642      22233333332 122222222233332210        00     112333333


Q ss_pred             HHHHhcCCceEEEEecCCCCCCccChhHHHHhh
Q 036619          282 RIQSSIKGKKNFLVLDDVWDGDYNKWQPFFRCL  314 (352)
Q Consensus       282 ~l~~~l~~kr~LlVlDdvw~~~~~~~~~l~~~l  314 (352)
                      .... +.++--+||+|.++....+.|..+...+
T Consensus       162 ~~~~-~~~~~~lvIiDEaH~~~a~~~~~i~~~~  193 (206)
T d2fz4a1         162 NAEK-LGNRFMLLIFDEVHHLPAESYVQIAQMS  193 (206)
T ss_dssp             THHH-HTTTCSEEEEECSSCCCTTTHHHHHHTC
T ss_pred             hhHh-hCCcCCEEEEECCeeCCcHHHHHHHhcc
Confidence            3322 2333339999999876445666665443

>d2p6ra3 c.37.1.19 (A:1-202) Hel308 helicase {Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Hel308 helicase
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=88.47  E-value=1.2  Score=34.44  Aligned_cols=17  Identities=35%  Similarity=0.384  Sum_probs=14.1

Q ss_pred             EEEEecCCCcHHHHHHH
Q 036619          214 ISLVGLGGIGKTTLAQL  230 (352)
Q Consensus       214 i~I~G~~GiGKTtLa~~  230 (352)
                      +.|.++.|.|||+.|..
T Consensus        43 ~il~apTGsGKT~~a~l   59 (202)
T d2p6ra3          43 LLLAMPTAAGKTLLAEM   59 (202)
T ss_dssp             EEEECSSHHHHHHHHHH
T ss_pred             EEEEcCCCCchhHHHHH
Confidence            45899999999998743

>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=87.70  E-value=0.13  Score=43.90  Aligned_cols=24  Identities=38%  Similarity=0.400  Sum_probs=20.5

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      +..|.|=|.-|+||||+++.+.+.
T Consensus         4 ~lrI~IEG~iGsGKTTl~~~La~~   27 (329)
T d1e2ka_           4 LLRVYIDGPHGMGKTTTTQLLVAL   27 (329)
T ss_dssp             EEEEEECSCTTSSHHHHHHHHTC-
T ss_pred             ceEEEEECCcCCCHHHHHHHHHHH
Confidence            566889999999999999999763

>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=85.86  E-value=0.42  Score=39.29  Aligned_cols=25  Identities=28%  Similarity=0.300  Sum_probs=21.4

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHHh
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAYN  233 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~  233 (352)
                      +.-..+.++|+|+.|||+++..+..
T Consensus       102 ~k~n~~~l~G~~~tGKS~f~~~i~~  126 (267)
T d1u0ja_         102 GKRNTIWLFGPATTGKTNIAEAIAH  126 (267)
T ss_dssp             TTCCEEEEECSTTSSHHHHHHHHHH
T ss_pred             CccEEEEEEcCCCCCHHHHHHHHHH
Confidence            4567788999999999999988876

>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=85.70  E-value=0.29  Score=38.33  Aligned_cols=36  Identities=17%  Similarity=0.107  Sum_probs=26.5

Q ss_pred             HHHHHHHHcCccccCCCCeEEEEEEecCCCcHHHHHHHHHh
Q 036619          193 KSELFSKLLCESSEQQNGLQVISLVGLGGIGKTTLAQLAYN  233 (352)
Q Consensus       193 ~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~  233 (352)
                      +..+..+|.. .    ++-..+.++|+++.|||++|..+.+
T Consensus        40 l~~l~~~l~~-~----PKkn~i~~~GP~~TGKS~f~~sl~~   75 (205)
T d1tuea_          40 LGALKSFLKG-T----PKKNCLVFCGPANTGKSYFGMSFIH   75 (205)
T ss_dssp             HHHHHHHHHT-C----TTCSEEEEESCGGGCHHHHHHHHHH
T ss_pred             HHHHHHHHcC-C----CCceEEEEECCCCccHHHHHHHHHH
Confidence            3445555532 2    4567888999999999999988776

>d1t9ha2 c.37.1.8 (A:68-298) Probable GTPase EngC (YjeQ), C-terminal domain {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngC (YjeQ), C-terminal domain
species: Bacillus subtilis [TaxId: 1423]

Probab=85.45  E-value=0.1  Score=42.16  Aligned_cols=21  Identities=24%  Similarity=0.445  Sum_probs=17.8

Q ss_pred             EEEEecCCCcHHHHHHHHHhh
Q 036619          214 ISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       214 i~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..++|..|+|||||...+..+
T Consensus       100 ~vl~G~SGVGKSSLiN~L~~~  120 (231)
T d1t9ha2         100 TVFAGQSGVGKSSLLNAISPE  120 (231)
T ss_dssp             EEEEESHHHHHHHHHHHHCC-
T ss_pred             EEEECCCCccHHHHHHhhccH
Confidence            348899999999999988864

>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=84.97  E-value=0.079  Score=41.11  Aligned_cols=21  Identities=33%  Similarity=0.370  Sum_probs=17.4

Q ss_pred             EEEEEecCCCcHHHHHHHHHh
Q 036619          213 VISLVGLGGIGKTTLAQLAYN  233 (352)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~  233 (352)
                      +..|+|+.|+||||+...++-
T Consensus        26 ~tvi~G~NGsGKStil~Ai~~   46 (222)
T d1qhla_          26 VTTLSGGNGAGKSTTMAAFVT   46 (222)
T ss_dssp             HHHHHSCCSHHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            445789999999999988763

>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=84.70  E-value=0.17  Score=42.23  Aligned_cols=15  Identities=27%  Similarity=0.333  Sum_probs=13.0

Q ss_pred             EEEEecCCCcHHHHH
Q 036619          214 ISLVGLGGIGKTTLA  228 (352)
Q Consensus       214 i~I~G~~GiGKTtLa  228 (352)
                      +.|.|.+|+||||.+
T Consensus        17 ~lI~g~aGTGKTt~l   31 (306)
T d1uaaa1          17 CLVLAGAGSGKTRVI   31 (306)
T ss_dssp             EEECCCTTSCHHHHH
T ss_pred             EEEEeeCCccHHHHH
Confidence            568899999999865

>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=84.60  E-value=0.37  Score=41.18  Aligned_cols=24  Identities=21%  Similarity=0.275  Sum_probs=21.2

Q ss_pred             CCeEEEEEEecCCCcHHHHHHHHH
Q 036619          209 NGLQVISLVGLGGIGKTTLAQLAY  232 (352)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~  232 (352)
                      +++|-|+|+|-.|.|||||+..+.
T Consensus        15 ~~IRNI~iiGhvd~GKTTL~d~Ll   38 (341)
T d1n0ua2          15 TNVRNMSVIAHVDHGKSTLTDSLV   38 (341)
T ss_dssp             GGEEEEEEECCGGGTHHHHHHHHH
T ss_pred             ccCcEEEEEeCCCCcHHHHHHHHH
Confidence            468999999999999999996664

>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=84.56  E-value=0.24  Score=42.22  Aligned_cols=24  Identities=42%  Similarity=0.396  Sum_probs=20.7

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHhh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      +-.|.|=|.-|+||||+++.+.+.
T Consensus         5 ~lrI~IEG~iGsGKSTl~~~L~~~   28 (331)
T d1osna_           5 VLRIYLDGAYGIGKTTAAEEFLHH   28 (331)
T ss_dssp             EEEEEEEESSSSCTTHHHHHHHHT
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHH
Confidence            445788899999999999999874

>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=83.88  E-value=0.3  Score=42.82  Aligned_cols=23  Identities=17%  Similarity=0.325  Sum_probs=19.9

Q ss_pred             eEEEEEEecCCCcHHHHHHHHHh
Q 036619          211 LQVISLVGLGGIGKTTLAQLAYN  233 (352)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~  233 (352)
                      +--|+|+|.+|+|||||...+..
T Consensus        56 ~l~Iai~G~~n~GKSSLiNaL~G   78 (400)
T d1tq4a_          56 VLNVAVTGETGSGKSSFINTLRG   78 (400)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHT
T ss_pred             CcEEEEECCCCCCHHHHHHHHhC
Confidence            34579999999999999998874

>d1pjra1 c.37.1.19 (A:1-318) DEXX box DNA helicase {Bacillus stearothermophilus, PcrA [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: DEXX box DNA helicase
species: Bacillus stearothermophilus, PcrA [TaxId: 1422]

Probab=83.30  E-value=0.28  Score=41.11  Aligned_cols=15  Identities=27%  Similarity=0.428  Sum_probs=13.1

Q ss_pred             EEEEecCCCcHHHHH
Q 036619          214 ISLVGLGGIGKTTLA  228 (352)
Q Consensus       214 i~I~G~~GiGKTtLa  228 (352)
                      +.|.|.+|+||||.+
T Consensus        27 ~lV~g~aGSGKTt~l   41 (318)
T d1pjra1          27 LLIMAGAGSGKTRVL   41 (318)
T ss_dssp             EEEEECTTSCHHHHH
T ss_pred             EEEEecCCccHHHHH
Confidence            568899999999876

>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=82.90  E-value=0.33  Score=38.20  Aligned_cols=20  Identities=30%  Similarity=0.290  Sum_probs=17.3

Q ss_pred             EEEEEecCCCcHHHHHHHHH
Q 036619          213 VISLVGLGGIGKTTLAQLAY  232 (352)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~  232 (352)
                      -|+|+|-.+.|||||+.++.
T Consensus         5 ni~iiGhvd~GKSTL~~~Ll   24 (204)
T d2c78a3           5 NVGTIGHVDHGKTTLTAALT   24 (204)
T ss_dssp             EEEEECSTTSSHHHHHHHHH
T ss_pred             EEEEEeCCCCcHHHHHHHHH
Confidence            47899999999999996663

>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=81.82  E-value=0.36  Score=39.91  Aligned_cols=22  Identities=32%  Similarity=0.436  Sum_probs=19.0

Q ss_pred             EEEEEecCCCcHHHHHHHHHhh
Q 036619          213 VISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      -++|||.+.+|||||-..+-+.
T Consensus         4 ~~GivG~Pn~GKSTlf~~lt~~   25 (278)
T d1jala1           4 KCGIVGLPNVGKSTLFNALTKA   25 (278)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHT
T ss_pred             eEEEECCCCCCHHHHHHHHHCC
Confidence            5899999999999999877643

>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=80.87  E-value=0.42  Score=39.87  Aligned_cols=23  Identities=22%  Similarity=0.390  Sum_probs=20.0

Q ss_pred             EEEEEEecCCCcHHHHHHHHHhh
Q 036619          212 QVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      --++|+|.+.+|||||-..+-+.
T Consensus        11 ~kiGivG~Pn~GKSTlfnalT~~   33 (296)
T d1ni3a1          11 LKTGIVGMPNVGKSTFFRAITKS   33 (296)
T ss_dssp             CEEEEEECSSSSHHHHHHHHHHS
T ss_pred             cEEEEECCCCCCHHHHHHHHHCC
Confidence            34899999999999999888754

>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=80.75  E-value=0.47  Score=39.09  Aligned_cols=25  Identities=20%  Similarity=0.294  Sum_probs=21.6

Q ss_pred             CeEEEEEEecCCCcHHHHHHHHHhh
Q 036619          210 GLQVISLVGLGGIGKTTLAQLAYNN  234 (352)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~  234 (352)
                      ..-.++|+|++.+|||||+..+...
T Consensus       111 ~~~~v~vvG~PNvGKSsliN~L~~~  135 (273)
T d1puja_         111 RAIRALIIGIPNVGKSTLINRLAKK  135 (273)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHTS
T ss_pred             CceEEEEEecCccchhhhhhhhhcc
Confidence            3456889999999999999988875