Citrus Sinensis ID: 038448

---

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-------360-------370-------380-----
Protein Sequence
MCRRVASQEVGFEGNSVVCTPKAEPGRSDEWKKILVKINEVLDDAEEKQNTEQSVKMWLGDLQNLAYDVDDLLDELETEAFRRNLMFQEPAAAQTTTTKFRRLIPSCCTNFSPQAIKFDHMMAAKIEDRTIRLQEIEKDKEKEETVKLLLRDDLRTDDGLSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDFDIIRVTKSILKSIASDQLVDDHDLNLLQKYNDWTNRSRLFEAGAPGSKIVFTTRNLGVAEKMGPLPAYPLKELSNDDCLSVFSPHSLGEKDFSTHPSLKEIGEKIVKKCNGLPLVAKSLGGLLRGFLNHESDKKQMENLGRKYFQELYSRLFFQLSSSNKSLFVMHDLNNDLLNGLHGRFTSE
Secondary Structure (PSIPRED)
cHHHHHHHHHHHHHHHHHccccccccHHHHHHHHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccHHHHHHccccccccccccHHHHHHHcccccccccccccccccccHHHHHHHHHHHcccccccccccEEEEEEccccccHHHHHHHHHccHHHHHcccccEEEEEcccccHHHHHHHHHHHHccccccccccHHHHccHHHHHHHHHHHHccccccEEEEEcccHHHHHHHccccccccccccHHHHHHHHHHHccccccccccccHHHHHHHHHHHcccHHHHHHHHHHHHccccccHHHHHHHHHHHHcccHHHHHccccccccccccHHHHHHHHHHHHHHHHHHcccc
Secondary Structure Prediction (SSPRO)
ccHHHccHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccHHHHHHHHHHHHHHHHHHHHHcccccccccccccEEccccEEcccHHHHHHHHHHHcccccccccEEEEEEEccccccHHHHHHHHHccHHHHHHccEEEEEEEcccccHHHHHHHHHHHHccccEEEEEcccccccHHHHHHHHHHHHccccccEEEEEEccHHHHHHcccccccccccccHHHHHHHHHHHHcccccccccccHHHHHHHHHHHHcccHHHHHHHHHHHHccccHHHHHHHHHcHHHccccccccccccEccccccHHHHHHcccHHHHHHHHHHcccc
Coil and Loop (DISEMBL)
mcrrvasqevgfegnsvvctpkaepgrsdEWKKILVKINEVLDDAEEKQNTEQSVKMWLGDLQNLAYDVDDLLDELETEAFRRNlmfqepaaaqttttkfrrlipscctnfspqaikFDHMMAAKIEDRTIRLQEIEKDKEKEETVKLLLRddlrtddglsvipiigtgrigkTTLAQLAYSDVrvhnhfdlkawtcvsedfdIIRVTKSILKSIasdqlvddhdLNLLQKYndwtnrsrlfeagapgskivfttrnlgvaekmgplpayplkelsnddclsvfsphslgekdfsthpslkEIGEKIVKKCNGLPLVAKSLGGLLRGFLNHESDKKQMENLGRKYFQELYSRLFFQLSSSNKSLFVMHDLNNdllnglhgrftse
Flexible Loop (DISEMBL)
mcrrvasqevgfegnsvvctpkaepgrsdewKKILVKINEVLDDAEEKQNTEQSVKMWLGDLQNLAYDVDDLLDELETEAFRrnlmfqepaaaqttttkfrrliPSCCTNFSPQAIKFDHMMAAKIEDRTIRLqeiekdkekeetvklllrddlrtddglsvipiigtgrigkTTLAQLAYSDVRVHNHFDLKAWTCVSEDFDIIRVTKSILKSIasdqlvddhdLNLLQKYNDWTNRSRLfeagapgskiVFTTRNLGVAEKMGPLPAYPLKELSNDDCLSVFSPHSLGEKDFSTHPSLKEIGEKIVKKCNGLPLVAKSLGGLLRGFLNHESDKKQMENLGRKYFQELYSRLFFQLSSSNKSLFVMHDLNndllnglhgrftse
Low Complexity Region (SEG)
MCRRVASQEVGFEGNSVVCTPKAEPGRSDEWKKILVKINEVLDDAEEKQNTEQSVKMWLGDLQNLAYDVddlldeleteAFRRNLMFQEPAAAQTTTTKFRRLIPSCCTNFSPQAIKFDHMMAAKIEDRTIRLQEIEKDKEKEETVKlllrddlrtddGLSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDFDIIRVTKSILKSIASDQLVDDHDLNLLQKYNDWTNRSRLFEAGAPGSKIVFTTRNLGVAEKMGPLPAYPLKELSNDDCLSVFSPHSLGEKDFSTHPSLKEIGEKIVKKCNGLPLVAKSLGGLLRGFLNHESDKKQMENLGRKYFQELYSRLFFQLSSSNKSLFVMhdlnndllnglhgRFTSE
Disordered region (IsUnstruct)
******************************WKKILVKINEVLD***********VKMWLGDLQNLAYDVDDLLDELETEAFRRNLMFQEPAAAQTTTTKFRRLIPSCCTNFSPQAIKFDHMMAAKIEDRTIRLQ**********TVKLLLRDDLRTDDGLSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDFDIIRVTKSILKSIASDQLVDDHDLNLLQKYNDWTNRSRLFEAGAPGSKIVFTTRNLGVAEKMGPLPAYPLKELSNDDCLSVFS**************LKEIGEKIVKKCNGLPLVAKSLGGLLRGFLNHE******ENLGRKYFQELYSRLFFQLSSSNKSLFVMHDLNNDLLNGLH******
Disordered Region (DISOPRED)
*CRRVASQEVGFEGNSVVCTPKAEPGRSDEWKKILVKINEVLDDAEEKQNTEQSVKMWLGDLQNLAYDVDDLLDELETEAFR*************************CT****************************KDKEKEETVKLLLRDDLRTDDGLSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDFDIIRVTKSILKSIASDQLVDDHDLNLLQKYNDWTNRSRLFEAGAPGSKIVFTTRNLGVAEKMGPLPAYPLKELSNDDCLSVFSPHSLGEK**STHPSLKEIGEKIVKKCNGLPLVAKSLGGLLRGFLNHESDKKQMENLGRKYFQELYSRLFFQLSSSNKSLFVMHDLNNDLLNGLHGRFTSE
Disordered Region (DISEMBL)
***********FEGNSVVCTPKAEPGRSDEWKKILVKINEVLDDAEEKQNTEQSVKMWLGDLQNLAYDVDDLLDELETEAFRRNLMFQEPAAAQTTTTKFRRLIPSCCTNFSPQAIKFDHMMAAKIEDRTIRLQEIEKDKEKEETVKLLLRDDLRTDDGLSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDFDIIRVTKSILKSIASDQLVDDHDLNLLQKYNDWTNRSRLFEAGAPGSKIVFTTRNLGVAEKMGPLPAYPLKELSNDDCLSVFSPHSLGEKDFSTHPSLKEIGEKIVKKCNGLPLVAKSLGGLLRGFLNHESDKKQMENLGRKYFQELYSRLFFQLSSSNKSLFVMHDLNNDLLNGLHGRFTSE
Disordered Region (DISPRO)
MCRRVASQEVGFEGNSVVCTPKAEPGRSDEWKKILVKINEVLDDAEEKQNTEQSVKMWLGDLQNLAYDVDDLLDELETEAFRRNLMFQEPAAAQTTTTKFRRLIPSCCTNFSPQAI*********IEDRTIRLQEIEKDKEKEETVKLLLRDDLRTDDGLSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDFDIIRVTKSILKSIASDQLVDDHDLNLLQKYNDWTNRSRLFEAGAPGSKIVFTTRNLGVAEKMGPLPAYPLKELSNDDCLSVFSPHSLGEKDFSTHPSLKEIGEKIVKKCNGLPLVAKSLGGLLRGFLNHESDKKQMENLGRKYFQELYSRLFFQLSSSNKSLFVMHDLNNDLLNGLHGRFTSE
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MCRRVASQEVGFEGNSVVCTPKAEPGRxxxxxxxxxxxxxxxxxxxxxQNTEQSVKMWLGDLQNLAYDVDDLLDELETEAFRRNLMFQEPAAAQTTTTKFRRLIPSCCTNFSPQAIKFDHMMAAKIEDRTIRLQEIEKDKEKEETVKLLLRDDLRTDDGLSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDFDIIRVTKSILKSIASDQLVDDHDLNLLQKYNDWTNRSRLFEAGAPGSKIVFTTRNLGVAEKMGPLPAYPLKELSNDDCLSVFSPHSLGEKDFSTHPSLKEIGEKIVKKCNGLPLVAKSLGGLLRGFLNHESDKKQMENLGRKYFQELYSRLFFQLSSSNKSLFVMHDLNNDLLNGLHGRFTSE
Positional Conservation
no confident homologs detected

---

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	385	2.2.26 [Sep-21-2011]
Q7XA40	992	Putative disease resistan	N/A	no	0.792	0.307	0.354	1e-42
Q7XBQ9	970	Disease resistance protei	N/A	no	0.722	0.286	0.324	1e-41
Q7XA39	988	Putative disease resistan	N/A	no	0.774	0.301	0.362	8e-40
Q7XA42	979	Putative disease resistan	N/A	no	0.722	0.283	0.328	1e-39
Q9LRR4	1054	Putative disease resistan	yes	no	0.735	0.268	0.295	3e-36
Q9LRR5	1424	Putative disease resistan	no	no	0.789	0.213	0.271	5e-27
Q9LQ54	870	Probable disease resistan	no	no	0.724	0.320	0.268	2e-18
P0C8S1	906	Probable disease resistan	no	no	0.766	0.325	0.261	8e-17
Q38834	852	Disease resistance RPP13-	no	no	0.732	0.330	0.247	9e-16
Q9FJK8	908	Probable disease resistan	no	no	0.779	0.330	0.254	4e-15

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

 Score =  174 bits (440), Expect = 1e-42,   Method: Compositional matrix adjust.
 Identities = 123/347 (35%), Positives = 184/347 (53%), Gaps = 42/347 (12%)

Query: 26  GRSDEWKKI---LVKINEVLDDAEEKQNTEQSVKMWLGDLQNLAYDVDDLLDELETEA-- 80
           G   E+KK+      I  VL+DA+EKQ   +++K WL  L   AY+VDD+LD+ +TEA  
Sbjct: 26  GFEKEFKKLSSMFSMIQAVLEDAQEKQLKYKAIKNWLQKLNVAAYEVDDILDDCKTEAAR 85

Query: 81  FRRNLMFQEPAAAQTTTTKFRRLIPSCCTNFSPQA--IKFDHMMAAKIEDRTIRLQE--- 135
           F++ ++ +      T   K  + +          A   +  H+    IE +  R Q    
Sbjct: 86  FKQAVLGRYHPRTITFCYKVGKRMKEMMEKLDAIAEERRNFHLDERIIERQAARRQTGFV 145

Query: 136 ------IEKDKEKEETVKLLLRDDLRTDDGLSVIPIIGTGRIGKTTLAQLAYSDVRVHNH 189
                   ++KE++E VK+L+ +++   + + V+PI+G G +GKTTLAQ+ ++D R+  H
Sbjct: 146 LTEPKVYGREKEEDEIVKILI-NNVSYSEEVPVLPILGMGGLGKTTLAQMVFNDQRITEH 204

Query: 190 FDLKAWTCVSEDFDIIRVTKSILKSIASDQLVDDHDLNLLQK------------------ 231
           F+LK W CVS+DFD  R+ K+I++SI    L  D DL  LQK                  
Sbjct: 205 FNLKIWVCVSDDFDEKRLIKAIVESIEGKSL-GDMDLAPLQKKLQELLNGKRYFLVLDDV 263

Query: 232 YND----WTNRSRLFEAGAPGSKIVFTTRNLGVAEKMGPLPAYPLKELSNDDCLSVFSPH 287
           +N+    W N   + + GA G+ I+ TTR   +   MG L  Y L  LS +DC  +F   
Sbjct: 264 WNEDQEKWDNLRAVLKIGASGASILITTRLEKIGSIMGTLQLYQLSNLSQEDCWLLFKQR 323

Query: 288 SLGEKDFSTHPSLKEIGEKIVKKCNGLPLVAKSLGGLLRGFLNHESD 334
           +   +   T P L EIG++IVKKC G+PL AK+LGGLLR F   ES+
Sbjct: 324 AFCHQT-ETSPKLMEIGKEIVKKCGGVPLAAKTLGGLLR-FKREESE 368

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

 Score =  171 bits (433), Expect = 1e-41,   Method: Compositional matrix adjust.
 Identities = 116/358 (32%), Positives = 179/358 (50%), Gaps = 80/358 (22%)

Query: 26  GRSDEWKKI---LVKINEVLDDAEEKQNTEQSVKMWLGDLQNLAYDVDDLLDELETEAFR 82
           G  DE++++      I  VL+DA+EKQ   + ++ WL  L    Y+VDD+LDE +T+A R
Sbjct: 26  GFQDEFQRLSSMFSTIQAVLEDAQEKQLNNKPLENWLQKLNAATYEVDDILDEYKTKATR 85

Query: 83  RNLMFQEPAAAQTTTTKFRRLIPSCCTNFSPQAIKFDHMMAAKIEDRTIRLQEIE----- 137
                        + +++ R        + P+ I F H +  +++    +L+ I      
Sbjct: 86  ------------FSQSEYGR--------YHPKVIPFRHKVGKRMDQVMKKLKAIAEERKN 125

Query: 138 ----------------------------KDKEKEETVKLLLRDDLRTDDGLSVIPIIGTG 169
                                       +DKEK+E VK+L+ +++     LSV+PI+G G
Sbjct: 126 FHLHEKIVERQAVRRETGSVLTEPQVYGRDKEKDEIVKILI-NNVSDAQHLSVLPILGMG 184

Query: 170 RIGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDFDIIRVTKSILKSIASDQLVDDHDLNLL 229
            +GKTTLAQ+ ++D RV  HF  K W CVSEDFD  R+ K+I++SI    L+ + DL  L
Sbjct: 185 GLGKTTLAQMVFNDQRVTEHFHSKIWICVSEDFDEKRLIKAIVESIEGRPLLGEMDLAPL 244

Query: 230 QK------------------YND----WTNRSRLFEAGAPGSKIVFTTRNLGVAEKMGPL 267
           QK                  +N+    W N   + + GA G+ ++ TTR   V   MG L
Sbjct: 245 QKKLQELLNGKRYLLVLDDVWNEDQQKWANLRAVLKVGASGASVLTTTRLEKVGSIMGTL 304

Query: 268 PAYPLKELSNDDCLSVFSPHSLGEKDFSTHPSLKEIGEKIVKKCNGLPLVAKSLGGLL 325
             Y L  LS +DC  +F   + G ++   +P+L  IG++IVKK  G+PL AK+LGG+L
Sbjct: 305 QPYELSNLSQEDCWLLFMQRAFGHQE-EINPNLVAIGKEIVKKSGGVPLAAKTLGGIL 361

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 =  164 bits (416), Expect = 8e-40,   Method: Compositional matrix adjust.
 Identities = 122/337 (36%), Positives = 174/337 (51%), Gaps = 39/337 (11%)

Query: 34  ILVKINEVLDDAEEKQNTEQSVKMWLGDLQNLAYDVDDLLDELETEAFR---RNLMFQEP 90
           +   I  VL DA+EKQ  +++++ WL  L + AY+VDD+L E + EA R     L F  P
Sbjct: 37  VFSTIQAVLQDAQEKQLKDKAIENWLQKLNSAAYEVDDILGECKNEAIRFEQSRLGFYHP 96

Query: 91  AAAQTTTTKFRRL--IPSCCTNFSPQAIKFDHM-------MAAKIEDRTIRLQEIE---K 138
                     RR+  I       S +  KF  +        AA   +    L E +   +
Sbjct: 97  GIINFRHKIGRRMKEIMEKLDAISEERRKFHFLEKITERQAAAATRETGFVLTEPKVYGR 156

Query: 139 DKEKEETVKLLLRDDLRTDDGLSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCV 198
           DKE++E VK+L+ +++   + L V PIIG G +GKTTLAQ+ ++D RV  HF+ K W CV
Sbjct: 157 DKEEDEIVKILI-NNVNVAEELPVFPIIGMGGLGKTTLAQMIFNDERVTKHFNPKIWVCV 215

Query: 199 SEDFDIIRVTKSILKSIA-SDQLVDD----------------HDLNLLQKYND----WTN 237
           S+DFD  R+ K+I+ +I  S   V+D                + L L   +ND    W  
Sbjct: 216 SDDFDEKRLIKTIIGNIERSSPHVEDLASFQKKLQELLNGKRYLLVLDDVWNDDLEKWAK 275

Query: 238 RSRLFEAGAPGSKIVFTTRNLGVAEKMGPLPAYPLKELSNDDCLSVFSPHSLGEKDFSTH 297
              +   GA G+ I+ TTR   V   MG L  Y L  LS  D L +F   + G++    +
Sbjct: 276 LRAVLTVGARGASILATTRLEKVGSIMGTLQPYHLSNLSPHDSLLLFMQRAFGQQK-EAN 334

Query: 298 PSLKEIGEKIVKKCNGLPLVAKSLGGLLRGFLNHESD 334
           P+L  IG++IVKKC G+PL AK+LGGLLR F   ES+
Sbjct: 335 PNLVAIGKEIVKKCGGVPLAAKTLGGLLR-FKREESE 370

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 =  164 bits (414), Expect = 1e-39,   Method: Compositional matrix adjust.
 Identities = 118/359 (32%), Positives = 177/359 (49%), Gaps = 81/359 (22%)

Query: 26  GRSDEWKKI---LVKINEVLDDAEEKQNTEQSVKMWLGDLQNLAYDVDDLLDELETEAFR 82
           G  DE++++      I  VL+DA+EKQ  ++ ++ WL  L    Y+VDD+LDE +T+A  
Sbjct: 26  GFQDEFQRLSSMFSTIQAVLEDAQEKQLNDKPLENWLQKLNAATYEVDDILDEYKTKA-- 83

Query: 83  RNLMFQEPAAAQTTTTKFRRLIPSCCTNFSPQAIKFDHMMAAKI------------EDRT 130
                              R + S    + P+ I F H +  ++            E + 
Sbjct: 84  ------------------TRFLQSEYGRYHPKVIPFRHKVGKRMDQVMKKLNAIAEERKK 125

Query: 131 IRLQE--IEK-------------------DKEKEETVKLLLRDDLRTDDGLSVIPIIGTG 169
             LQE  IE+                   DKEK+E VK+L+ +       LSV+PI+G G
Sbjct: 126 FHLQEKIIERQAATRETGSVLTEPQVYGRDKEKDEIVKILI-NTASDAQKLSVLPILGMG 184

Query: 170 RIGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDFDIIRVTKSILKSIASDQLVDDHDLNLL 229
            +GKTTL+Q+ ++D RV   F  K W C+S+DF+  R+ K+I++SI    L  D DL  L
Sbjct: 185 GLGKTTLSQMVFNDQRVTERFYPKIWICISDDFNEKRLIKAIVESIEGKSL-SDMDLAPL 243

Query: 230 QK------------------YND----WTNRSRLFEAGAPGSKIVFTTRNLGVAEKMGPL 267
           QK                  +N+    W N   + + GA G+ ++ TTR   V   MG L
Sbjct: 244 QKKLQELLNGKRYFLVLDDVWNEDQHKWANLRAVLKVGASGAFVLTTTRLEKVGSIMGTL 303

Query: 268 PAYPLKELSNDDCLSVFSPHSLGEKDFSTHPSLKEIGEKIVKKCNGLPLVAKSLGGLLR 326
             Y L  LS +DC  +F   + G ++   +P+L  IG++IVKKC G+PL AK+LGG+LR
Sbjct: 304 QPYELSNLSPEDCWFLFMQRAFGHQE-EINPNLMAIGKEIVKKCGGVPLAAKTLGGILR 361

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 =  152 bits (385), Expect = 3e-36,   Method: Compositional matrix adjust.
 Identities = 103/349 (29%), Positives = 174/349 (49%), Gaps = 66/349 (18%)

Query: 35  LVKINEVLDDAEEKQNTEQSVKMWLGDLQNLAYDVDDLLDELETEAFRRNLMFQEPAAAQ 94
           L+ I  VL DAEEKQ T   V+ W+ +L+++ Y  +D LD++ TEA R N+      A  
Sbjct: 46  LLTITAVLIDAEEKQITNPVVEKWVNELRDVVYHAEDALDDIATEALRLNI-----GAES 100

Query: 95  TTTTKFRRLIPSCCTNFSPQAIKFDHMMAAKIEDRTIRLQEIE----------------- 137
           +++ + R+L      +           +  ++E  TIRL+ +                  
Sbjct: 101 SSSNRLRQLRGR--MSLGDFLDGNSEHLETRLEKVTIRLERLASQRNILGLKELTAMIPK 158

Query: 138 ----------------KDKEKEETVKLLLRDDLRTDDGLSVIPIIGTGRIGKTTLAQLAY 181
                           +D +K+E ++ L+ ++ + D+G++V+ I+G G +GKTTL+QL Y
Sbjct: 159 QRLPTTSLVDESEVFGRDDDKDEIMRFLIPENGK-DNGITVVAIVGIGGVGKTTLSQLLY 217

Query: 182 SDVRVHNHFDLKAWTCVSEDFDIIRVTKSILKSIASDQLVDDHDLNLLQ----------- 230
           +D  V ++F  K W  VSE+FD+ ++TK + +S+ S +  +  DL++LQ           
Sbjct: 218 NDQHVRSYFGTKVWAHVSEEFDVFKITKKVYESVTS-RPCEFTDLDVLQVKLKERLTGTG 276

Query: 231 -------------KYNDWTNRSRLFEAGAPGSKIVFTTRNLGVAEKMGPLPAYPLKELSN 277
                         + DW    + F   A GS+I+ TTR+  VA  M  +  + L+ LS+
Sbjct: 277 LPFLLVLDDLWNENFADWDLLRQPFIHAAQGSQILVTTRSQRVASIMCAVHVHNLQPLSD 336

Query: 278 DDCLSVFSPHSLGEKDFSTHPSLKEIGEKIVKKCNGLPLVAKSLGGLLR 326
            DC S+F     G ++   +  + ++ E+IV KC GLPL  K+LGG+LR
Sbjct: 337 GDCWSLFMKTVFGNQEPCLNREIGDLAERIVHKCRGLPLAVKTLGGVLR 385

Potential 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 =  122 bits (306), Expect = 5e-27,   Method: Compositional matrix adjust.
 Identities = 98/361 (27%), Positives = 163/361 (45%), Gaps = 57/361 (15%)

Query: 18  VCTPKAEPGRSDEWKKILVKINEVLDDAEEKQNTEQSVKMWLGDLQNLAYDVDDLLDELE 77
           +C  K+        K  LV  N VL DA+++    + VK WL  +++  +  +D+LDEL+
Sbjct: 26  LCKGKSSSALLKRLKVALVTANPVLADADQRAEHVREVKHWLTGIKDAFFQAEDILDELQ 85

Query: 78  TEAFRRNLMFQEPAAAQTTTTKFRRLIP---SCCTNFSPQAIKFDHMMAAKIED-RTIRL 133
           TEA RR ++    A A      F+ L+    +      P+  K   ++   ++    I L
Sbjct: 86  TEALRRRVV----AEAGGLGGLFQNLMAGREAIQKKIEPKMEKVVRLLEHHVKHIEVIGL 141

Query: 134 QEIEKDKE-------------------------KEETVKLLLRDDLRTDDGLSVIPIIGT 168
           +E  + +E                         K   V LLL DD  +    +VI ++G 
Sbjct: 142 KEYSETREPQWRQASRSRPDDLPQGRLVGRVEDKLALVNLLLSDDEISIGKPAVISVVGM 201

Query: 169 GRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDFDIIRVTKSILKSIASDQLVDDHDLNL 228
             +GKTTL ++ ++D RV  HF++K W     +F++  VTK++L+ I S   V+  DL  
Sbjct: 202 PGVGKTTLTEIVFNDYRVTEHFEVKMWISAGINFNVFTVTKAVLQDITSSA-VNTEDLPS 260

Query: 229 LQ----------------------KYNDWTNRSRLFEAGAPGSKIVFTTRNLGVAEKMGP 266
           LQ                        ++W +    F     GSKIV TTR+  V+     
Sbjct: 261 LQIQLKKTLSGKRFLLVLDDFWSESDSEWESFQVAFTDAEEGSKIVLTTRSEIVSTVAKA 320

Query: 267 LPAYPLKELSNDDCLSVFSPHSLGEKDF-STHPSLKEIGEKIVKKCNGLPLVAKSLGGLL 325
              Y +K ++N++C  + S  + G     S +  L+ IG++I ++C GLPL A+++   L
Sbjct: 321 EKIYQMKLMTNEECWELISRFAFGNISVGSINQELEGIGKRIAEQCKGLPLAARAIASHL 380

Query: 326 R 326
           R
Sbjct: 381 R 381

Potential disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LQ54|DRL12_ARATH Probable disease resistance protein At1g59620 OS=Arabidopsis thaliana GN=At1g59620 PE=2 SV=3

 Score = 94.0 bits (232), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 90/335 (26%), Positives = 150/335 (44%), Gaps = 56/335 (16%)

Query: 29  DEWKKILVKINEVLDDAEEKQNTEQSVKMWLGDLQNLAYDVDDLLDELETEAFRRNLMFQ 88
           +E +  L K+   L+DA+ K++    V   + +++ + YD +D++     E F R     
Sbjct: 32  NELRSDLNKLRCFLEDADAKKHQSAMVSNTVKEVKEIVYDTEDII-----ETFLRKKQLG 86

Query: 89  EPAAAQTTTTKFRRLIPSCCTNFSPQAIKFDHM--MAAKIEDRTIRLQEIEKDKEK---- 142
                +    +F  ++P    +    AI  + +    AK + R +R Q    + E     
Sbjct: 87  RTRGMKKRIKEFACVLP----DRRKIAIDMEGLSKRIAKKDKRNMR-QTFSNNNESVLVG 141

Query: 143 -EETVKLLLRDDLRTDDGLSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSED 201
            EE VK L+   +  +D   V+ I G G IGKTTLA+  ++   V +HF   AW CVS+ 
Sbjct: 142 LEENVKKLVGHLVEVEDSSQVVSITGMGGIGKTTLARQVFNHETVKSHFAQLAWVCVSQQ 201

Query: 202 FDIIRVTKSILKSIASD----QLVDDH----------------DLNLLQKYNDWTNRSRL 241
           F    V ++IL+ +  +    ++ +D                  L+ + +  DW     +
Sbjct: 202 FTRKYVWQTILRKVGPEYIKLEMTEDELQEKLFRLLGTRKALIVLDDIWREEDWDMIEPI 261

Query: 242 FEAGAPGSKIVFTTRNLGVAEKMGPLPAYPLKELSNDDCLS-----------VFSPHSLG 290
           F  G  G K++ T+RN GVA     L A P   +   DCL+           VF   +  
Sbjct: 262 FPLGK-GWKVLLTSRNEGVA-----LRANPNGFIFKPDCLTPEESWTIFRRIVFPGENTT 315

Query: 291 EKDFSTHPSLKEIGEKIVKKCNGLPLVAKSLGGLL 325
           E  +     ++E+G++++K C GLPL  K LGGLL
Sbjct: 316 E--YKVDEKMEELGKQMIKHCGGLPLALKVLGGLL 348

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

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

 Score = 88.6 bits (218), Expect = 8e-17,   Method: Compositional matrix adjust.
 Identities = 89/340 (26%), Positives = 148/340 (43%), Gaps = 45/340 (13%)

Query: 29  DEWKKILVKINEVLDDAEEKQNTEQSVKMWLGDLQNLAYDVDD-----LLDELETEAFRR 83
           D  K+ L ++  +L DA+ K+N  + V+ +L D++++ YD DD     LL+EL  +    
Sbjct: 32  DGLKRQLGRLQSLLKDADAKKNETERVRNFLEDVKDIVYDADDIIESFLLNELRGKEKGI 91

Query: 84  NLMFQEPAAAQTTTTKFRRLIPSCCTNFSPQAIKFDHMMAAKIED---RTIRLQEIEKDK 140
               +  A       KF   I       S   +    +    I D   R++ LQE +++ 
Sbjct: 92  KKQVRTLACFLVDRRKFASDIEGITKRISEVIVGMQSLGIQHIADGGGRSLSLQERQREI 151

Query: 141 EK-------------EETVKLLLRDDLRTDDGLSVIPIIGTGRIGKTTLAQLAYSDVRVH 187
            +             +++V+ L+ D L  +D + V+ + G G IGKTTLA+  +    V 
Sbjct: 152 RQTFSRNSESDLVGLDQSVEELV-DHLVENDSVQVVSVSGMGGIGKTTLARQVFHHDIVR 210

Query: 188 NHFDLKAWTCVSEDFDIIRVTKSILKSI-ASDQLVDDHDLNLLQ---------------- 230
            HFD  +W CVS+ F    V + IL+ +   D+ +   D   LQ                
Sbjct: 211 RHFDGFSWVCVSQQFTRKDVWQRILQDLRPYDEGIIQMDEYTLQGELFELLESGRYLLVL 270

Query: 231 ----KYNDWTNRSRLFEAGAPGSKIVFTTRNLGVAEKMGPLP-AYPLKELSNDDCLSVFS 285
               K  DW     +F     G K++ T+RN G+     P   A+  + L+ +    +F 
Sbjct: 271 DDVWKEEDWDRIKAVF-PHKRGWKMLLTSRNEGLGLHADPTCFAFRPRILTPEQSWKLFE 329

Query: 286 PHSLGEKDFSTHPSLKEIGEKIVKKCNGLPLVAKSLGGLL 325
                 +D +     + +G+++V  C GLPL  K LGGLL
Sbjct: 330 RIVSSRRDKTEFKVDEAMGKEMVTYCGGLPLAVKVLGGLL 369

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 = 85.1 bits (209), Expect = 9e-16,   Method: Compositional matrix adjust.
 Identities = 83/335 (24%), Positives = 153/335 (45%), Gaps = 53/335 (15%)

Query: 38  INEVLDDAEEKQNTEQSVKMWLGDLQNLAYDVDDLL---------DELETEAFRRNLMFQ 88
           +   L DAE ++ T ++++  + DL+ L Y+ +D+L         D  E  +    L   
Sbjct: 41  MQSFLKDAERQKRTNETLRTLVADLRELVYEAEDILVDCQLADGDDGNEQRSSNAWLSRL 100

Query: 89  EPAAAQTTTTKFRRL---------IPSCCTNF----SPQAIKFDH---MMAAKIEDRTIR 132
            PA       K +RL         I S    +    +P  +  D+     ++ + D T  
Sbjct: 101 HPARVPLQYKKSKRLQEINERITKIKSQVEPYFEFITPSNVGRDNGTDRWSSPVYDHT-- 158

Query: 133 LQEIEKDKEKEETVKLLLRDDLRTDDGLSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDL 192
            Q +  + +K +  + L R +   D  L ++  +G G +GKTT+AQ  ++D  + + F+ 
Sbjct: 159 -QVVGLEGDKRKIKEWLFRSN---DSQLLIMAFVGMGGLGKTTIAQEVFNDKEIEHRFER 214

Query: 193 KAWTCVSEDFDIIRVTKSILKSIASDQLVDDHD--LNLLQKY-----------NDWTNRS 239
           + W  VS+ F   ++ +SIL+++    + DD    L  +Q+Y           + W    
Sbjct: 215 RIWVSVSQTFTEEQIMRSILRNLGDASVGDDIGTLLRKIQQYLLGKRYLIVMDDVWDKNL 274

Query: 240 RLFE---AGAP---GSKIVFTTRNLGVAEKMGPL--PAYPLKELSNDDCLSVFSPHSLGE 291
             ++    G P   G  ++ TTR+  VA+++       +  + LS D+   +F   +   
Sbjct: 275 SWWDKIYQGLPRGQGGSVIVTTRSESVAKRVQARDDKTHRPELLSPDNSWLLFCNVAFAA 334

Query: 292 KDFST-HPSLKEIGEKIVKKCNGLPLVAKSLGGLL 325
            D +   P L+++G++IV KC GLPL  K++GGLL
Sbjct: 335 NDGTCERPELEDVGKEIVTKCKGLPLTIKAVGGLL 369

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 = 82.8 bits (203), Expect = 4e-15,   Method: Compositional matrix adjust.
 Identities = 95/374 (25%), Positives = 154/374 (41%), Gaps = 74/374 (19%)

Query: 29  DEWKKILVKINEVLDDAEEKQNTEQSVKMWLGDLQNLAYDVDDL-----LDELETEA--- 80
           D  K+ L  +  +L DA+ K++    V+ +L D+++L +D +D+     L++L  E    
Sbjct: 32  DGLKRQLRSLQSLLKDADAKKHGSDRVRNFLEDVKDLVFDAEDIIESYVLNKLRGEGKGV 91

Query: 81  ---FRRNLMF----QEPAAAQTTTTKFRRLIPSCCTNFSPQAIKFDHMMAAKIEDRTIRL 133
               RR   F     + A+     TK    +     +F  Q I  D + +  +++R    
Sbjct: 92  KKHVRRLARFLTDRHKVASDIEGITKRISDVIGEMQSFGIQQI-IDGVRSLSLQERQRVQ 150

Query: 134 QEIEK-------------DKEKEETVKLLLRDDLRTDDGLSVIPIIGTGRIGKTTLAQLA 180
           +EI +             ++  EE V  L+ +D+       V+ I G G IGKTTLA+  
Sbjct: 151 REIRQTYPDSSESDLVGVEQSVEELVGHLVENDI-----YQVVSIAGMGGIGKTTLARQV 205

Query: 181 YSDVRVHNHFDLKAWTCVSEDFDIIRVTKSILKSIASDQLVDDHDLNLLQ---------- 230
           +    V  HFD  AW CVS+ F +  V + IL+ +        HD N+LQ          
Sbjct: 206 FHHDLVRRHFDGFAWVCVSQQFTLKHVWQRILQELQP------HDGNILQMDESALQPKL 259

Query: 231 -----------------KYNDWTNRSRLFEAGAPGSKIVFTTRNLGVAEKMGPLPAYPLK 273
                            K  DW     +F     G K++ T+RN GV     P       
Sbjct: 260 FQLLETGRYLLVLDDVWKKEDWDRIKAVFPR-KRGWKMLLTSRNEGVGIHADPTCLTFRA 318

Query: 274 ELSNDD-----CLSVFSPHSLGEKDFSTHPSLKEIGEKIVKKCNGLPLVAKSLGGLLRGF 328
            + N +     C  +  P    E +      ++ +G+++V  C GLPL  K+LGGLL   
Sbjct: 319 SILNPEESWKLCERIVFPRR-DETEVRLDEEMEAMGKEMVTHCGGLPLAVKALGGLLANK 377

Query: 329 LNHESDKKQMENLG 342
                 K+  +N+G
Sbjct: 378 HTVPEWKRVSDNIG 391

Potential disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	385
359487188	1292	PREDICTED: putative disease resistance R	0.779	0.232	0.461	3e-81
359487182	2283	PREDICTED: putative disease resistance p	0.774	0.130	0.458	4e-81
147862409	1466	hypothetical protein VITISV_042289 [Viti	0.774	0.203	0.458	4e-81
147860511	1406	hypothetical protein VITISV_014536 [Viti	0.779	0.213	0.446	2e-75
359495024	1390	PREDICTED: putative disease resistance p	0.779	0.215	0.446	2e-75
359487170	1293	PREDICTED: putative disease resistance R	0.784	0.233	0.436	2e-74
359487172	1310	PREDICTED: putative disease resistance R	0.787	0.231	0.435	3e-74
359495026	2204	PREDICTED: uncharacterized protein LOC10	0.779	0.136	0.435	3e-74
147766792	2277	hypothetical protein VITISV_039904 [Viti	0.787	0.133	0.435	4e-74
225465831	1483	PREDICTED: putative disease resistance R	0.784	0.203	0.437	5e-74

>gi|359487188|ref|XP_003633529.1| PREDICTED: putative disease resistance RPP13-like protein 1-like, partial [Vitis vinifera]

 Score =  308 bits (789), Expect = 3e-81,   Method: Compositional matrix adjust.
 Identities = 168/364 (46%), Positives = 223/364 (61%), Gaps = 64/364 (17%)

Query: 29  DEWKKILVKINEVLDDAEEKQNTEQSVKMWLGDLQNLAYDVDDLLDELETEAFRRNLMFQ 88
           ++W+K L KI+ VL+DAEEKQ   Q VK+WL DL++LAYDV+D+LDEL TEA  R LM  
Sbjct: 42  NKWEKTLKKIHAVLEDAEEKQMENQVVKIWLDDLRDLAYDVEDILDELATEALGRKLM-- 99

Query: 89  EPAAAQTTTTKFRRLIPSCCTNFSPQAIKFDHMMAAKIEDRTIRLQEIE----------- 137
             A  Q +T+KFR LIPSCCT+F+P AIKF+  M +KIE  T RLQ+I            
Sbjct: 100 --AETQPSTSKFRSLIPSCCTSFTPSAIKFNVKMRSKIEKITERLQDISSQQNNLLLTEK 157

Query: 138 --------------------------KDKEKEETVKLLLRDDLRTDDGLSVIPIIGTGRI 171
                                     ++ +K   + LLL D   +DD + VIPIIG G +
Sbjct: 158 VTGKRSAKATEILPTTSLVDESRVCGRETDKAAILDLLLHDHEPSDDAVRVIPIIGMGGV 217

Query: 172 GKTTLAQLAYSDVRVHNHFDLKAWTCVSEDFDIIRVTKSILKSIASDQLVDDHDLNLLQ- 230
           GKTTLAQLAY+D +V +HFDL+ W CVS+DFD++RVTK+I++S+ASD + D +DLNLLQ 
Sbjct: 218 GKTTLAQLAYNDDKVESHFDLRVWACVSDDFDVLRVTKTIVQSVASD-MSDFNDLNLLQV 276

Query: 231 ---------------------KYNDWTNRSRLFEAGAPGSKIVFTTRNLGVAEKMGPLPA 269
                                  + W         GA GS+++ TTRN GV   +G   A
Sbjct: 277 KLKEKLSGTKFLLVLDDVWNQNCDKWDTLYAPMRTGAQGSRVIVTTRNQGVVSAIGASSA 336

Query: 270 YPLKELSNDDCLSVFSPHSLGEKDFSTHPSLKEIGEKIVKKCNGLPLVAKSLGGLLRGFL 329
           YPLKELSND+CLS+ +  +LG ++F  HP L+ +GE+IVKKC GLPL AK+LGG+LR  L
Sbjct: 337 YPLKELSNDECLSLLAQQALGTRNFHNHPHLRVVGEEIVKKCKGLPLAAKALGGMLRTKL 396

Query: 330 NHES 333
           N ++
Sbjct: 397 NRDA 400

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359487182|ref|XP_003633528.1| PREDICTED: putative disease resistance protein At3g14460-like [Vitis vinifera]

 Score =  308 bits (788), Expect = 4e-81,   Method: Compositional matrix adjust.
 Identities = 166/362 (45%), Positives = 227/362 (62%), Gaps = 64/362 (17%)

Query: 30   EWKKILVKINEVLDDAEEKQNTEQSVKMWLGDLQNLAYDVDDLLDELETEAFRRNLMFQE 89
            +W+KIL+KI+ VLDDAEEKQ T++ VK+WL +L++LAYDV+D+LDE  TEA RR LM   
Sbjct: 1051 KWEKILLKIHAVLDDAEEKQMTDRLVKIWLDELRDLAYDVEDILDEFGTEALRRKLM--- 1107

Query: 90   PAAAQTTTTKFRRLIPSCCTNFSPQAIKFDHMMAAKIEDRTIRLQEIEKDK--------- 140
             A  + +T+    LIPSCCT+F+P  ++F+  M +KIE+ T RLQEI   K         
Sbjct: 1108 -AETEPSTSMVCSLIPSCCTSFNPSTVRFNVKMGSKIEEITARLQEISGQKNDLHLRENA 1166

Query: 141  ---------------------------EKEETVKLLLRDDLRTDDGLSVIPIIGTGRIGK 173
                                       +KE  + LLL+D+  +DD + VIPI+G G IGK
Sbjct: 1167 GGSSYTMKSRLPTTSLVDESRVYGRETDKEAILNLLLKDE-PSDDEVCVIPIVGMGGIGK 1225

Query: 174  TTLAQLAYSDVRVHNHFDLKAWTCVSEDFDIIRVTKSILKSIASDQLVDDHDLNLLQ--- 230
            TTLAQLA++D +V +HFDL+AW CVS+DFD++RVTK+IL+S++ D   D +DLNLLQ   
Sbjct: 1226 TTLAQLAFNDCKVKDHFDLRAWVCVSDDFDVVRVTKTILQSVSLDT-HDVNDLNLLQVML 1284

Query: 231  -------------------KYNDWTNRSRLFEAGAPGSKIVFTTRNLGVAEKMGPLPAYP 271
                                  +W        AGAPGSK++ TTRN GVA   G   AYP
Sbjct: 1285 KEKLSGNKFLLVLDDVWNENCEEWDILCSPMRAGAPGSKVIITTRNKGVASVAGTGSAYP 1344

Query: 272  LKELSNDDCLSVFSPHSLGEKDFSTHPSLKEIGEKIVKKCNGLPLVAKSLGGLLRGFLNH 331
            L+ELS+ DCLS+F+  +LG + F  HP LKE+GE+IV++C GLPL AK+LGG+LR  +N+
Sbjct: 1345 LQELSHGDCLSLFTQQALGTRSFEAHPHLKELGEEIVRRCKGLPLAAKALGGMLRNEVNY 1404

Query: 332  ES 333
            ++
Sbjct: 1405 DA 1406

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147862409|emb|CAN81911.1| hypothetical protein VITISV_042289 [Vitis vinifera]

 Score =  307 bits (787), Expect = 4e-81,   Method: Compositional matrix adjust.
 Identities = 166/362 (45%), Positives = 227/362 (62%), Gaps = 64/362 (17%)

Query: 30  EWKKILVKINEVLDDAEEKQNTEQSVKMWLGDLQNLAYDVDDLLDELETEAFRRNLMFQE 89
           +W+KIL+KI+ VLDDAEEKQ T++ VK+WL +L++LAYDV+D+LDE  TEA RR LM   
Sbjct: 40  KWEKILLKIHAVLDDAEEKQMTDRLVKIWLDELRDLAYDVEDILDEFGTEALRRKLM--- 96

Query: 90  PAAAQTTTTKFRRLIPSCCTNFSPQAIKFDHMMAAKIEDRTIRLQEIEKDK--------- 140
            A  + +T+    LIPSCCT+F+P  ++F+  M +KIE+ T RLQEI   K         
Sbjct: 97  -AETEPSTSMVCSLIPSCCTSFNPSTVRFNVKMGSKIEEITARLQEISGQKNDLHLRENA 155

Query: 141 ---------------------------EKEETVKLLLRDDLRTDDGLSVIPIIGTGRIGK 173
                                      +KE  + LLL+D+  +DD + VIPI+G G IGK
Sbjct: 156 GGSSYTMKSRLPTTSLVDESRVYGRETDKEAILNLLLKDE-PSDDEVCVIPIVGMGGIGK 214

Query: 174 TTLAQLAYSDVRVHNHFDLKAWTCVSEDFDIIRVTKSILKSIASDQLVDDHDLNLLQ--- 230
           TTLAQLA++D +V +HFDL+AW CVS+DFD++RVTK+IL+S++ D   D +DLNLLQ   
Sbjct: 215 TTLAQLAFNDCKVEDHFDLRAWVCVSDDFDVVRVTKTILQSVSLDT-HDVNDLNLLQVML 273

Query: 231 -------------------KYNDWTNRSRLFEAGAPGSKIVFTTRNLGVAEKMGPLPAYP 271
                                 +W        AGAPGSK++ TTRN GVA   G   AYP
Sbjct: 274 KEKLSGNKFLLVLDDVWNENCEEWDILCSPMRAGAPGSKVIITTRNKGVASVAGTGSAYP 333

Query: 272 LKELSNDDCLSVFSPHSLGEKDFSTHPSLKEIGEKIVKKCNGLPLVAKSLGGLLRGFLNH 331
           L+ELS+ DCLS+F+  +LG + F  HP LKE+GE+IV++C GLPL AK+LGG+LR  +N+
Sbjct: 334 LQELSHGDCLSLFTQQALGTRSFEAHPHLKELGEEIVRRCKGLPLAAKALGGMLRNEVNY 393

Query: 332 ES 333
           ++
Sbjct: 394 DA 395

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147860511|emb|CAN79726.1| hypothetical protein VITISV_014536 [Vitis vinifera]

 Score =  289 bits (740), Expect = 2e-75,   Method: Compositional matrix adjust.
 Identities = 162/363 (44%), Positives = 224/363 (61%), Gaps = 63/363 (17%)

Query: 30  EWKKILVKINEVLDDAEEKQNTEQSVKMWLGDLQNLAYDVDDLLDELETEAFRRNLMFQE 89
           +W+ IL+KI+ VL DAEEKQ T + V++WL +L++LAYDV+D+LD+  TEA RRNL+  +
Sbjct: 40  KWEGILLKIHAVLHDAEEKQMTNRFVQIWLAELRDLAYDVEDILDDFATEALRRNLIKDD 99

Query: 90  PAAAQTTTTKFRRLIPSCCTNFSPQAIKFDHMMAAKIEDRTIRLQEIEKDK--------- 140
           P   Q +T+  R LI S  + F+P A+ ++  M +KIE+ T RL EI   K         
Sbjct: 100 P---QPSTSTVRSLISSLSSRFNPNALVYNLNMGSKIEEITARLHEISTQKGDLDLRENV 156

Query: 141 ----------------------------EKEETVKLLLRDDLRTDDGLSVIPIIGTGRIG 172
                                       +KE  +++LLRD+L  D+ + VIPI+G G +G
Sbjct: 157 EGRSHRKRKRVPETASLVVESRVYGRETDKEAILEVLLRDELIHDNEVCVIPIVGMGGVG 216

Query: 173 KTTLAQLAYSDVRVHNHFDLKAWTCVSEDFDIIRVTKSILKSIASDQLVDDHDLNLLQ-- 230
           KTTLAQLAY+D RV NHFDL+AW CVS+DFD++R+TK++L+SIAS    + +DLNLLQ  
Sbjct: 217 KTTLAQLAYNDDRVKNHFDLRAWVCVSDDFDVLRITKTLLQSIAS-YTREINDLNLLQVK 275

Query: 231 --------------------KYNDWTNRSRLFEAGAPGSKIVFTTRNLGVAEKMGPLPAY 270
                                Y+ W +      AG PGSK++ TTRN+GVA     +  Y
Sbjct: 276 MKEKLSGKKFLLVLDDVWNENYDKWDSLCTPLRAGGPGSKVIITTRNMGVATLTRTVSPY 335

Query: 271 PLKELSNDDCLSVFSPHSLGEKDFSTHPSLKEIGEKIVKKCNGLPLVAKSLGGLLRGFLN 330
            L+ELSNDDC +VF+ H+LG ++F  HP LK IGE++V +C GLPLVAK+LGG+LR  LN
Sbjct: 336 LLQELSNDDCRAVFAQHALGARNFEAHPHLKIIGEEMVNRCRGLPLVAKALGGILRNELN 395

Query: 331 HES 333
           HE+
Sbjct: 396 HEA 398

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359495024|ref|XP_002267933.2| PREDICTED: putative disease resistance protein At3g14460-like [Vitis vinifera]

 Score =  289 bits (739), Expect = 2e-75,   Method: Compositional matrix adjust.
 Identities = 162/363 (44%), Positives = 224/363 (61%), Gaps = 63/363 (17%)

Query: 30  EWKKILVKINEVLDDAEEKQNTEQSVKMWLGDLQNLAYDVDDLLDELETEAFRRNLMFQE 89
           +W+ IL+KI+ VL DAEEKQ T + V++WL +L++LAYDV+D+LD+  TEA RRNL+  +
Sbjct: 40  KWEGILLKIHAVLHDAEEKQMTNRFVQIWLAELRDLAYDVEDILDDFATEALRRNLIKDD 99

Query: 90  PAAAQTTTTKFRRLIPSCCTNFSPQAIKFDHMMAAKIEDRTIRLQEIEKDK--------- 140
           P   Q +T+  R LI S  + F+P A+ ++  M +KIE+ T RL EI   K         
Sbjct: 100 P---QPSTSTVRSLISSLSSRFNPNALVYNLNMGSKIEEITARLHEISTQKGDLDLRENV 156

Query: 141 ----------------------------EKEETVKLLLRDDLRTDDGLSVIPIIGTGRIG 172
                                       +KE  +++LLRD+L  D+ + VIPI+G G +G
Sbjct: 157 EGRSHRKRKRVPETASLVVESRVYGRETDKEAILEVLLRDELIHDNEVCVIPIVGMGGVG 216

Query: 173 KTTLAQLAYSDVRVHNHFDLKAWTCVSEDFDIIRVTKSILKSIASDQLVDDHDLNLLQ-- 230
           KTTLAQLAY+D RV NHFDL+AW CVS+DFD++R+TK++L+SIAS    + +DLNLLQ  
Sbjct: 217 KTTLAQLAYNDDRVKNHFDLRAWVCVSDDFDVLRITKTLLQSIAS-YTREINDLNLLQVK 275

Query: 231 --------------------KYNDWTNRSRLFEAGAPGSKIVFTTRNLGVAEKMGPLPAY 270
                                Y+ W +      AG PGSK++ TTRN+GVA     +  Y
Sbjct: 276 MKEKLSGKKFLLVLDDVWNENYDKWDSLCTPLRAGGPGSKVIITTRNMGVATLTRTVSPY 335

Query: 271 PLKELSNDDCLSVFSPHSLGEKDFSTHPSLKEIGEKIVKKCNGLPLVAKSLGGLLRGFLN 330
            L+ELSNDDC +VF+ H+LG ++F  HP LK IGE++V +C GLPLVAK+LGG+LR  LN
Sbjct: 336 LLQELSNDDCRAVFAQHALGARNFEAHPHLKIIGEEMVNRCRGLPLVAKALGGILRNELN 395

Query: 331 HES 333
           HE+
Sbjct: 396 HEA 398

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359487170|ref|XP_002264316.2| PREDICTED: putative disease resistance RPP13-like protein 1-like [Vitis vinifera]

 Score =  286 bits (731), Expect = 2e-74,   Method: Compositional matrix adjust.
 Identities = 159/364 (43%), Positives = 215/364 (59%), Gaps = 62/364 (17%)

Query: 29  DEWKKILVKINEVLDDAEEKQNTEQSVKMWLGDLQNLAYDVDDLLDELETEAFRRNLMFQ 88
           ++WKKIL KI  VL DAEEK  T+  VKMWL +L +LAYDV+D+LD   TEA RRNLM +
Sbjct: 40  NKWKKILTKIYVVLHDAEEKHMTDPLVKMWLDELGDLAYDVEDILDSFATEALRRNLMAE 99

Query: 89  E-PAAAQTTTTKFRRLIPSCCTNFSPQAIKFDHMMAAKIEDRTIRLQEIEKDK------- 140
             P+  Q +T+K R LIPSCCT+F+P +IKF+  M +K +  T  LQEI   K       
Sbjct: 100 TLPSGTQPSTSKLRSLIPSCCTSFTPNSIKFNAEMWSKFKKITAGLQEISAQKNDLHLTE 159

Query: 141 ------------------------------EKEETVKLLLRDDLRTDDGLSVIPIIGTGR 170
                                         +K     LLLRDD  TD+ + VIP++G   
Sbjct: 160 NIAGKRSTKTREILPTTSLVDESRVYGRETDKAAIANLLLRDDSCTDE-VCVIPVVGMAG 218

Query: 171 IGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDFDIIRVTKSILKSIASDQLVDDHDLNLLQ 230
           IGKTTLAQLA++D  V  HFDL+ W  VS+D+D++++TK+IL+S++ +   D +DLNLLQ
Sbjct: 219 IGKTTLAQLAFNDDEVKAHFDLRVWVYVSDDYDVLKITKTILQSVSPNT-QDVNDLNLLQ 277

Query: 231 ----------------------KYNDWTNRSRLFEAGAPGSKIVFTTRNLGVAEKMGPLP 268
                                  ++ W        +G PGSK++ TTRN GV      LP
Sbjct: 278 MALRENLSGKKFLLILDDVWNENHDSWEFLCMPMRSGTPGSKLIVTTRNEGVVSITRTLP 337

Query: 269 AYPLKELSNDDCLSVFSPHSLGEKDFSTHPSLKEIGEKIVKKCNGLPLVAKSLGGLLRGF 328
           AY L+ELS +DCLSVF+  +LG+ +F  H  LKE+GE+IV+KC GLPL AK+LGG+LR  
Sbjct: 338 AYRLQELSYEDCLSVFTQQALGKSNFDVHSHLKEVGEEIVRKCKGLPLTAKALGGMLRNQ 397

Query: 329 LNHE 332
           ++H+
Sbjct: 398 VSHD 401

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359487172|ref|XP_002264364.2| PREDICTED: putative disease resistance RPP13-like protein 1-like [Vitis vinifera]

 Score =  285 bits (729), Expect = 3e-74,   Method: Compositional matrix adjust.
 Identities = 159/365 (43%), Positives = 217/365 (59%), Gaps = 62/365 (16%)

Query: 29  DEWKKILVKINEVLDDAEEKQNTEQSVKMWLGDLQNLAYDVDDLLDELETEAFRRNLMFQ 88
           ++WKKIL+KI  VL DAEEKQ T+  VKMWL +L +LAYDV+D+LD   T+A RRNLM +
Sbjct: 40  NKWKKILMKIYAVLHDAEEKQMTDPLVKMWLDELGDLAYDVEDILDGFVTQALRRNLMAE 99

Query: 89  -EPAAAQTTTTKFRRLIPSCCTNFSPQAIKFDHMMAAKIEDRTIRLQEIEKDK------- 140
             P+  Q +T+K R LIPSCCT+F+P AIKF+  M +KI+  T RLQEI   K       
Sbjct: 100 THPSGTQPSTSKLRSLIPSCCTSFTPNAIKFNAEMWSKIKKITARLQEISAQKNDLHLRE 159

Query: 141 ------------------------------EKEETVKLLLRDDLRTDDGLSVIPIIGTGR 170
                                         +K     LLLRDD  TD+ + VIP++G   
Sbjct: 160 NIAGESSTKTREILPTTSLVDESRVYGRETDKAAIANLLLRDDPCTDE-VCVIPVVGMAG 218

Query: 171 IGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDFDIIRVTKSILKSIASDQLVDDHDLNLLQ 230
           IGKTTLAQLA++D  +  HFDL+ W  VS+DFD++++TK+IL+S++ +   D +DLNLLQ
Sbjct: 219 IGKTTLAQLAFNDDEIKAHFDLRVWVYVSDDFDVLKITKTILQSVSPNT-QDVNDLNLLQ 277

Query: 231 ----------------------KYNDWTNRSRLFEAGAPGSKIVFTTRNLGVAEKMGPLP 268
                                  ++ W        +G PGSK++ TTRN GVA       
Sbjct: 278 MTLREGLSGKKFLLILDDVWNENFDSWDFLCMPMRSGEPGSKLIVTTRNEGVASITRTYR 337

Query: 269 AYPLKELSNDDCLSVFSPHSLGEKDFSTHPSLKEIGEKIVKKCNGLPLVAKSLGGLLRGF 328
           AY L EL+  DCLSVF+  +LG+ +F  H  LKE+GE+IV++C GLPL AK+LGG+LR  
Sbjct: 338 AYRLHELAYKDCLSVFTQQALGKSNFDAHSHLKEVGEEIVRRCKGLPLAAKALGGMLRNQ 397

Query: 329 LNHES 333
           ++H++
Sbjct: 398 VSHDA 402

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359495026|ref|XP_003634900.1| PREDICTED: uncharacterized protein LOC100854556 [Vitis vinifera]

 Score =  285 bits (728), Expect = 3e-74,   Method: Compositional matrix adjust.
 Identities = 158/363 (43%), Positives = 221/363 (60%), Gaps = 63/363 (17%)

Query: 30  EWKKILVKINEVLDDAEEKQNTEQSVKMWLGDLQNLAYDVDDLLDELETEAFRRNLMFQE 89
           +W+ IL+KI+ VL DAEEKQ T + V++WL +L++LAYDV+D+LD+  TEA RR L+  +
Sbjct: 40  KWEGILLKIHAVLHDAEEKQMTNRFVQIWLAELRDLAYDVEDILDDFATEALRRKLITDD 99

Query: 90  PAAAQTTTTKFRRLIPSCCTNFSPQAIKFDHMMAAKIEDRTIRLQEIEKDK--------- 140
           P   Q +T+  R +I S  + F+P A+ ++  M +K+E+ T RL EI   K         
Sbjct: 100 P---QPSTSTVRSIISSLSSRFNPNALVYNLNMGSKLEEITARLHEISTQKGDLDLRENV 156

Query: 141 ----------------------------EKEETVKLLLRDDLRTDDGLSVIPIIGTGRIG 172
                                       +KE  +++LLRD+   D+ + VIPI+G G +G
Sbjct: 157 EERSNRKRKRVPETTSLVVESRVYGRETDKEAILEVLLRDESIHDNEVCVIPIVGMGGVG 216

Query: 173 KTTLAQLAYSDVRVHNHFDLKAWTCVSEDFDIIRVTKSILKSIASDQLVDDHDLNLLQ-- 230
           KTTLAQLAY D RV NHFDL+AW CVS+DFD++R+TK++L+SIAS    + +DLNLLQ  
Sbjct: 217 KTTLAQLAYHDDRVKNHFDLRAWVCVSDDFDVLRITKTLLQSIAS-YAREINDLNLLQVK 275

Query: 231 --------------------KYNDWTNRSRLFEAGAPGSKIVFTTRNLGVAEKMGPLPAY 270
                                Y+ W        AG PGSK++ TTRN+GVA     +  Y
Sbjct: 276 LKEKLSGKKFLLVLDDVWNENYDKWDRLCTPLRAGGPGSKVIITTRNMGVASLTRTVSPY 335

Query: 271 PLKELSNDDCLSVFSPHSLGEKDFSTHPSLKEIGEKIVKKCNGLPLVAKSLGGLLRGFLN 330
           PL+ELSNDDC +VF+ H+LG ++F  HP +K IGE++V +C GLPLVAK+LGG+LR  LN
Sbjct: 336 PLQELSNDDCRAVFAQHALGARNFEAHPHVKIIGEEMVNRCRGLPLVAKALGGILRNELN 395

Query: 331 HES 333
           HE+
Sbjct: 396 HEA 398

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147766792|emb|CAN69685.1| hypothetical protein VITISV_039904 [Vitis vinifera]

 Score =  285 bits (728), Expect = 4e-74,   Method: Compositional matrix adjust.
 Identities = 159/365 (43%), Positives = 217/365 (59%), Gaps = 62/365 (16%)

Query: 29   DEWKKILVKINEVLDDAEEKQNTEQSVKMWLGDLQNLAYDVDDLLDELETEAFRRNLMFQ 88
            ++WKKIL+KI  VL DAEEKQ T+  VKMWL +L +LAYDV+D+LD   T+A RRNLM +
Sbjct: 969  NKWKKILMKIYAVLHDAEEKQMTDPLVKMWLDELGDLAYDVEDILDGFVTQALRRNLMAE 1028

Query: 89   -EPAAAQTTTTKFRRLIPSCCTNFSPQAIKFDHMMAAKIEDRTIRLQEIEKDK------- 140
              P+  Q +T+K R LIPSCCT+F+P AIKF+  M +KI+  T RLQEI   K       
Sbjct: 1029 THPSGTQPSTSKLRSLIPSCCTSFTPNAIKFNAEMWSKIKKITARLQEISAQKNDLHLRE 1088

Query: 141  ------------------------------EKEETVKLLLRDDLRTDDGLSVIPIIGTGR 170
                                          +K     LLLRDD  TD+ + VIP++G   
Sbjct: 1089 NIAGESSTKTREILPTTSLVDESRVYGRETDKAAIANLLLRDDPCTDE-VCVIPVVGMAG 1147

Query: 171  IGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDFDIIRVTKSILKSIASDQLVDDHDLNLLQ 230
            IGKTTLAQLA++D  +  HFDL+ W  VS+DFD++++TK+IL+S++ +   D +DLNLLQ
Sbjct: 1148 IGKTTLAQLAFNDDEIKAHFDLRVWVYVSDDFDVLKITKTILQSVSPNT-QDVNDLNLLQ 1206

Query: 231  ----------------------KYNDWTNRSRLFEAGAPGSKIVFTTRNLGVAEKMGPLP 268
                                   ++ W        +G PGSK++ TTRN GVA       
Sbjct: 1207 MTLREGLSGKKFLLILDDVWNENFDSWDFLCMPMRSGEPGSKLIVTTRNEGVASITRTYR 1266

Query: 269  AYPLKELSNDDCLSVFSPHSLGEKDFSTHPSLKEIGEKIVKKCNGLPLVAKSLGGLLRGF 328
            AY L EL+  DCLSVF+  +LG+ +F  H  LKE+GE+IV++C GLPL AK+LGG+LR  
Sbjct: 1267 AYRLHELAYKDCLSVFTQQALGKSNFDAHSHLKEVGEEIVRRCKGLPLAAKALGGMLRNQ 1326

Query: 329  LNHES 333
            ++H++
Sbjct: 1327 VSHDA 1331

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225465831|ref|XP_002264750.1| PREDICTED: putative disease resistance RPP13-like protein 1-like [Vitis vinifera]

 Score =  284 bits (726), Expect = 5e-74,   Method: Compositional matrix adjust.
 Identities = 160/366 (43%), Positives = 216/366 (59%), Gaps = 64/366 (17%)

Query: 29  DEWKKILVKINEVLDDAEEKQNTEQSVKMWLGDLQNLAYDVDDLLDELETEAFRRNLMFQ 88
           ++WK IL+KI  VL DAEEKQ T   VKMWL +L +LAYDV+D+LD   TE+ RRNLM +
Sbjct: 40  NKWKTILMKIYAVLHDAEEKQMTNPRVKMWLDELGDLAYDVEDILDGFATESLRRNLMAE 99

Query: 89  -EPAAAQTTTTKFRRLIPSCCTNFSPQAIKFDHMMAAKIEDRTIRLQEIEKDK------- 140
             P+  + +T+K   LIPSCCT+F+P AIKF+  M +KI+  T  LQEI   K       
Sbjct: 100 THPSGTERSTSKLWSLIPSCCTSFTPNAIKFNAEMLSKIKMITTSLQEISAQKSDLHLTE 159

Query: 141 ------------------------------EKEETVKLLLRDDLRTDDGLSVIPIIGTGR 170
                                         +KE    LLLRDD  TD+ + VIP++G   
Sbjct: 160 NISGERSTKTREILPTTSLVDESRVYGRETDKEAIANLLLRDDPSTDE-ICVIPVVGMAG 218

Query: 171 IGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDFDIIRVTKSILKSIA-SDQLVDDHDLNLL 229
           IGKTTL QLA++D  V +HFDL+ W  VS+DFD++++TK+IL+S++ + Q VDD  LNLL
Sbjct: 219 IGKTTLTQLAFNDDEVKDHFDLRVWVYVSDDFDVLKITKTILQSVSLATQNVDD--LNLL 276

Query: 230 Q----------------------KYNDWTNRSRLFEAGAPGSKIVFTTRNLGVAEKMGPL 267
           Q                       Y+ W        +GAPGSK++ TTRN GV    G  
Sbjct: 277 QMELREKLSGQKFLLILDDVWNESYDSWDLLCMPMRSGAPGSKLIVTTRNEGVVSITGTR 336

Query: 268 PAYPLKELSNDDCLSVFSPHSLGEKDFSTHPSLKEIGEKIVKKCNGLPLVAKSLGGLLRG 327
           PAY L+ELS +DCL VF+  +L   +F  H  LKE+GE+IV++C GLPL AK+LGG+LR 
Sbjct: 337 PAYCLQELSYEDCLFVFTQQALRRSNFDAHSHLKEVGEEIVRRCKGLPLAAKALGGMLRN 396

Query: 328 FLNHES 333
            ++H++
Sbjct: 397 QVSHDA 402

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	385
UNIPROTKB|O48647	1802	O48647 "XA1" [Oryza sativa (ta	0.218	0.046	0.369	1.3e-19
TAIR|locus:2091662	1424	AT3G14460 [Arabidopsis thalian	0.179	0.048	0.385	2.6e-18
TAIR|locus:2091672	1054	AT3G14470 [Arabidopsis thalian	0.236	0.086	0.365	4.5e-17
TAIR|locus:504956483	847	AT3G46730 [Arabidopsis thalian	0.233	0.106	0.315	5.6e-12
TAIR|locus:2078012	852	ZAR1 "HOPZ-ACTIVATED RESISTANC	0.189	0.085	0.306	9e-12
TAIR|locus:504956182	1049	AT1G58848 [Arabidopsis thalian	0.145	0.053	0.392	2.5e-11
TAIR|locus:2826978	1049	AT1G59218 [Arabidopsis thalian	0.145	0.053	0.392	2.5e-11
TAIR|locus:504956184	1017	AT1G58807 "AT1G58807" [Arabido	0.145	0.055	0.392	2.9e-11
TAIR|locus:2827038	1017	AT1G59124 "AT1G59124" [Arabido	0.145	0.055	0.392	2.9e-11
TAIR|locus:2037639	907	AT1G58390 "AT1G58390" [Arabido	0.166	0.070	0.375	4.5e-11

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

 Score = 164 (62.8 bits), Expect = 1.3e-19, Sum P(3) = 1.3e-19
 Identities = 31/84 (36%), Positives = 55/84 (65%)

Query:   159 GLSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDFDIIRVTKSILKSIASD 218
             G++V+PI+G G IGKTTLAQL   D+ + + F++K W  VS+ FD++++T+ IL  +++ 
Sbjct:   318 GITVLPIVGNGGIGKTTLAQLVCKDLVIKSQFNVKIWVYVSDKFDVVKITRQILDHVSNQ 377

Query:   219 QLVDDHDLNLLQKYNDWTNRSRLF 242
                   +L+ LQ+  +   +S+ F
Sbjct:   378 SHEGISNLDTLQQDLEEQMKSKKF 401

GO:0006915 "apoptotic process" evidence=IGI

GO:0006952 "defense response" evidence=IGI

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

 Score = 140 (54.3 bits), Expect = 2.6e-18, Sum P(4) = 2.6e-18
 Identities = 27/70 (38%), Positives = 44/70 (62%)

Query:   161 SVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDFDIIRVTKSILKSIASDQL 220
             +VI ++G   +GKTTL ++ ++D RV  HF++K W     +F++  VTK++L+ I S   
Sbjct:   194 AVISVVGMPGVGKTTLTEIVFNDYRVTEHFEVKMWISAGINFNVFTVTKAVLQDITSSA- 252

Query:   221 VDDHDLNLLQ 230
             V+  DL  LQ
Sbjct:   253 VNTEDLPSLQ 262

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 = 172 (65.6 bits), Expect = 4.5e-17, Sum P(3) = 4.5e-17
 Identities = 34/93 (36%), Positives = 59/93 (63%)

Query:   138 KDKEKEETVKXXXXXXXXXXXGLSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTC 197
             +D +K+E ++           G++V+ I+G G +GKTTL+QL Y+D  V ++F  K W  
Sbjct:   175 RDDDKDEIMRFLIPENGKDN-GITVVAIVGIGGVGKTTLSQLLYNDQHVRSYFGTKVWAH 233

Query:   198 VSEDFDIIRVTKSILKSIASDQLVDDHDLNLLQ 230
             VSE+FD+ ++TK + +S+ S +  +  DL++LQ
Sbjct:   234 VSEEFDVFKITKKVYESVTS-RPCEFTDLDVLQ 265

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:504956483 AT3G46730 [Arabidopsis thaliana (taxid:3702)]

 Score = 118 (46.6 bits), Expect = 5.6e-12, Sum P(4) = 5.6e-12
 Identities = 29/92 (31%), Positives = 48/92 (52%)

Query:   235 WTNRSRLFEAGAPGSKIVFTTRNLGVAEKM-GPLPAYPLKELSNDDCLSVFSPHSLGEKD 293
             W +  R       GSK++ TTR   +AE + G + A+ L+ L+ ++  ++F   +    +
Sbjct:   286 WESLKRALPCDHRGSKVIITTRIRAIAEGVEGTVYAHKLRFLTFEESWTLFERKAFSNIE 345

Query:   294 FSTHPSLKEIGEKIVKKCNGLPLVAKSLGGLL 325
                   L+  G+++VKKC GLPL    L GLL
Sbjct:   346 -KVDEDLQRTGKEMVKKCGGLPLAIVVLSGLL 376

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

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 117 (46.2 bits), Expect = 9.0e-12, Sum P(3) = 9.0e-12
 Identities = 23/75 (30%), Positives = 44/75 (58%)

Query:   160 LSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDFDIIRVTKSILKSIASDQ 219
             L ++  +G G +GKTT+AQ  ++D  + + F+ + W  VS+ F   ++ +SIL+++    
Sbjct:   182 LLIMAFVGMGGLGKTTIAQEVFNDKEIEHRFERRIWVSVSQTFTEEQIMRSILRNLGDAS 241

Query:   220 LVDDHD--LNLLQKY 232
             + DD    L  +Q+Y
Sbjct:   242 VGDDIGTLLRKIQQY 256

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 113 (44.8 bits), Expect = 2.5e-11, Sum P(3) = 2.5e-11
 Identities = 22/56 (39%), Positives = 35/56 (62%)

Query:   160 LSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDFDIIRVTKSILKSI 215
             + V+ I G G +GKTTLA+  ++   V + FD  +W CVS+DF  + V + IL+ +
Sbjct:   183 VQVVSITGMGGLGKTTLAKQVFNHEDVKHQFDGLSWVCVSQDFTRMNVWQKILRDL 238

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2826978 AT1G59218 [Arabidopsis thaliana (taxid:3702)]

 Score = 113 (44.8 bits), Expect = 2.5e-11, Sum P(3) = 2.5e-11
 Identities = 22/56 (39%), Positives = 35/56 (62%)

Query:   160 LSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDFDIIRVTKSILKSI 215
             + V+ I G G +GKTTLA+  ++   V + FD  +W CVS+DF  + V + IL+ +
Sbjct:   183 VQVVSITGMGGLGKTTLAKQVFNHEDVKHQFDGLSWVCVSQDFTRMNVWQKILRDL 238

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:504956184 AT1G58807 "AT1G58807" [Arabidopsis thaliana (taxid:3702)]

 Score = 113 (44.8 bits), Expect = 2.9e-11, Sum P(3) = 2.9e-11
 Identities = 22/56 (39%), Positives = 35/56 (62%)

Query:   160 LSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDFDIIRVTKSILKSI 215
             + V+ I G G +GKTTLA+  ++   V + FD  +W CVS+DF  + V + IL+ +
Sbjct:   183 VQVVSITGMGGLGKTTLAKQVFNHEDVKHQFDGLSWVCVSQDFTRMNVWQKILRDL 238

GO:0005575 "cellular_component" evidence=ND

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2827038 AT1G59124 "AT1G59124" [Arabidopsis thaliana (taxid:3702)]

 Score = 113 (44.8 bits), Expect = 2.9e-11, Sum P(3) = 2.9e-11
 Identities = 22/56 (39%), Positives = 35/56 (62%)

Query:   160 LSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDFDIIRVTKSILKSI 215
             + V+ I G G +GKTTLA+  ++   V + FD  +W CVS+DF  + V + IL+ +
Sbjct:   183 VQVVSITGMGGLGKTTLAKQVFNHEDVKHQFDGLSWVCVSQDFTRMNVWQKILRDL 238

GO:0005575 "cellular_component" evidence=ND

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2037639 AT1G58390 "AT1G58390" [Arabidopsis thaliana (taxid:3702)]

 Score = 117 (46.2 bits), Expect = 4.5e-11, Sum P(3) = 4.5e-11
 Identities = 24/64 (37%), Positives = 39/64 (60%)

Query:   160 LSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDFDIIRVTKSILKSIASDQ 219
             + V+ I G G +GKTTLA+  ++   V + FD  AW CVS++F    V + IL+++ S +
Sbjct:   183 VQVVSITGMGGLGKTTLARQVFNHEDVKHQFDRLAWVCVSQEFTRKNVWQMILQNLTSRE 242

Query:   220 LVDD 223
               D+
Sbjct:   243 KKDE 246

GO:0005575 "cellular_component" evidence=ND

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

GO:0043531 "ADP binding" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: GSVIVG00030904001 SubName- Full=Chromosome undetermined scaffold_53, whole genome shotgun sequence; (1147 aa) (Vitis vinifera)

Predicted Functional Partners:

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

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	385
pfam00931	285	pfam00931, NB-ARC, NB-ARC domain	5e-37

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

 Score =  135 bits (341), Expect = 5e-37
 Identities = 73/256 (28%), Positives = 108/256 (42%), Gaps = 46/256 (17%)

Query: 139 DKEKEETVKLLLRDDLRTDDGLSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCV 198
           +   E  ++ LL       D L V+ I+G G +GKTTLA+  Y+D  V  HFD  AW  V
Sbjct: 2   EDMIEALIEKLLEMS----DNLGVVGIVGMGGVGKTTLAKQIYNDDSVGGHFDSVAWVVV 57

Query: 199 SEDFDIIRVTKSILKSIAS-DQLVDDHDLNLLQK--------------------YNDWTN 237
           S+ +   R+ K IL+ +   D    + + + L                       NDW  
Sbjct: 58  SKTYTEFRLQKDILQELGLDDSDWVEKNESELAVKIKEALLRKRFLLVLDDVWEKNDWDK 117

Query: 238 RSRLFEAGAPGSKIVFTTRNLGVAEKMGPLP-AYPLKELSNDDCLSVFSPHSLGEKDFST 296
               F  G  GS+++ TTR+  VA +MG     + ++ L  ++   +FS     EK+   
Sbjct: 118 IGVPFPDGENGSRVIVTTRSESVAGRMGGTSKPHEVESLEPEESWELFSNKV-FEKELPP 176

Query: 297 HPSLKEIGEKIVKKCNGLPLVAKSLGGLLRGFLNHESDKKQMENLGRKYFQELYSRLFFQ 356
            P L+E+ ++IV+KC GLPL  K LGGLL          K          ++L       
Sbjct: 177 CPELEEVAKEIVEKCKGLPLALKVLGGLLA--------FKSTVQEWEHVLEQL------- 221

Query: 357 LSSSNKSLFVMHDLNN 372
               N  L     LN 
Sbjct: 222 ----NNELAGRDGLNE 233

Length = 285

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	385
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	100.0
PLN03210	1153	Resistant to P. syringae 6; Provisional	99.96
PF00931	287	NB-ARC: NB-ARC domain; InterPro: IPR002182 This is	99.96
PRK04841	903	transcriptional regulator MalT; Provisional	99.1
PRK06893	229	DNA replication initiation factor; Validated	98.72
TIGR03015	269	pepcterm_ATPase putative secretion ATPase, PEP-CTE	98.71
PF05729	166	NACHT: NACHT domain	98.6
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	98.5
PRK00411	394	cdc6 cell division control protein 6; Reviewed	98.39
TIGR03420	226	DnaA_homol_Hda DnaA regulatory inactivator Hda. Me	98.38
PF13173	128	AAA_14: AAA domain	98.37
PRK00080	328	ruvB Holliday junction DNA helicase RuvB; Reviewed	98.36
TIGR00635	305	ruvB Holliday junction DNA helicase, RuvB subunit.	98.33
PRK08727	233	hypothetical protein; Validated	98.24
PRK08084	235	DNA replication initiation factor; Provisional	98.23
PF01637	234	Arch_ATPase: Archaeal ATPase; InterPro: IPR011579	98.22
COG2256	436	MGS1 ATPase related to the helicase subunit of the	98.11
cd01128	249	rho_factor Transcription termination factor rho is	98.1
TIGR02928	365	orc1/cdc6 family replication initiation protein. M	98.07
PRK09376	416	rho transcription termination factor Rho; Provisio	98.05
PRK05564	313	DNA polymerase III subunit delta'; Validated	98.03
PRK05642	234	DNA replication initiation factor; Validated	98.02
PRK13342	413	recombination factor protein RarA; Reviewed	97.97
PRK09087	226	hypothetical protein; Validated	97.95
PRK08118	167	topology modulation protein; Reviewed	97.73
PRK14961	363	DNA polymerase III subunits gamma and tau; Provisi	97.72
PF00308	219	Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013	97.7
PF05496	233	RuvB_N: Holliday junction DNA helicase ruvB N-term	97.7
PRK12402	337	replication factor C small subunit 2; Reviewed	97.69
COG3903	414	Predicted ATPase [General function prediction only	97.68
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	97.61
KOG2028	554	consensus ATPase related to the helicase subunit o	97.6
TIGR00767	415	rho transcription termination factor Rho. Members	97.6
CHL00181	287	cbbX CbbX; Provisional	97.57
TIGR02903	615	spore_lon_C ATP-dependent protease, Lon family. Me	97.57
PRK12323	700	DNA polymerase III subunits gamma and tau; Provisi	97.57
PRK07003	830	DNA polymerase III subunits gamma and tau; Validat	97.57
PRK06645	507	DNA polymerase III subunits gamma and tau; Validat	97.57
TIGR00678	188	holB DNA polymerase III, delta' subunit. At positi	97.55
TIGR02881	261	spore_V_K stage V sporulation protein K. Members o	97.51
TIGR02880	284	cbbX_cfxQ probable Rubsico expression protein CbbX	97.51
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	97.5
PRK00440	319	rfc replication factor C small subunit; Reviewed	97.49
PRK14949	944	DNA polymerase III subunits gamma and tau; Provisi	97.48
PRK13341	725	recombination factor protein RarA/unknown domain f	97.45
PLN03025	319	replication factor C subunit; Provisional	97.45
PRK14963	504	DNA polymerase III subunits gamma and tau; Provisi	97.43
COG1373	398	Predicted ATPase (AAA+ superfamily) [General funct	97.39
PTZ00202	550	tuzin; Provisional	97.38
PRK14087	450	dnaA chromosomal replication initiation protein; P	97.37
PRK14962	472	DNA polymerase III subunits gamma and tau; Provisi	97.33
TIGR01242	364	26Sp45 26S proteasome subunit P45 family. Many pro	97.32
PRK08903	227	DnaA regulatory inactivator Hda; Validated	97.31
PRK07940	394	DNA polymerase III subunit delta'; Validated	97.3
COG2255	332	RuvB Holliday junction resolvasome, helicase subun	97.3
PRK11331	459	5-methylcytosine-specific restriction enzyme subun	97.3
PF05621	302	TniB: Bacterial TniB protein; InterPro: IPR008868	97.28
PRK14957	546	DNA polymerase III subunits gamma and tau; Provisi	97.27
COG0593	408	DnaA ATPase involved in DNA replication initiation	97.26
PRK14960	702	DNA polymerase III subunits gamma and tau; Provisi	97.26
PRK14086	617	dnaA chromosomal replication initiation protein; P	97.26
PRK14956	484	DNA polymerase III subunits gamma and tau; Provisi	97.21
PF13207	121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	97.2
PF13191	185	AAA_16: AAA ATPase domain; PDB: 2V1U_A.	97.2
PRK06620	214	hypothetical protein; Validated	97.17
PRK07261	171	topology modulation protein; Provisional	97.16
PRK04195	482	replication factor C large subunit; Provisional	97.14
TIGR02397	355	dnaX_nterm DNA polymerase III, subunit gamma and t	97.13
PRK14958	509	DNA polymerase III subunits gamma and tau; Provisi	97.11
PRK14955	397	DNA polymerase III subunits gamma and tau; Provisi	97.11
PRK07994	647	DNA polymerase III subunits gamma and tau; Validat	97.1
PTZ00112	1164	origin recognition complex 1 protein; Provisional	97.08
PRK14951	618	DNA polymerase III subunits gamma and tau; Provisi	97.08
PRK14964	491	DNA polymerase III subunits gamma and tau; Provisi	97.08
PRK07764	824	DNA polymerase III subunits gamma and tau; Validat	97.04
PRK00149	450	dnaA chromosomal replication initiation protein; R	97.03
PRK14088	440	dnaA chromosomal replication initiation protein; P	97.0
PRK12422	445	chromosomal replication initiation protein; Provis	96.98
PRK14959	624	DNA polymerase III subunits gamma and tau; Provisi	96.96
PRK08691	709	DNA polymerase III subunits gamma and tau; Validat	96.93
TIGR00362	405	DnaA chromosomal replication initiator protein Dna	96.91
PRK05896	605	DNA polymerase III subunits gamma and tau; Validat	96.91
PRK05707	328	DNA polymerase III subunit delta'; Validated	96.9
PRK09111	598	DNA polymerase III subunits gamma and tau; Validat	96.83
PRK07471	365	DNA polymerase III subunit delta'; Validated	96.83
PRK14969	527	DNA polymerase III subunits gamma and tau; Provisi	96.83
PRK09112	351	DNA polymerase III subunit delta'; Validated	96.8
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	96.78
PRK06696	223	uridine kinase; Validated	96.77
PTZ00361	438	26 proteosome regulatory subunit 4-like protein; P	96.68
smart00763	361	AAA_PrkA PrkA AAA domain. This is a family of PrkA	96.66
PRK14950	585	DNA polymerase III subunits gamma and tau; Provisi	96.65
PRK05703	424	flhF flagellar biosynthesis regulator FlhF; Valida	96.64
PRK08181	269	transposase; Validated	96.63
PRK03992	389	proteasome-activating nucleotidase; Provisional	96.61
PF13238	129	AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB	96.57
KOG0741	744	consensus AAA+-type ATPase [Posttranslational modi	96.57
COG0466	782	Lon ATP-dependent Lon protease, bacterial type [Po	96.56
PHA02544	316	44 clamp loader, small subunit; Provisional	96.55
cd01878	204	HflX HflX subfamily. A distinct conserved domain w	96.55
PRK07667	193	uridine kinase; Provisional	96.54
COG1618	179	Predicted nucleotide kinase [Nucleotide transport	96.53
PRK14954	620	DNA polymerase III subunits gamma and tau; Provisi	96.52
PRK14970	367	DNA polymerase III subunits gamma and tau; Provisi	96.51
PF00485	194	PRK: Phosphoribulokinase / Uridine kinase family;	96.48
PRK08233	182	hypothetical protein; Provisional	96.48
PRK14953	486	DNA polymerase III subunits gamma and tau; Provisi	96.46
PRK05480	209	uridine/cytidine kinase; Provisional	96.44
KOG0989	346	consensus Replication factor C, subunit RFC4 [Repl	96.43
PRK14952	584	DNA polymerase III subunits gamma and tau; Provisi	96.42
PRK05541	176	adenylylsulfate kinase; Provisional	96.39
PF13671	143	AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1	96.38
PTZ00301	210	uridine kinase; Provisional	96.38
COG1222	406	RPT1 ATP-dependent 26S proteasome regulatory subun	96.34
PRK14971	614	DNA polymerase III subunits gamma and tau; Provisi	96.33
smart00382	148	AAA ATPases associated with a variety of cellular	96.33
COG1474	366	CDC6 Cdc6-related protein, AAA superfamily ATPase	96.32
TIGR00235	207	udk uridine kinase. Model contains a number of lon	96.29
cd01123	235	Rad51_DMC1_radA Rad51_DMC1_radA,B. This group of r	96.29
PRK06762	166	hypothetical protein; Provisional	96.28
cd02019	69	NK Nucleoside/nucleotide kinase (NK) is a protein	96.28
TIGR02237	209	recomb_radB DNA repair and recombination protein R	96.26
TIGR00763	775	lon ATP-dependent protease La. This protein is ind	96.25
PRK06547	172	hypothetical protein; Provisional	96.24
PRK08769	319	DNA polymerase III subunit delta'; Validated	96.24
PF00004	132	AAA: ATPase family associated with various cellula	96.22
KOG2004	906	consensus Mitochondrial ATP-dependent protease PIM	96.22
PRK09270	229	nucleoside triphosphate hydrolase domain-containin	96.19
PRK08116	268	hypothetical protein; Validated	96.18
PHA00729	226	NTP-binding motif containing protein	96.16
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	96.16
PRK12377	248	putative replication protein; Provisional	96.14
PF14516	331	AAA_35: AAA-like domain	96.12
TIGR01360	188	aden_kin_iso1 adenylate kinase, isozyme 1 subfamil	96.09
PRK08451	535	DNA polymerase III subunits gamma and tau; Validat	96.08
PRK03839	180	putative kinase; Provisional	96.07
PRK14965	576	DNA polymerase III subunits gamma and tau; Provisi	96.05
PRK06526	254	transposase; Provisional	96.04
COG0467	260	RAD55 RecA-superfamily ATPases implicated in signa	96.02
COG0572	218	Udk Uridine kinase [Nucleotide transport and metab	95.99
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	95.94
PRK04040	188	adenylate kinase; Provisional	95.94
TIGR00554	290	panK_bact pantothenate kinase, bacterial type. Sho	95.92
PRK14948	620	DNA polymerase III subunits gamma and tau; Provisi	95.92
PRK07133	725	DNA polymerase III subunits gamma and tau; Validat	95.91
cd02023	198	UMPK Uridine monophosphate kinase (UMPK, EC 2.7.1.	95.9
PF00448	196	SRP54: SRP54-type protein, GTPase domain; InterPro	95.89
PF07728	139	AAA_5: AAA domain (dynein-related subfamily); Inte	95.88
PRK06090	319	DNA polymerase III subunit delta'; Validated	95.87
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	95.86
TIGR02322	179	phosphon_PhnN phosphonate metabolism protein/1,5-b	95.84
PRK06305	451	DNA polymerase III subunits gamma and tau; Validat	95.83
TIGR03689	512	pup_AAA proteasome ATPase. In the Actinobacteria,	95.83
PRK10787	784	DNA-binding ATP-dependent protease La; Provisional	95.83
TIGR01359	183	UMP_CMP_kin_fam UMP-CMP kinase family. This subfam	95.81
cd02025	220	PanK Pantothenate kinase (PanK) catalyzes the phos	95.8
cd01394	218	radB RadB. The archaeal protein radB shares simila	95.79
cd01393	226	recA_like RecA is a bacterial enzyme which has rol	95.78
PRK00131	175	aroK shikimate kinase; Reviewed	95.78
PRK06647	563	DNA polymerase III subunits gamma and tau; Validat	95.78
PRK08058	329	DNA polymerase III subunit delta'; Validated	95.76
PTZ00454	398	26S protease regulatory subunit 6B-like protein; P	95.76
PRK10751	173	molybdopterin-guanine dinucleotide biosynthesis pr	95.75
PF00625	183	Guanylate_kin: Guanylate kinase; InterPro: IPR0081	95.74
PRK00625	173	shikimate kinase; Provisional	95.74
PRK09361	225	radB DNA repair and recombination protein RadB; Pr	95.73
cd02024	187	NRK1 Nicotinamide riboside kinase (NRK) is an enzy	95.71
TIGR03263	180	guanyl_kin guanylate kinase. Members of this famil	95.7
PRK05439	311	pantothenate kinase; Provisional	95.68
PRK00889	175	adenylylsulfate kinase; Provisional	95.66
PRK06871	325	DNA polymerase III subunit delta'; Validated	95.65
TIGR00150	133	HI0065_YjeE ATPase, YjeE family. Members of this f	95.65
PF00910	107	RNA_helicase: RNA helicase; InterPro: IPR000605 He	95.64
PRK10865	857	protein disaggregation chaperone; Provisional	95.63
cd02028	179	UMPK_like Uridine monophosphate kinase_like (UMPK_	95.62
PF01583	156	APS_kinase: Adenylylsulphate kinase; InterPro: IPR	95.61
KOG0730	693	consensus AAA+-type ATPase [Posttranslational modi	95.6
KOG1532	366	consensus GTPase XAB1, interacts with DNA repair p	95.6
cd02021	150	GntK Gluconate kinase (GntK) catalyzes the phospho	95.55
cd00227	175	CPT Chloramphenicol (Cm) phosphotransferase (CPT).	95.54
PF03193	161	DUF258: Protein of unknown function, DUF258; Inter	95.54
PRK06217	183	hypothetical protein; Validated	95.53
PRK14738	206	gmk guanylate kinase; Provisional	95.53
PF03205	140	MobB: Molybdopterin guanine dinucleotide synthesis	95.51
COG1936	180	Predicted nucleotide kinase (related to CMP and AM	95.51
PF08477	119	Miro: Miro-like protein; InterPro: IPR013684 Mitoc	95.48
TIGR02236	310	recomb_radA DNA repair and recombination protein R	95.48
PRK03846	198	adenylylsulfate kinase; Provisional	95.46
PRK15455	644	PrkA family serine protein kinase; Provisional	95.44
PRK10865	857	protein disaggregation chaperone; Provisional	95.44
cd02020	147	CMPK Cytidine monophosphate kinase (CMPK) catalyze	95.43
KOG0728	404	consensus 26S proteasome regulatory complex, ATPas	95.42
PRK00300	205	gmk guanylate kinase; Provisional	95.42
COG0563	178	Adk Adenylate kinase and related kinases [Nucleoti	95.4
PF04665	241	Pox_A32: Poxvirus A32 protein; InterPro: IPR006758	95.4
COG0194	191	Gmk Guanylate kinase [Nucleotide transport and met	95.39
cd01120	165	RecA-like_NTPases RecA-like NTPases. This family i	95.39
COG2019	189	AdkA Archaeal adenylate kinase [Nucleotide transpo	95.37
PRK07993	334	DNA polymerase III subunit delta'; Validated	95.35
TIGR01241	495	FtsH_fam ATP-dependent metalloprotease FtsH. HflB(	95.33
COG1126	240	GlnQ ABC-type polar amino acid transport system, A	95.32
PRK11889	436	flhF flagellar biosynthesis regulator FlhF; Provis	95.32
PRK14530	215	adenylate kinase; Provisional	95.29
COG1428	216	Deoxynucleoside kinases [Nucleotide transport and	95.29
cd00071	137	GMPK Guanosine monophosphate kinase (GMPK, EC 2.7.	95.29
PRK13947	171	shikimate kinase; Provisional	95.28
PRK10078	186	ribose 1,5-bisphosphokinase; Provisional	95.28
KOG0731	774	consensus AAA+-type ATPase containing the peptidas	95.27
TIGR00073	207	hypB hydrogenase accessory protein HypB. HypB is i	95.26
PF03266	168	NTPase_1: NTPase; InterPro: IPR004948 This entry r	95.23
KOG0734	752	consensus AAA+-type ATPase containing the peptidas	95.2
PRK13949	169	shikimate kinase; Provisional	95.19
PF03308	266	ArgK: ArgK protein; InterPro: IPR005129 Bacterial	95.19
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	95.16
PF00005	137	ABC_tran: ABC transporter This structure is on hol	95.15
PF07726	131	AAA_3: ATPase family associated with various cellu	95.15
PRK12339	197	2-phosphoglycerate kinase; Provisional	95.14
CHL00095	821	clpC Clp protease ATP binding subunit	95.13
PRK14737	186	gmk guanylate kinase; Provisional	95.12
PLN02348	395	phosphoribulokinase	95.12
PRK12723	388	flagellar biosynthesis regulator FlhF; Provisional	95.12
PF14532	138	Sigma54_activ_2: Sigma-54 interaction domain; PDB:	95.12
cd02027	149	APSK Adenosine 5'-phosphosulfate kinase (APSK) cat	95.11
PRK07399	314	DNA polymerase III subunit delta'; Validated	95.11
) 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	95.11
cd00464	154	SK Shikimate kinase (SK) is the fifth enzyme in th	95.09
PRK05973	237	replicative DNA helicase; Provisional	95.09
PRK13975	196	thymidylate kinase; Provisional	95.09
COG1102	179	Cmk Cytidylate kinase [Nucleotide transport and me	95.08
PRK04301	317	radA DNA repair and recombination protein RadA; Va	95.08
TIGR01313	163	therm_gnt_kin carbohydrate kinase, thermoresistant	95.05
cd00820	107	PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPC	95.03
KOG3308	225	consensus Uncharacterized protein of the uridine k	95.02
PRK14527	191	adenylate kinase; Provisional	95.01
KOG1969	877	consensus DNA replication checkpoint protein CHL12	95.0
PLN02200	234	adenylate kinase family protein	94.98
TIGR00064	272	ftsY signal recognition particle-docking protein F	94.97
COG1124	252	DppF ABC-type dipeptide/oligopeptide/nickel transp	94.97
PF08423	256	Rad51: Rad51; InterPro: IPR013632 This domain is f	94.96
TIGR00176	155	mobB molybdopterin-guanine dinucleotide biosynthes	94.95
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	94.94
COG1703	323	ArgK Putative periplasmic protein kinase ArgK and	94.94
TIGR02640	262	gas_vesic_GvpN gas vesicle protein GvpN. Members o	94.92
PRK05057	172	aroK shikimate kinase I; Reviewed	94.92
cd01124	187	KaiC KaiC is a circadian clock protein primarily f	94.89
COG0464	494	SpoVK ATPases of the AAA+ class [Posttranslational	94.83
PRK13531	498	regulatory ATPase RavA; Provisional	94.8
COG3640	255	CooC CO dehydrogenase maturation factor [Cell divi	94.78
KOG0744	423	consensus AAA+-type ATPase [Posttranslational modi	94.77
cd01672	200	TMPK Thymidine monophosphate kinase (TMPK), also k	94.77
TIGR03499	282	FlhF flagellar biosynthetic protein FlhF.	94.76
PRK08154	309	anaerobic benzoate catabolism transcriptional regu	94.76
COG1100	219	GTPase SAR1 and related small G proteins [General	94.76
TIGR00960	216	3a0501s02 Type II (General) Secretory Pathway (IIS	94.75
PRK12727	559	flagellar biosynthesis regulator FlhF; Provisional	94.75
PRK12726	407	flagellar biosynthesis regulator FlhF; Provisional	94.75
PF13521	163	AAA_28: AAA domain; PDB: 1LW7_A.	94.74
PF03029	238	ATP_bind_1: Conserved hypothetical ATP binding pro	94.73
PLN02318	656	phosphoribulokinase/uridine kinase	94.72
CHL00176	638	ftsH cell division protein; Validated	94.7
cd04139	164	RalA_RalB RalA/RalB subfamily. The Ral (Ras-like)	94.68
CHL00195	489	ycf46 Ycf46; Provisional	94.68
cd03297	214	ABC_ModC_molybdenum_transporter ModC is an ABC-typ	94.67
COG0237	201	CoaE Dephospho-CoA kinase [Coenzyme metabolism]	94.67
PRK08356	195	hypothetical protein; Provisional	94.67
PRK04182	180	cytidylate kinase; Provisional	94.66
PRK09825	176	idnK D-gluconate kinase; Provisional	94.66
TIGR01166	190	cbiO cobalt transport protein ATP-binding subunit.	94.65
cd03255	218	ABC_MJ0796_Lo1CDE_FtsE This family is comprised of	94.65
PRK13946	184	shikimate kinase; Provisional	94.64
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	94.63
PLN03187	344	meiotic recombination protein DMC1 homolog; Provis	94.63
PRK13948	182	shikimate kinase; Provisional	94.62
TIGR02673	214	FtsE cell division ATP-binding protein FtsE. This	94.62
PRK06964	342	DNA polymerase III subunit delta'; Validated	94.61
PF10662	143	PduV-EutP: Ethanolamine utilisation - propanediol	94.6
cd03269	210	ABC_putative_ATPase This subfamily is involved in	94.6
TIGR03156	351	GTP_HflX GTP-binding protein HflX. This protein fa	94.58
KOG3347	176	consensus Predicted nucleotide kinase/nuclear prot	94.56
PRK13695	174	putative NTPase; Provisional	94.56
KOG2543	438	consensus Origin recognition complex, subunit 5 [R	94.56
PF01926	116	MMR_HSR1: 50S ribosome-binding GTPase; InterPro: I	94.55
cd03265	220	ABC_DrrA DrrA is the ATP-binding protein component	94.55
PRK08699	325	DNA polymerase III subunit delta'; Validated	94.55
PRK09435	332	membrane ATPase/protein kinase; Provisional	94.55
TIGR02238	313	recomb_DMC1 meiotic recombinase Dmc1. This model d	94.55
cd01131	198	PilT Pilus retraction ATPase PilT. PilT is a nucle	94.52
cd01428	194	ADK Adenylate kinase (ADK) catalyzes the reversibl	94.51
COG2884	223	FtsE Predicted ATPase involved in cell division [C	94.51
PHA02244	383	ATPase-like protein	94.51
TIGR03574	249	selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal. Mem	94.5
PRK14532	188	adenylate kinase; Provisional	94.5
cd03222	177	ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibi	94.49
cd03225	211	ABC_cobalt_CbiO_domain1 Domain I of the ABC compon	94.49
PF10443	431	RNA12: RNA12 protein; InterPro: IPR018850 Mitochon	94.48
TIGR02173	171	cyt_kin_arch cytidylate kinase, putative. Proteins	94.48
PRK10416	318	signal recognition particle-docking protein FtsY;	94.47
PRK06761	282	hypothetical protein; Provisional	94.47
PRK00771	437	signal recognition particle protein Srp54; Provisi	94.46
PRK15453	290	phosphoribulokinase; Provisional	94.45
cd03229	178	ABC_Class3 This class is comprised of all BPD (Bin	94.44
KOG0738	491	consensus AAA+-type ATPase [Posttranslational modi	94.43
cd03221	144	ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is	94.41
TIGR03877	237	thermo_KaiC_1 KaiC domain protein, Ph0284 family.	94.41
cd03116	159	MobB Molybdenum is an essential trace element in t	94.41
PRK01184	184	hypothetical protein; Provisional	94.4
cd03293	220	ABC_NrtD_SsuB_transporters NrtD and SsuB are the A	94.4
TIGR02012	321	tigrfam_recA protein RecA. This model describes or	94.4
cd03264	211	ABC_drug_resistance_like ABC-type multidrug transp	94.38
PF03215	519	Rad17: Rad17 cell cycle checkpoint protein	94.38
smart00173	164	RAS Ras subfamily of RAS small GTPases. Similar in	94.37
PF13245	76	AAA_19: Part of AAA domain	94.37
COG3899	849	Predicted ATPase [General function prediction only	94.37
cd03263	220	ABC_subfamily_A The ABCA subfamily mediates the tr	94.36
cd00983	325	recA RecA is a bacterial enzyme which has roles in	94.36
TIGR03864	236	PQQ_ABC_ATP ABC transporter, ATP-binding subunit,	94.35
TIGR01425	429	SRP54_euk signal recognition particle protein SRP5	94.35
cd01862	172	Rab7 Rab7 subfamily. Rab7 is a small Rab GTPase th	94.34
cd03224	222	ABC_TM1139_LivF_branched LivF (TM1139) is part of	94.32
PRK14531	183	adenylate kinase; Provisional	94.31
COG1116	248	TauB ABC-type nitrate/sulfonate/bicarbonate transp	94.31
CHL00095	821	clpC Clp protease ATP binding subunit	94.31
PTZ00088	229	adenylate kinase 1; Provisional	94.3
cd04163	168	Era Era subfamily. Era (E. coli Ras-like protein)	94.3
TIGR00041	195	DTMP_kinase thymidylate kinase. Function: phosphor	94.3
COG0529	197	CysC Adenylylsulfate kinase and related kinases [I	94.29
TIGR01287	275	nifH nitrogenase iron protein. This model describe	94.29
cd04119	168	RJL RJL (RabJ-Like) subfamily. RJLs are found in m	94.28
cd03266	218	ABC_NatA_sodium_exporter NatA is the ATPase compon	94.27
cd03226	205	ABC_cobalt_CbiO_domain2 Domain II of the ABC compo	94.27
COG1084	346	Predicted GTPase [General function prediction only	94.27
PRK14493	274	putative bifunctional molybdopterin-guanine dinucl	94.27
cd02022	179	DPCK Dephospho-coenzyme A kinase (DPCK, EC 2.7.1.2	94.25
PLN02796	347	D-glycerate 3-kinase	94.24
TIGR02211	221	LolD_lipo_ex lipoprotein releasing system, ATP-bin	94.22
PRK10584	228	putative ABC transporter ATP-binding protein YbbA;	94.22
PRK13540	200	cytochrome c biogenesis protein CcmA; Provisional	94.22
PRK08099	399	bifunctional DNA-binding transcriptional repressor	94.21
smart00072	184	GuKc Guanylate kinase homologues. Active enzymes c	94.21
TIGR02315	243	ABC_phnC phosphonate ABC transporter, ATP-binding	94.21
PRK03731	171	aroL shikimate kinase II; Reviewed	94.2
cd01130	186	VirB11-like_ATPase Type IV secretory pathway compo	94.18
cd03218	232	ABC_YhbG The ABC transporters belonging to the Yhb	94.18
cd03235	213	ABC_Metallic_Cations ABC component of the metal-ty	94.17
COG1419	407	FlhF Flagellar GTP-binding protein [Cell motility	94.17
cd03301	213	ABC_MalK_N The N-terminal ATPase domain of the mal	94.17
PRK13973	213	thymidylate kinase; Provisional	94.17
cd03256	241	ABC_PhnC_transporter ABC-type phosphate/phosphonat	94.15
COG0125	208	Tmk Thymidylate kinase [Nucleotide transport and m	94.14
PRK06995	484	flhF flagellar biosynthesis regulator FlhF; Valida	94.14
PLN03186	342	DNA repair protein RAD51 homolog; Provisional	94.14
TIGR00231	161	small_GTP small GTP-binding protein domain. This m	94.14
cd02117	212	NifH_like This family contains the NifH (iron prot	94.13
COG0003	322	ArsA Predicted ATPase involved in chromosome parti	94.13
COG0468	279	RecA RecA/RadA recombinase [DNA replication, recom	94.12
TIGR03608	206	L_ocin_972_ABC putative bacteriocin export ABC tra	94.12
PHA02530	300	pseT polynucleotide kinase; Provisional	94.12
PRK05563	559	DNA polymerase III subunits gamma and tau; Validat	94.11
cd03230	173	ABC_DR_subfamily_A This family of ATP-binding prot	94.11
cd04155	173	Arl3 Arl3 subfamily. Arl3 (Arf-like 3) is an Arf f	94.11
PRK10247	225	putative ABC transporter ATP-binding protein YbbL;	94.1
PRK13236	296	nitrogenase reductase; Reviewed	94.1
cd04138	162	H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily. H-Ras,	94.1
PRK13538	204	cytochrome c biogenesis protein CcmA; Provisional	94.1
COG1120	258	FepC ABC-type cobalamin/Fe3+-siderophores transpor	94.1
PRK06067	234	flagellar accessory protein FlaH; Validated	94.09
smart00175	164	RAB Rab subfamily of small GTPases. Rab GTPases ar	94.09
PRK13974	212	thymidylate kinase; Provisional	94.09
cd03261	235	ABC_Org_Solvent_Resistant ABC (ATP-binding cassett	94.09
PF13177	162	DNA_pol3_delta2: DNA polymerase III, delta subunit	94.09
cd03296	239	ABC_CysA_sulfate_importer Part of the ABC transpor	94.07
PRK11629	233	lolD lipoprotein transporter ATP-binding subunit;	94.07
PF13086	236	AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV	94.06
cd04113	161	Rab4 Rab4 subfamily. Rab4 has been implicated in n	94.05
cd03259	213	ABC_Carb_Solutes_like ABC Carbohydrate and Solute	94.05
COG1763	161	MobB Molybdopterin-guanine dinucleotide biosynthes	94.04
PLN02165	334	adenylate isopentenyltransferase	94.03
TIGR02324	224	CP_lyasePhnL phosphonate C-P lyase system protein	94.03
TIGR01277	213	thiQ thiamine ABC transporter, ATP-binding protein	94.02
PRK12608	380	transcription termination factor Rho; Provisional	94.02
TIGR02528	142	EutP ethanolamine utilization protein, EutP. This	94.02
PRK13541	195	cytochrome c biogenesis protein CcmA; Provisional	94.01
TIGR01189	198	ccmA heme ABC exporter, ATP-binding protein CcmA.	94.01
PRK10463	290	hydrogenase nickel incorporation protein HypB; Pro	94.01
cd03115	173	SRP The signal recognition particle (SRP) mediates	94.01
TIGR01184	230	ntrCD nitrate transport ATP-binding subunits C and	94.01
cd01133	274	F1-ATPase_beta F1 ATP synthase beta subunit, nucle	94.0
cd03292	214	ABC_FtsE_transporter FtsE is a hydrophilic nucleot	93.99
COG4608	268	AppF ABC-type oligopeptide transport system, ATPas	93.99
cd04124	161	RabL2 RabL2 subfamily. RabL2 (Rab-like2) subfamily	93.98
PRK14974	336	cell division protein FtsY; Provisional	93.98
cd04136	163	Rap_like Rap-like subfamily. The Rap subfamily con	93.97
PF02374	305	ArsA_ATPase: Anion-transporting ATPase; PDB: 2WOO_	93.97
PRK14250	241	phosphate ABC transporter ATP-binding protein; Pro	93.97
PRK11124	242	artP arginine transporter ATP-binding subunit; Pro	93.97
PRK11248	255	tauB taurine transporter ATP-binding subunit; Prov	93.97
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	93.95
cd03219	236	ABC_Mj1267_LivG_branched The Mj1267/LivG ABC trans	93.95
cd01983	99	Fer4_NifH The Fer4_NifH superfamily contains a var	93.94
cd01864	165	Rab19 Rab19 subfamily. Rab19 proteins are associat	93.93
TIGR00455	184	apsK adenylylsulfate kinase (apsK). Important resi	93.92
PRK14528	186	adenylate kinase; Provisional	93.91
PRK09183	259	transposase/IS protein; Provisional	93.91
PF00406	151	ADK: Adenylate kinase; InterPro: IPR000850 Adenyla	93.9
cd04159	159	Arl10_like Arl10-like subfamily. Arl9/Arl10 was id	93.89
PRK13768	253	GTPase; Provisional	93.89
PRK13230	279	nitrogenase reductase-like protein; Reviewed	93.89
PRK05537	568	bifunctional sulfate adenylyltransferase subunit 1	93.88
cd03295	242	ABC_OpuCA_Osmoprotection OpuCA is a the ATP bindin	93.87
PRK02496	184	adk adenylate kinase; Provisional	93.87
PRK12724	432	flagellar biosynthesis regulator FlhF; Provisional	93.86
PRK09493	240	glnQ glutamine ABC transporter ATP-binding protein	93.86
PRK13232	273	nifH nitrogenase reductase; Reviewed	93.86
COG1136	226	SalX ABC-type antimicrobial peptide transport syst	93.86
cd00876	160	Ras Ras family. The Ras family of the Ras superfam	93.85
PRK13539	207	cytochrome c biogenesis protein CcmA; Provisional	93.85
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	93.85
TIGR01351	210	adk adenylate kinases. Adenylate kinase (EC 2.7.4.	93.85
cd00154	159	Rab Rab family. Rab GTPases form the largest famil	93.83
cd03267	236	ABC_NatA_like Similar in sequence to NatA, this is	93.83
PF01695	178	IstB_IS21: IstB-like ATP binding protein; InterPro	93.82
cd03220	224	ABC_KpsT_Wzt ABC_KpsT_Wzt The KpsT/Wzt ABC transpo	93.82
PRK11058	426	GTPase HflX; Provisional	93.81
PRK00698	205	tmk thymidylate kinase; Validated	93.81
cd03238	176	ABC_UvrA The excision repair protein UvrA; Nucleot	93.8
TIGR02239	316	recomb_RAD51 DNA repair protein RAD51. This eukary	93.78
cd03268	208	ABC_BcrA_bacitracin_resist The BcrA subfamily repr	93.78
cd03258	233	ABC_MetN_methionine_transporter MetN (also known a	93.78
cd03215	182	ABC_Carb_Monos_II This family represents domain II	93.77
cd02026	273	PRK Phosphoribulokinase (PRK) is an enzyme involve	93.77
PRK09354	349	recA recombinase A; Provisional	93.74
cd03228	171	ABCC_MRP_Like The MRP (Mutidrug Resistance Protein	93.74
COG0470	325	HolB ATPase involved in DNA replication [DNA repli	93.73
cd03246	173	ABCC_Protease_Secretion This family represents the	93.72
PRK11247	257	ssuB aliphatic sulfonates transport ATP-binding su	93.71
TIGR01618	220	phage_P_loop phage nucleotide-binding protein. Thi	93.71
PRK07952	244	DNA replication protein DnaC; Validated	93.71
PRK08533	230	flagellar accessory protein FlaH; Reviewed	93.7
cd03262	213	ABC_HisP_GlnQ_permeases HisP and GlnQ are the ATP-	93.7
cd03254	229	ABCC_Glucan_exporter_like Glucan exporter ATP-bind	93.69
cd02040	270	NifH NifH gene encodes component II (iron protein)	93.68
PRK10908	222	cell division protein FtsE; Provisional	93.67
cd03216	163	ABC_Carb_Monos_I This family represents the domain	93.67
cd03114	148	ArgK-like The function of this protein family is u	93.66
PRK06921	266	hypothetical protein; Provisional	93.66
KOG1514	767	consensus Origin recognition complex, subunit 1, a	93.66
cd03252	237	ABCC_Hemolysin The ABC-transporter hemolysin B is	93.65
cd03214	180	ABC_Iron-Siderophores_B12_Hemin ABC transporters,	93.64
PF00071	162	Ras: Ras family; InterPro: IPR001806 Small GTPases	93.64
cd03257	228	ABC_NikE_OppD_transporters The ABC transporter sub	93.64
cd00879	190	Sar1 Sar1 subfamily. Sar1 is an essential componen	93.63
PRK13648	269	cbiO cobalt transporter ATP-binding subunit; Provi	93.62
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	93.6
cd03245	220	ABCC_bacteriocin_exporters ABC-type bacteriocin ex	93.6
PRK00279	215	adk adenylate kinase; Reviewed	93.6
PLN03046	460	D-glycerate 3-kinase; Provisional	93.58
cd03244	221	ABCC_MRP_domain2 Domain 2 of the ABC subfamily C.	93.58
cd03249	238	ABC_MTABC3_MDL1_MDL2 MTABC3 (also known as ABCB6)	93.58
PF13604	196	AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL	93.57
TIGR00959	428	ffh signal recognition particle protein. This mode	93.56
TIGR03410	230	urea_trans_UrtE urea ABC transporter, ATP-binding	93.55
PRK07429	327	phosphoribulokinase; Provisional	93.55
cd04177	168	RSR1 RSR1 subgroup. RSR1/Bud1p is a member of the	93.54
cd03231	201	ABC_CcmA_heme_exporter CcmA, the ATP-binding compo	93.54
TIGR03740	223	galliderm_ABC gallidermin-class lantibiotic protec	93.53
PRK12338	319	hypothetical protein; Provisional	93.52
cd00878	158	Arf_Arl Arf (ADP-ribosylation factor)/Arl (Arf-lik	93.52
cd03247	178	ABCC_cytochrome_bd The CYD subfamily implicated in	93.51
PRK10867	433	signal recognition particle protein; Provisional	93.5
PRK11300	255	livG leucine/isoleucine/valine transporter ATP-bin	93.5
PRK11701	258	phnK phosphonate C-P lyase system protein PhnK; Pr	93.5
PRK06835	329	DNA replication protein DnaC; Validated	93.5
cd03294	269	ABC_Pro_Gly_Bertaine This family comprises the gly	93.5
cd03260	227	ABC_PstB_phosphate_transporter Phosphate uptake is	93.5
cd04137	180	RheB Rheb (Ras Homolog Enriched in Brain) subfamil	93.49
TIGR03878	259	thermo_KaiC_2 KaiC domain protein, AF_0795 family.	93.48
TIGR00750	300	lao LAO/AO transport system ATPase. Mutations have	93.46
cd01869	166	Rab1_Ypt1 Rab1/Ypt1 subfamily. Rab1 is found in ev	93.46
PRK15177	213	Vi polysaccharide export ATP-binding protein VexC;	93.45
COG1121	254	ZnuC ABC-type Mn/Zn transport systems, ATPase comp	93.44
cd04101	164	RabL4 RabL4 (Rab-like4) subfamily. RabL4s are nove	93.43
cd00157	171	Rho Rho (Ras homology) family. Members of the Rho	93.41
COG0703	172	AroK Shikimate kinase [Amino acid transport and me	93.4
cd01860	163	Rab5_related Rab5-related subfamily. This subfamil	93.4
PRK11831	269	putative ABC transporter ATP-binding protein YrbF;	93.39
PF06745	226	KaiC: KaiC; InterPro: IPR014774 This entry represe	93.38
cd04162	164	Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily. Arl9	93.37
cd03251	234	ABCC_MsbA MsbA is an essential ABC transporter, cl	93.36
cd04123	162	Rab21 Rab21 subfamily. The localization and functi	93.36
PF06564	243	YhjQ: YhjQ protein; InterPro: IPR017746 The YhjQ p	93.36
cd03233	202	ABC_PDR_domain1 The pleiotropic drug resistance (P	93.34
cd04140	165	ARHI_like ARHI subfamily. ARHI (A Ras homolog memb	93.34
PLN00020	413	ribulose bisphosphate carboxylase/oxygenase activa	93.32
cd03223	166	ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cass	93.32
cd03298	211	ABC_ThiQ_thiamine_transporter ABC-type thiamine tr	93.32
cd01876	170	YihA_EngB The YihA (EngB) subfamily. This subfamil	93.31
PRK14730	195	coaE dephospho-CoA kinase; Provisional	93.31
cd02029	277	PRK_like Phosphoribulokinase-like (PRK-like) is a	93.31
cd03237	246	ABC_RNaseL_inhibitor_domain2 The ATPase domain 2 o	93.31
PRK13543	214	cytochrome c biogenesis protein CcmA; Provisional	93.31

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=100.00  E-value=3.6e-47  Score=390.60  Aligned_cols=347  Identities=23%  Similarity=0.379  Sum_probs=275.5

Q ss_pred             CCCChhhHHHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHhhhhhhhHHHHHHHHHHHhhhhccccccccchhhhh
Q 038448           21 PKAEPGRSDEWKKILVKINEVLDDAEEKQNTEQSVKMWLGDLQNLAYDVDDLLDELETEAFRRNLMFQEPAAAQTTTTKF  100 (385)
Q Consensus        21 ~~~v~~~l~~l~~~L~~i~~~l~~ae~~~~~~~~~~~Wl~~lr~~ayd~eD~lD~~~~~~~~~~~~~~~~~~~~~~~~~~  100 (385)
                      ..++.+.+..|++.|..++.++++++.++.....+..|...+++++|++||.++.|.......+..+    .-. .....
T Consensus        23 ~~~~~~~i~~Lk~~L~~l~~~l~d~~a~~~~~~~~~~~~e~~~~~~~~~e~~~~~~~v~~~~~~~~~----~l~-~~~~~   97 (889)
T KOG4658|consen   23 LDGKDNYILELKENLKALQSALEDLDAKRDDLERRVNWEEDVGDLVYLAEDIIWLFLVEEIERKAND----LLS-TRSVE   97 (889)
T ss_pred             HhchHHHHHHHHHHHHHHHHHHHHHHhhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhH----Hhh-hhHHH
Confidence            4577789999999999999999999999888899999999999999999999999998886654322    000 00001


Q ss_pred             hccccccccCCCcchhhhhHHHHHHHHHHHHHHHHhh------------------------------hhhhHHHHHHHHh
Q 038448          101 RRLIPSCCTNFSPQAIKFDHMMAAKIEDRTIRLQEIE------------------------------KDKEKEETVKLLL  150 (385)
Q Consensus       101 ~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~l~~i~------------------------------~~~~~~~l~~~L~  150 (385)
                      .+.+  |+..+........+.+.+++..+...++.+.                              .+...+++++.|.
T Consensus        98 ~~~~--c~~~~~~~~~~~~~~~~~rv~~~l~~ve~l~~~~~~~~~~~~~~~~~~~e~~~~~~~~~VG~e~~~~kl~~~L~  175 (889)
T KOG4658|consen   98 RQRL--CLCGFCSKNVSDSYKYGKRVSKVLREVESLGSKGVFEVVGESLDPREKVETRPIQSESDVGLETMLEKLWNRLM  175 (889)
T ss_pred             HHHH--hhhhhHhHhhhhhHhHHHHHHHHHHHHHHhccccceecccccccchhhcccCCCCccccccHHHHHHHHHHHhc
Confidence            1111  1111211122223344555555444443332                              2456778888887


Q ss_pred             cCCCCCCCCceEEEEEcCCCCcHHHHHHHHhcccc-ccccccceEEEEecCCCCHHHHHHHHHHHhhcCCCCCcc-chHH
Q 038448          151 RDDLRTDDGLSVIPIIGTGRIGKTTLAQLAYSDVR-VHNHFDLKAWTCVSEDFDIIRVTKSILKSIASDQLVDDH-DLNL  228 (385)
Q Consensus       151 ~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~-~~~~F~~~~wv~vs~~~~~~~~~~~il~~l~~~~~~~~~-~~~~  228 (385)
                      .++      ..+++|+||||+||||||+.++|+.. ++.+|+.++||+||+.|+...++.+|+..++........ ..+.
T Consensus       176 ~d~------~~iv~i~GMGGvGKTTL~~qi~N~~~~v~~~Fd~~iWV~VSk~f~~~~iq~~Il~~l~~~~~~~~~~~~~~  249 (889)
T KOG4658|consen  176 EDD------VGIVGIYGMGGVGKTTLARQIFNKFDEVGNHFDGVIWVVVSKEFTTRKIQQTILERLGLLDEEWEDKEEDE  249 (889)
T ss_pred             cCC------CCEEEEECCCcccHHHHHHHHhcccchhcccCceEEEEEEcccccHHhHHHHHHHHhccCCcccchhhHHH
Confidence            653      29999999999999999999999988 999999999999999999999999999998875442111 1122


Q ss_pred             --------------------hhchhhHhhHhhhccCCCCCcEEEEEcCChhHHhh-cCCCCcccCCCCChhhHHhhhhcc
Q 038448          229 --------------------LQKYNDWTNRSRLFEAGAPGSKIVFTTRNLGVAEK-MGPLPAYPLKELSNDDCLSVFSPH  287 (385)
Q Consensus       229 --------------------l~~~~~w~~l~~~l~~~~~gs~IivTTR~~~va~~-~~~~~~~~l~~L~~~~a~~Lf~~~  287 (385)
                                          ++...+|+.+..++|...+||+|++|||+..|+.. ++....++++.|++++||.||++.
T Consensus       250 ~~~~i~~~L~~krfllvLDDIW~~~dw~~I~~~~p~~~~g~KvvlTTRs~~V~~~~m~~~~~~~v~~L~~~eaW~LF~~~  329 (889)
T KOG4658|consen  250 LASKLLNLLEGKRFLLVLDDIWEEVDWDKIGVPFPSRENGSKVVLTTRSEEVCGRAMGVDYPIEVECLTPEEAWDLFQKK  329 (889)
T ss_pred             HHHHHHHHhccCceEEEEecccccccHHhcCCCCCCccCCeEEEEEeccHhhhhccccCCccccccccCccccHHHHHHh
Confidence                                22566788899999999899999999999999998 777788999999999999999999


Q ss_pred             ccCCCCCCCCccHHHHHHHHHHHcCCChHHHHHHHHHhh-----------------------------------------
Q 038448          288 SLGEKDFSTHPSLKEIGEKIVKKCNGLPLVAKSLGGLLR-----------------------------------------  326 (385)
Q Consensus       288 a~~~~~~~~~~~l~~~~~~i~~~c~glPLAi~~~~~~L~-----------------------------------------  326 (385)
                      +|..... ..+.+.++|++++++|+|+|||++++|++|+                                         
T Consensus       330 v~~~~~~-~~~~i~~lak~v~~kC~GLPLAl~viG~~ma~K~t~~eW~~~~~~l~s~~~~~~~~~~~~i~~iLklSyd~L  408 (889)
T KOG4658|consen  330 VGPNTLG-SHPDIEELAKEVAEKCGGLPLALNVLGGLLACKKTVQEWRRALNVLKSSLAADFSGMEESILPILKLSYDNL  408 (889)
T ss_pred             hcccccc-ccccHHHHHHHHHHHhCChHHHHHHHHHHhcCCCcHHHHHHHHccccccccCCCCchhhhhHHhhhccHhhh
Confidence            9876332 2345899999999999999999999999999                                         


Q ss_pred             --------------------------------cccCCCCccCcHHHHHHHHHHHHHhccccceecC--CCCceeEchhHH
Q 038448          327 --------------------------------GFLNHESDKKQMENLGRKYFQELYSRLFFQLSSS--NKSLFVMHDLNN  372 (385)
Q Consensus       327 --------------------------------g~~~~~~~~~~~e~~~~~~~~~Lv~rsll~~~~~--~~~~~~mHdlv~  372 (385)
                                                      ||+.+...+.++++.|+.|+.+|+++||++....  ....|.|||+||
T Consensus       409 ~~~lK~CFLycalFPED~~I~~e~Li~yWiaEGfi~~~~~~~~~~d~G~~~i~~LV~~~Ll~~~~~~~~~~~~kmHDvvR  488 (889)
T KOG4658|consen  409 PEELKSCFLYCALFPEDYEIKKEKLIEYWIAEGFIDPLDGGETAEDVGYDYIEELVRASLLIEERDEGRKETVKMHDVVR  488 (889)
T ss_pred             hHHHHHHHHhhccCCcccccchHHHHHHHHhccCcCccccccchhcchHHHHHHHHHHHHHhhcccccceeEEEeeHHHH
Confidence                                            8888767788999999999999999999998763  445699999999


Q ss_pred             HHHHHhhcc
Q 038448          373 DLLNGLHGR  381 (385)
Q Consensus       373 d~a~~~s~~  381 (385)
                      |+|.++|++
T Consensus       489 e~al~ias~  497 (889)
T KOG4658|consen  489 EMALWIASD  497 (889)
T ss_pred             HHHHHHhcc
Confidence            999999994

>PLN03210 Resistant to P

Probab=99.96  E-value=1.4e-27  Score=257.19  Aligned_cols=234  Identities=17%  Similarity=0.270  Sum_probs=165.7

Q ss_pred             hhhHHHHHHHHhcCCCCCCCCceEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEe---cCC-----------CC-
Q 038448          139 DKEKEETVKLLLRDDLRTDDGLSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCV---SED-----------FD-  203 (385)
Q Consensus       139 ~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v---s~~-----------~~-  203 (385)
                      +...+++..+|..    ..+++++|+||||||+||||||+.+|+.  +..+|+..+|+..   +..           ++ 
T Consensus       190 ~~~l~~l~~lL~l----~~~~~~vvgI~G~gGiGKTTLA~~l~~~--l~~~F~g~vfv~~~~v~~~~~~~~~~~~~~~~~  263 (1153)
T PLN03210        190 EDHIAKMSSLLHL----ESEEVRMVGIWGSSGIGKTTIARALFSR--LSRQFQSSVFIDRAFISKSMEIYSSANPDDYNM  263 (1153)
T ss_pred             HHHHHHHHHHHcc----ccCceEEEEEEcCCCCchHHHHHHHHHH--HhhcCCeEEEeeccccccchhhcccccccccch
Confidence            5555666666633    2346899999999999999999999995  7788998888742   111           11 


Q ss_pred             HHHHHHHHHHHhhcCCCCCccc----------------hHHhhchhhHhhHhhhccCCCCCcEEEEEcCChhHHhhcCCC
Q 038448          204 IIRVTKSILKSIASDQLVDDHD----------------LNLLQKYNDWTNRSRLFEAGAPGSKIVFTTRNLGVAEKMGPL  267 (385)
Q Consensus       204 ~~~~~~~il~~l~~~~~~~~~~----------------~~~l~~~~~w~~l~~~l~~~~~gs~IivTTR~~~va~~~~~~  267 (385)
                      ...+...++..+..........                +|.+.+...|+.+.......++||+||||||+..++..++..
T Consensus       264 ~~~l~~~~l~~il~~~~~~~~~~~~~~~~L~~krvLLVLDdv~~~~~l~~L~~~~~~~~~GsrIIiTTrd~~vl~~~~~~  343 (1153)
T PLN03210        264 KLHLQRAFLSEILDKKDIKIYHLGAMEERLKHRKVLIFIDDLDDQDVLDALAGQTQWFGSGSRIIVITKDKHFLRAHGID  343 (1153)
T ss_pred             hHHHHHHHHHHHhCCCCcccCCHHHHHHHHhCCeEEEEEeCCCCHHHHHHHHhhCccCCCCcEEEEEeCcHHHHHhcCCC
Confidence            1234445555443322111111                112224456777776666667899999999999999887777


Q ss_pred             CcccCCCCChhhHHhhhhccccCCCCCCCCccHHHHHHHHHHHcCCChHHHHHHHHHhhc--------------------
Q 038448          268 PAYPLKELSNDDCLSVFSPHSLGEKDFSTHPSLKEIGEKIVKKCNGLPLVAKSLGGLLRG--------------------  327 (385)
Q Consensus       268 ~~~~l~~L~~~~a~~Lf~~~a~~~~~~~~~~~l~~~~~~i~~~c~glPLAi~~~~~~L~g--------------------  327 (385)
                      .+|++..|+.++||+||+++||+...  +++++.+++++|+++|+|+|||++++|++|+|                    
T Consensus       344 ~~~~v~~l~~~ea~~LF~~~Af~~~~--~~~~~~~l~~~iv~~c~GLPLAl~vlgs~L~~k~~~~W~~~l~~L~~~~~~~  421 (1153)
T PLN03210        344 HIYEVCLPSNELALEMFCRSAFKKNS--PPDGFMELASEVALRAGNLPLGLNVLGSYLRGRDKEDWMDMLPRLRNGLDGK  421 (1153)
T ss_pred             eEEEecCCCHHHHHHHHHHHhcCCCC--CcHHHHHHHHHHHHHhCCCcHHHHHHHHHHcCCCHHHHHHHHHHHHhCccHH
Confidence            89999999999999999999997643  34568899999999999999999999999981                    


Q ss_pred             -----------ccC-----------CCCccCcHHHH----------HHHHHHHHHhccccceecCCCCceeEchhHHHHH
Q 038448          328 -----------FLN-----------HESDKKQMENL----------GRKYFQELYSRLFFQLSSSNKSLFVMHDLNNDLL  375 (385)
Q Consensus       328 -----------~~~-----------~~~~~~~~e~~----------~~~~~~~Lv~rsll~~~~~~~~~~~mHdlv~d~a  375 (385)
                                 +-.           ....+...+.+          ++.-++.|+++||++...   ..|.|||++|++|
T Consensus       422 I~~~L~~SYd~L~~~~~k~~Fl~ia~ff~~~~~~~v~~~l~~~~~~~~~~l~~L~~ksLi~~~~---~~~~MHdLl~~~~  498 (1153)
T PLN03210        422 IEKTLRVSYDGLNNKKDKAIFRHIACLFNGEKVNDIKLLLANSDLDVNIGLKNLVDKSLIHVRE---DIVEMHSLLQEMG  498 (1153)
T ss_pred             HHHHHHHhhhccCccchhhhhheehhhcCCCCHHHHHHHHHhcCCCchhChHHHHhcCCEEEcC---CeEEhhhHHHHHH
Confidence                       100           00001111111          112378899999998753   4599999999999


Q ss_pred             HHhhcccc
Q 038448          376 NGLHGRFT  383 (385)
Q Consensus       376 ~~~s~~e~  383 (385)
                      +.++.++.
T Consensus       499 r~i~~~~~  506 (1153)
T PLN03210        499 KEIVRAQS  506 (1153)
T ss_pred             HHHHHhhc
Confidence            99987764

syringae 6; Provisional

>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=99.96  E-value=1.1e-28  Score=228.17  Aligned_cols=183  Identities=31%  Similarity=0.503  Sum_probs=139.0

Q ss_pred             hhhHHHHHHHHhcCCCCCCCCceEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecCCCCHHHHHHHHHHHhhcC
Q 038448          139 DKEKEETVKLLLRDDLRTDDGLSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDFDIIRVTKSILKSIASD  218 (385)
Q Consensus       139 ~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~il~~l~~~  218 (385)
                      +.+.++|.++|....    ++.++|+|+||||+||||||..+|++..++.+|+.++|++++...+...++..|+.++...
T Consensus         2 e~~~~~l~~~L~~~~----~~~~~v~I~G~~G~GKT~LA~~~~~~~~~~~~f~~v~wv~~~~~~~~~~~~~~i~~~l~~~   77 (287)
T PF00931_consen    2 EKEIEKLKDWLLDNS----NEVRVVAIVGMGGIGKTTLARQVARDLRIKNRFDGVIWVSLSKNPSLEQLLEQILRQLGEP   77 (287)
T ss_dssp             HHHHHHHHHHHHTTT----TSSEEEEEEESTTSSHHHHHHHHHCHHHHCCCCTEEEEEEEES-SCCHHHHHHHHHHHTCC
T ss_pred             HHHHHHHHHHhhCCC----CCeEEEEEEcCCcCCcceeeeeccccccccccccccccccccccccccccccccccccccc
Confidence            567889999997733    5789999999999999999999999877899999999999999999999999999999877


Q ss_pred             CCC--CccchHHh----h----------------chhhHhhHhhhccCCCCCcEEEEEcCChhHHhhcCC-CCcccCCCC
Q 038448          219 QLV--DDHDLNLL----Q----------------KYNDWTNRSRLFEAGAPGSKIVFTTRNLGVAEKMGP-LPAYPLKEL  275 (385)
Q Consensus       219 ~~~--~~~~~~~l----~----------------~~~~w~~l~~~l~~~~~gs~IivTTR~~~va~~~~~-~~~~~l~~L  275 (385)
                      ...  ...+.+.+    .                +...|+.+...++....||+||||||+..++..++. ...+++.+|
T Consensus        78 ~~~~~~~~~~~~~~~~l~~~L~~~~~LlVlDdv~~~~~~~~l~~~~~~~~~~~kilvTTR~~~v~~~~~~~~~~~~l~~L  157 (287)
T PF00931_consen   78 DSSISDPKDIEELQDQLRELLKDKRCLLVLDDVWDEEDLEELREPLPSFSSGSKILVTTRDRSVAGSLGGTDKVIELEPL  157 (287)
T ss_dssp             -STSSCCSSHHHHHHHHHHHHCCTSEEEEEEEE-SHHHH-------HCHHSS-EEEEEESCGGGGTTHHSCEEEEECSS-
T ss_pred             ccccccccccccccccchhhhccccceeeeeeeccccccccccccccccccccccccccccccccccccccccccccccc
Confidence            431  11222111    1                556787888888887789999999999999876654 568999999


Q ss_pred             ChhhHHhhhhccccCCCCCCCCccHHHHHHHHHHHcCCChHHHHHHHHHhh
Q 038448          276 SNDDCLSVFSPHSLGEKDFSTHPSLKEIGEKIVKKCNGLPLVAKSLGGLLR  326 (385)
Q Consensus       276 ~~~~a~~Lf~~~a~~~~~~~~~~~l~~~~~~i~~~c~glPLAi~~~~~~L~  326 (385)
                      +.++|++||.+.++... ...++.+.+.+++|+++|+|+||||+++|++|+
T Consensus       158 ~~~ea~~L~~~~~~~~~-~~~~~~~~~~~~~i~~~c~glPLal~~~a~~l~  207 (287)
T PF00931_consen  158 SEEEALELFKKRAGRKE-SESPEDLEDLAKEIVEKCGGLPLALKLIASYLR  207 (287)
T ss_dssp             -HHHHHHHHHHHHTSHS-----TTSCTHHHHHHHHTTT-HHHHHHHHHHHH
T ss_pred             ccccccccccccccccc-ccccccccccccccccccccccccccccccccc
Confidence            99999999999987654 223345567899999999999999999999995

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.

>PRK04841 transcriptional regulator MalT; Provisional

Probab=99.10  E-value=7.6e-09  Score=110.72  Aligned_cols=208  Identities=13%  Similarity=0.119  Sum_probs=125.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecC-CCCHHHHHHHHHHHhhcCCCCC---c---------cc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSE-DFDIIRVTKSILKSIASDQLVD---D---------HD  225 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~-~~~~~~~~~~il~~l~~~~~~~---~---------~~  225 (385)
                      ..+++.|+|++|.||||++......      ++.++|+++.. +.+...++..++..+.......   .         ..
T Consensus        31 ~~~~~~v~apaG~GKTtl~~~~~~~------~~~~~w~~l~~~d~~~~~f~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~  104 (903)
T PRK04841         31 NYRLVLVTSPAGYGKTTLISQWAAG------KNNLGWYSLDESDNQPERFASYLIAALQQATNGHCSKSEALAQKRQYAS  104 (903)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHh------CCCeEEEecCcccCCHHHHHHHHHHHHHHhcCcccchhhhhhccCCcCC
Confidence            5689999999999999999988753      23689999974 4456667777777774221100   0         11


Q ss_pred             hH--------Hhh----------ch------hhHh-hHhhhccCCCCCcEEEEEcCChhHH---hhcCCCCcccCC----
Q 038448          226 LN--------LLQ----------KY------NDWT-NRSRLFEAGAPGSKIVFTTRNLGVA---EKMGPLPAYPLK----  273 (385)
Q Consensus       226 ~~--------~l~----------~~------~~w~-~l~~~l~~~~~gs~IivTTR~~~va---~~~~~~~~~~l~----  273 (385)
                      ..        .+.          ++      .... .+...++....+.++|||||...-.   ...-......+.    
T Consensus       105 ~~~~~~~~~~~l~~~~~~~~lvlDD~h~~~~~~~~~~l~~l~~~~~~~~~lv~~sR~~~~~~~~~l~~~~~~~~l~~~~l  184 (903)
T PRK04841        105 LSSLFAQLFIELADWHQPLYLVIDDYHLITNPEIHEAMRFFLRHQPENLTLVVLSRNLPPLGIANLRVRDQLLEIGSQQL  184 (903)
T ss_pred             HHHHHHHHHHHHhcCCCCEEEEEeCcCcCCChHHHHHHHHHHHhCCCCeEEEEEeCCCCCCchHhHHhcCcceecCHHhC
Confidence            10        110          11      1112 2323333345567888999973211   110112234455    


Q ss_pred             CCChhhHHhhhhccccCCCCCCCCccHHHHHHHHHHHcCCChHHHHHHHHHhhcccC-------CCC--ccCcHH-----
Q 038448          274 ELSNDDCLSVFSPHSLGEKDFSTHPSLKEIGEKIVKKCNGLPLVAKSLGGLLRGFLN-------HES--DKKQME-----  339 (385)
Q Consensus       274 ~L~~~~a~~Lf~~~a~~~~~~~~~~~l~~~~~~i~~~c~glPLAi~~~~~~L~g~~~-------~~~--~~~~~e-----  339 (385)
                      +|+.+|+..||.......       --.+....|.+.|+|.|+++..++..+.+--.       ...  ....+.     
T Consensus       185 ~f~~~e~~~ll~~~~~~~-------~~~~~~~~l~~~t~Gwp~~l~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~  257 (903)
T PRK04841        185 AFDHQEAQQFFDQRLSSP-------IEAAESSRLCDDVEGWATALQLIALSARQNNSSLHDSARRLAGINASHLSDYLVE  257 (903)
T ss_pred             CCCHHHHHHHHHhccCCC-------CCHHHHHHHHHHhCChHHHHHHHHHHHhhCCCchhhhhHhhcCCCchhHHHHHHH
Confidence            899999999997653211       11355678999999999999988865541100       000  000000     


Q ss_pred             ----------------------------------HHHHHHHHHHHhccccce-ecCCCCceeEchhHHHHHHHhh
Q 038448          340 ----------------------------------NLGRKYFQELYSRLFFQL-SSSNKSLFVMHDLNNDLLNGLH  379 (385)
Q Consensus       340 ----------------------------------~~~~~~~~~Lv~rsll~~-~~~~~~~~~mHdlv~d~a~~~s  379 (385)
                                                        +-+...+++|...++|.. ...+...|+.|++++++.+...
T Consensus       258 ~v~~~l~~~~~~~l~~~a~~~~~~~~l~~~l~~~~~~~~~L~~l~~~~l~~~~~~~~~~~yr~H~L~r~~l~~~l  332 (903)
T PRK04841        258 EVLDNVDLETRHFLLRCSVLRSMNDALIVRVTGEENGQMRLEELERQGLFIQRMDDSGEWFRYHPLFASFLRHRC  332 (903)
T ss_pred             HHHhcCCHHHHHHHHHhcccccCCHHHHHHHcCCCcHHHHHHHHHHCCCeeEeecCCCCEEehhHHHHHHHHHHH
Confidence                                              013467889999998754 3334456999999999998765

>PRK06893 DNA replication initiation factor; Validated

Probab=98.72  E-value=8.5e-08  Score=85.46  Aligned_cols=154  Identities=14%  Similarity=0.183  Sum_probs=93.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecCCCCHHHHHHHHHHHhhcCCCCCccchHHhhchhhHhh-Hh
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDFDIIRVTKSILKSIASDQLVDDHDLNLLQKYNDWTN-RS  239 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~il~~l~~~~~~~~~~~~~l~~~~~w~~-l~  239 (385)
                      +.+.|+|++|+|||+|++.+++.  .......+.|++++..   ......++..+...+.-..+++..+.....|+. +.
T Consensus        40 ~~l~l~G~~G~GKThL~~ai~~~--~~~~~~~~~y~~~~~~---~~~~~~~~~~~~~~dlLilDDi~~~~~~~~~~~~l~  114 (229)
T PRK06893         40 PFFYIWGGKSSGKSHLLKAVSNH--YLLNQRTAIYIPLSKS---QYFSPAVLENLEQQDLVCLDDLQAVIGNEEWELAIF  114 (229)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH--HHHcCCCeEEeeHHHh---hhhhHHHHhhcccCCEEEEeChhhhcCChHHHHHHH
Confidence            57899999999999999999986  3333445677776531   112223444333222112233333334556663 33


Q ss_pred             hhccCC-CCCcEEEE-EcCC---------hhHHhhcCCCCcccCCCCChhhHHhhhhccccCCCCCCCCccHHHHHHHHH
Q 038448          240 RLFEAG-APGSKIVF-TTRN---------LGVAEKMGPLPAYPLKELSNDDCLSVFSPHSLGEKDFSTHPSLKEIGEKIV  308 (385)
Q Consensus       240 ~~l~~~-~~gs~Iiv-TTR~---------~~va~~~~~~~~~~l~~L~~~~a~~Lf~~~a~~~~~~~~~~~l~~~~~~i~  308 (385)
                      ..+... ..|+.+|| |+..         +.+...+.....+++++++.++.+.++.+.++... ...+   .++..-|+
T Consensus       115 ~l~n~~~~~~~~illits~~~p~~l~~~~~~L~sRl~~g~~~~l~~pd~e~~~~iL~~~a~~~~-l~l~---~~v~~~L~  190 (229)
T PRK06893        115 DLFNRIKEQGKTLLLISADCSPHALSIKLPDLASRLTWGEIYQLNDLTDEQKIIVLQRNAYQRG-IELS---DEVANFLL  190 (229)
T ss_pred             HHHHHHHHcCCcEEEEeCCCChHHccccchhHHHHHhcCCeeeCCCCCHHHHHHHHHHHHHHcC-CCCC---HHHHHHHH
Confidence            334322 24556654 4543         46666666667899999999999999998875432 1112   46677788


Q ss_pred             HHcCCChHHHHHHHH
Q 038448          309 KKCNGLPLVAKSLGG  323 (385)
Q Consensus       309 ~~c~glPLAi~~~~~  323 (385)
                      +.+.|-.-++..+-.
T Consensus       191 ~~~~~d~r~l~~~l~  205 (229)
T PRK06893        191 KRLDRDMHTLFDALD  205 (229)
T ss_pred             HhccCCHHHHHHHHH
Confidence            888877655544433

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

Probab=98.71  E-value=7.5e-07  Score=81.45  Aligned_cols=163  Identities=15%  Similarity=0.076  Sum_probs=94.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecCCCCHHHHHHHHHHHhhcCCCCCcc--chHHhh-------
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDFDIIRVTKSILKSIASDQLVDDH--DLNLLQ-------  230 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~il~~l~~~~~~~~~--~~~~l~-------  230 (385)
                      ..++.|+|++|+|||||++.+++.... ..+ ..+|+. ....+..+++..|+..++........  ....+.       
T Consensus        43 ~~~~~l~G~~G~GKTtl~~~l~~~l~~-~~~-~~~~~~-~~~~~~~~~l~~i~~~lG~~~~~~~~~~~~~~l~~~l~~~~  119 (269)
T TIGR03015        43 EGFILITGEVGAGKTTLIRNLLKRLDQ-ERV-VAAKLV-NTRVDAEDLLRMVAADFGLETEGRDKAALLRELEDFLIEQF  119 (269)
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHhcCC-CCe-EEeeee-CCCCCHHHHHHHHHHHcCCCCCCCCHHHHHHHHHHHHHHHH
Confidence            468899999999999999999986321 111 123332 33456778888888887654321100  011110       


Q ss_pred             ----------------chhhHhhHhhhccC---CCCCcEEEEEcCChhHHhhcC----------CCCcccCCCCChhhHH
Q 038448          231 ----------------KYNDWTNRSRLFEA---GAPGSKIVFTTRNLGVAEKMG----------PLPAYPLKELSNDDCL  281 (385)
Q Consensus       231 ----------------~~~~w~~l~~~l~~---~~~gs~IivTTR~~~va~~~~----------~~~~~~l~~L~~~~a~  281 (385)
                                      ....++.+......   ......|++|... .......          ....+++.+|+.++..
T Consensus       120 ~~~~~~vliiDe~~~l~~~~~~~l~~l~~~~~~~~~~~~vvl~g~~-~~~~~l~~~~~~~l~~r~~~~~~l~~l~~~e~~  198 (269)
T TIGR03015       120 AAGKRALLVVDEAQNLTPELLEELRMLSNFQTDNAKLLQIFLVGQP-EFRETLQSPQLQQLRQRIIASCHLGPLDREETR  198 (269)
T ss_pred             hCCCCeEEEEECcccCCHHHHHHHHHHhCcccCCCCeEEEEEcCCH-HHHHHHcCchhHHHHhheeeeeeCCCCCHHHHH
Confidence                            22334444322211   1122244555543 2222211          1235789999999998


Q ss_pred             hhhhccccCCCCCCCCccHHHHHHHHHHHcCCChHHHHHHHHHhh
Q 038448          282 SVFSPHSLGEKDFSTHPSLKEIGEKIVKKCNGLPLVAKSLGGLLR  326 (385)
Q Consensus       282 ~Lf~~~a~~~~~~~~~~~l~~~~~~i~~~c~glPLAi~~~~~~L~  326 (385)
                      .++...+..........-..+..+.|++.|+|.|..|..++..+-
T Consensus       199 ~~l~~~l~~~g~~~~~~~~~~~~~~i~~~s~G~p~~i~~l~~~~~  243 (269)
T TIGR03015       199 EYIEHRLERAGNRDAPVFSEGAFDAIHRFSRGIPRLINILCDRLL  243 (269)
T ss_pred             HHHHHHHHHcCCCCCCCcCHHHHHHHHHHcCCcccHHHHHHHHHH
Confidence            888766422111111112347788999999999999999998764

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.

>PF05729 NACHT: NACHT domain

Probab=98.60  E-value=2e-07  Score=78.40  Aligned_cols=127  Identities=17%  Similarity=0.192  Sum_probs=74.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcccccccc----ccceEEEEecCCCCHH---HHHHHHHHHhhcCCCC------------
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSDVRVHNH----FDLKAWTCVSEDFDII---RVTKSILKSIASDQLV------------  221 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~----F~~~~wv~vs~~~~~~---~~~~~il~~l~~~~~~------------  221 (385)
                      +++.|+|.+|+||||+++.++.+......    +...+|++........   .+...|..+.......            
T Consensus         1 r~l~I~G~~G~GKStll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~   80 (166)
T PF05729_consen    1 RVLWISGEPGSGKSTLLRKLAQQLAEEEPPPSKFPYPFFFSLRDISDSNNSRSLADLLFDQLPESIAPIEELLQELLEKN   80 (166)
T ss_pred             CEEEEECCCCCChHHHHHHHHHHHHhcCcccccceEEEEEeehhhhhccccchHHHHHHHhhccchhhhHHHHHHHHHcC
Confidence            57899999999999999998876433222    4456677655532221   2333333332221110            


Q ss_pred             -----CccchHHhhc-hh-----hHhh-HhhhccC-CCCCcEEEEEcCChhH---HhhcCCCCcccCCCCChhhHHhhhh
Q 038448          222 -----DDHDLNLLQK-YN-----DWTN-RSRLFEA-GAPGSKIVFTTRNLGV---AEKMGPLPAYPLKELSNDDCLSVFS  285 (385)
Q Consensus       222 -----~~~~~~~l~~-~~-----~w~~-l~~~l~~-~~~gs~IivTTR~~~v---a~~~~~~~~~~l~~L~~~~a~~Lf~  285 (385)
                           -.+.++++.. ..     .+.. +...++. ..++.++|||||....   .........+.+.+|++++..+++.
T Consensus        81 ~~~llilDglDE~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~liit~r~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~  160 (166)
T PF05729_consen   81 KRVLLILDGLDELEEQDQSQERQRLLDLLSQLLPQALPPGVKLIITSRPRAFPDLRRRLKQAQILELEPFSEEDIKQYLR  160 (166)
T ss_pred             CceEEEEechHhcccchhhhHHHHHHHHHHHHhhhccCCCCeEEEEEcCChHHHHHHhcCCCcEEEECCCCHHHHHHHHH
Confidence                 1122333332 11     2333 2223332 3568999999998766   3334444678999999999999887


Q ss_pred             cc
Q 038448          286 PH  287 (385)
Q Consensus       286 ~~  287 (385)
                      +.
T Consensus       161 ~~  162 (166)
T PF05729_consen  161 KY  162 (166)
T ss_pred             HH
Confidence            64

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=98.50  E-value=2.8e-06  Score=85.75  Aligned_cols=224  Identities=17%  Similarity=0.152  Sum_probs=136.1

Q ss_pred             HHHHHHHhcCCCCCCCCceEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecCC-CCHHHHHHHHHHHhhcCCCC
Q 038448          143 EETVKLLLRDDLRTDDGLSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSED-FDIIRVTKSILKSIASDQLV  221 (385)
Q Consensus       143 ~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~-~~~~~~~~~il~~l~~~~~~  221 (385)
                      ..+++.|..     ..+.+.+.|..++|.|||||+-.....   ...=..+.|.+.++. -++..++.-++..+....+.
T Consensus        25 ~rL~~~L~~-----~~~~RL~li~APAGfGKttl~aq~~~~---~~~~~~v~Wlslde~dndp~rF~~yLi~al~~~~p~   96 (894)
T COG2909          25 PRLLDRLRR-----ANDYRLILISAPAGFGKTTLLAQWREL---AADGAAVAWLSLDESDNDPARFLSYLIAALQQATPT   96 (894)
T ss_pred             HHHHHHHhc-----CCCceEEEEeCCCCCcHHHHHHHHHHh---cCcccceeEeecCCccCCHHHHHHHHHHHHHHhCcc
Confidence            445555533     247899999999999999999888641   122346899998864 56788888888888754432


Q ss_pred             CccchHH-hh---------------------------chhhHhh---------HhhhccCCCCCcEEEEEcCChhHHhhc
Q 038448          222 DDHDLNL-LQ---------------------------KYNDWTN---------RSRLFEAGAPGSKIVFTTRNLGVAEKM  264 (385)
Q Consensus       222 ~~~~~~~-l~---------------------------~~~~w~~---------l~~~l~~~~~gs~IivTTR~~~va~~~  264 (385)
                      ..++... ++                           -.++|..         +...+.....+-.+|||||+..-...-
T Consensus        97 ~~~~a~~l~q~~~~~~l~~l~~~L~~Ela~~~~pl~LVlDDyHli~~~~l~~~l~fLl~~~P~~l~lvv~SR~rP~l~la  176 (894)
T COG2909          97 LGDEAQTLLQKHQYVSLESLLSSLLNELASYEGPLYLVLDDYHLISDPALHEALRFLLKHAPENLTLVVTSRSRPQLGLA  176 (894)
T ss_pred             ccHHHHHHHHhcccccHHHHHHHHHHHHHhhcCceEEEeccccccCcccHHHHHHHHHHhCCCCeEEEEEeccCCCCccc
Confidence            1111111 11                           1122222         222233445677899999975432211


Q ss_pred             C---CCCcccC----CCCChhhHHhhhhccccCCCCCCCCccHHHHHHHHHHHcCCChHHHHHHHHHhh------cccCC
Q 038448          265 G---PLPAYPL----KELSNDDCLSVFSPHSLGEKDFSTHPSLKEIGEKIVKKCNGLPLVAKSLGGLLR------GFLNH  331 (385)
Q Consensus       265 ~---~~~~~~l----~~L~~~~a~~Lf~~~a~~~~~~~~~~~l~~~~~~i~~~c~glPLAi~~~~~~L~------g~~~~  331 (385)
                      .   ....+++    -.++.+|+-.+|......       +--....+.+.+...|.+-|+..++=.++      +++..
T Consensus       177 ~lRlr~~llEi~~~~Lrf~~eE~~~fl~~~~~l-------~Ld~~~~~~L~~~teGW~~al~L~aLa~~~~~~~~q~~~~  249 (894)
T COG2909         177 RLRLRDELLEIGSEELRFDTEEAAAFLNDRGSL-------PLDAADLKALYDRTEGWAAALQLIALALRNNTSAEQSLRG  249 (894)
T ss_pred             ceeehhhHHhcChHhhcCChHHHHHHHHHcCCC-------CCChHHHHHHHhhcccHHHHHHHHHHHccCCCcHHHHhhh
Confidence            1   1122222    257889999999866311       11134567899999999999888876665      00000


Q ss_pred             CC---------------c-------------------------cCcHHHHHHHHHHHHHhccccce-ecCCCCceeEchh
Q 038448          332 ES---------------D-------------------------KKQMENLGRKYFQELYSRLFFQL-SSSNKSLFVMHDL  370 (385)
Q Consensus       332 ~~---------------~-------------------------~~~~e~~~~~~~~~Lv~rsll~~-~~~~~~~~~mHdl  370 (385)
                      ..               +                         .-+-++-|...+++|.+++||-. -++....|+.|.|
T Consensus       250 LsG~~~~l~dYL~eeVld~Lp~~l~~FLl~~svl~~f~~eL~~~Ltg~~ng~amLe~L~~~gLFl~~Ldd~~~WfryH~L  329 (894)
T COG2909         250 LSGAASHLSDYLVEEVLDRLPPELRDFLLQTSVLSRFNDELCNALTGEENGQAMLEELERRGLFLQRLDDEGQWFRYHHL  329 (894)
T ss_pred             ccchHHHHHHHHHHHHHhcCCHHHHHHHHHHHhHHHhhHHHHHHHhcCCcHHHHHHHHHhCCCceeeecCCCceeehhHH
Confidence            00               0                         00011225567899999998864 4455567999999


Q ss_pred             HHHHHHHhhcc
Q 038448          371 NNDLLNGLHGR  381 (385)
Q Consensus       371 v~d~a~~~s~~  381 (385)
                      +.||.+.-...
T Consensus       330 FaeFL~~r~~~  340 (894)
T COG2909         330 FAEFLRQRLQR  340 (894)
T ss_pred             HHHHHHhhhcc
Confidence            99998875544

>PRK00411 cdc6 cell division control protein 6; Reviewed

Probab=98.39  E-value=1e-05  Score=78.26  Aligned_cols=164  Identities=10%  Similarity=0.082  Sum_probs=87.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecCCCCHHHHHHHHHHHhhcCCCC-Cccch-----------
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDFDIIRVTKSILKSIASDQLV-DDHDL-----------  226 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~il~~l~~~~~~-~~~~~-----------  226 (385)
                      ....+.|+|++|+|||++++.++++.......-..++++.....+...++..|+.++...... .....           
T Consensus        54 ~~~~~lI~G~~GtGKT~l~~~v~~~l~~~~~~~~~v~in~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~l  133 (394)
T PRK00411         54 RPLNVLIYGPPGTGKTTTVKKVFEELEEIAVKVVYVYINCQIDRTRYAIFSEIARQLFGHPPPSSGLSFDELFDKIAEYL  133 (394)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHHHHhcCCcEEEEEECCcCCCHHHHHHHHHHHhcCCCCCCCCCCHHHHHHHHHHHH
Confidence            335578999999999999999998632222122345666665567778888888888652110 11011           


Q ss_pred             -----------HHhhc------hhhHhhHhhhccCCCCCcE--EEEEcCChhHHhhcC-------CCCcccCCCCChhhH
Q 038448          227 -----------NLLQK------YNDWTNRSRLFEAGAPGSK--IVFTTRNLGVAEKMG-------PLPAYPLKELSNDDC  280 (385)
Q Consensus       227 -----------~~l~~------~~~w~~l~~~l~~~~~gs~--IivTTR~~~va~~~~-------~~~~~~l~~L~~~~a  280 (385)
                                 |+++.      .+.+..+...+. ...+++  +|.++....+.....       ....+.+.+++.++.
T Consensus       134 ~~~~~~~viviDE~d~l~~~~~~~~l~~l~~~~~-~~~~~~v~vI~i~~~~~~~~~l~~~~~s~~~~~~i~f~py~~~e~  212 (394)
T PRK00411        134 DERDRVLIVALDDINYLFEKEGNDVLYSLLRAHE-EYPGARIGVIGISSDLTFLYILDPRVKSVFRPEEIYFPPYTADEI  212 (394)
T ss_pred             HhcCCEEEEEECCHhHhhccCCchHHHHHHHhhh-ccCCCeEEEEEEECCcchhhhcCHHHHhcCCcceeecCCCCHHHH
Confidence                       11111      111222222222 123334  566666544333221       124578999999999


Q ss_pred             HhhhhccccCC--CCCCCCccHHHHHHHHHHHcCCChHHHHHHHH
Q 038448          281 LSVFSPHSLGE--KDFSTHPSLKEIGEKIVKKCNGLPLVAKSLGG  323 (385)
Q Consensus       281 ~~Lf~~~a~~~--~~~~~~~~l~~~~~~i~~~c~glPLAi~~~~~  323 (385)
                      .+++..++-..  .....+..+..+++......|..+.|+.++-.
T Consensus       213 ~~il~~r~~~~~~~~~~~~~~l~~i~~~~~~~~Gd~r~a~~ll~~  257 (394)
T PRK00411        213 FDILKDRVEEGFYPGVVDDEVLDLIADLTAREHGDARVAIDLLRR  257 (394)
T ss_pred             HHHHHHHHHhhcccCCCCHhHHHHHHHHHHHhcCcHHHHHHHHHH
Confidence            99888765211  11112222333333333335667777777643

>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda

Probab=98.38  E-value=3.2e-06  Score=75.13  Aligned_cols=158  Identities=14%  Similarity=0.211  Sum_probs=88.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecCCCCHHHHHHHHHHHhhcCCCCCccchHHhhchhhHhh-
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDFDIIRVTKSILKSIASDQLVDDHDLNLLQKYNDWTN-  237 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~il~~l~~~~~~~~~~~~~l~~~~~w~~-  237 (385)
                      ....+.|+|.+|+|||+||+.+++.  ........++++.+.-.+   -...++..+.....-..++.+.+.....|.. 
T Consensus        37 ~~~~lll~G~~G~GKT~la~~~~~~--~~~~~~~~~~i~~~~~~~---~~~~~~~~~~~~~lLvIDdi~~l~~~~~~~~~  111 (226)
T TIGR03420        37 GDRFLYLWGESGSGKSHLLQAACAA--AEERGKSAIYLPLAELAQ---ADPEVLEGLEQADLVCLDDVEAIAGQPEWQEA  111 (226)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHH--HHhcCCcEEEEeHHHHHH---hHHHHHhhcccCCEEEEeChhhhcCChHHHHH
Confidence            3468889999999999999999875  222334456666543221   1123333332221112344444433333433 


Q ss_pred             HhhhccC-CCCCcEEEEEcCChh---------HHhhcCCCCcccCCCCChhhHHhhhhccccCCCCCCCCccHHHHHHHH
Q 038448          238 RSRLFEA-GAPGSKIVFTTRNLG---------VAEKMGPLPAYPLKELSNDDCLSVFSPHSLGEKDFSTHPSLKEIGEKI  307 (385)
Q Consensus       238 l~~~l~~-~~~gs~IivTTR~~~---------va~~~~~~~~~~l~~L~~~~a~~Lf~~~a~~~~~~~~~~~l~~~~~~i  307 (385)
                      +...+.. ...+.++|+||+...         +...+.....+.+.+++.++...++...+-.. ....   -.+....|
T Consensus       112 L~~~l~~~~~~~~~iIits~~~~~~~~~~~~~L~~r~~~~~~i~l~~l~~~e~~~~l~~~~~~~-~~~~---~~~~l~~L  187 (226)
T TIGR03420       112 LFHLYNRVREAGGRLLIAGRAAPAQLPLRLPDLRTRLAWGLVFQLPPLSDEEKIAALQSRAARR-GLQL---PDEVADYL  187 (226)
T ss_pred             HHHHHHHHHHcCCeEEEECCCChHHCCcccHHHHHHHhcCeeEecCCCCHHHHHHHHHHHHHHc-CCCC---CHHHHHHH
Confidence            4333322 123457889887532         22222223568899999988888887643211 1111   13556777


Q ss_pred             HHHcCCChHHHHHHHHHh
Q 038448          308 VKKCNGLPLVAKSLGGLL  325 (385)
Q Consensus       308 ~~~c~glPLAi~~~~~~L  325 (385)
                      ++.+.|.|..+.-+...+
T Consensus       188 ~~~~~gn~r~L~~~l~~~  205 (226)
T TIGR03420       188 LRHGSRDMGSLMALLDAL  205 (226)
T ss_pred             HHhccCCHHHHHHHHHHH
Confidence            788888888777665444

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.

>PF13173 AAA_14: AAA domain

Probab=98.37  E-value=9.2e-07  Score=71.28  Aligned_cols=115  Identities=19%  Similarity=0.178  Sum_probs=74.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecCCCCHHH----HHHHHHHHhhcCCCCCccchHHhhchhhH
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDFDIIR----VTKSILKSIASDQLVDDHDLNLLQKYNDW  235 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~----~~~~il~~l~~~~~~~~~~~~~l~~~~~w  235 (385)
                      -+++.|.|+.|+|||||+.+++.+..   .....++++.........    +...+.+... . ....--+|++|....|
T Consensus         2 ~~~~~l~G~R~vGKTtll~~~~~~~~---~~~~~~yi~~~~~~~~~~~~~~~~~~~~~~~~-~-~~~~i~iDEiq~~~~~   76 (128)
T PF13173_consen    2 RKIIILTGPRGVGKTTLLKQLAKDLL---PPENILYINFDDPRDRRLADPDLLEYFLELIK-P-GKKYIFIDEIQYLPDW   76 (128)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHhc---ccccceeeccCCHHHHHHhhhhhHHHHHHhhc-c-CCcEEEEehhhhhccH
Confidence            36899999999999999999987522   335567777665433221    1222222211 1 1133446777877888


Q ss_pred             hhHhhhccCCCCCcEEEEEcCChhHHhhcC------CCCcccCCCCChhh
Q 038448          236 TNRSRLFEAGAPGSKIVFTTRNLGVAEKMG------PLPAYPLKELSNDD  279 (385)
Q Consensus       236 ~~l~~~l~~~~~gs~IivTTR~~~va~~~~------~~~~~~l~~L~~~~  279 (385)
                      ......+-+..+..+|++|+.+......-.      ....+++.||+..|
T Consensus        77 ~~~lk~l~d~~~~~~ii~tgS~~~~l~~~~~~~l~gr~~~~~l~Plsf~E  126 (128)
T PF13173_consen   77 EDALKFLVDNGPNIKIILTGSSSSLLSKDIAESLAGRVIEIELYPLSFRE  126 (128)
T ss_pred             HHHHHHHHHhccCceEEEEccchHHHhhcccccCCCeEEEEEECCCCHHH
Confidence            887777766556789999999877664311      11357888888766

>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed

Probab=98.36  E-value=4.6e-06  Score=78.58  Aligned_cols=157  Identities=16%  Similarity=0.076  Sum_probs=82.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecCCCCHHHHHHHHHHHhhcCCCCCccchHHhhchhhHhhH
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDFDIIRVTKSILKSIASDQLVDDHDLNLLQKYNDWTNR  238 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~il~~l~~~~~~~~~~~~~l~~~~~w~~l  238 (385)
                      ....+.++|++|+||||||+.+.+..  ...+   .+++.+ .......+..++..+.....-..++.+.+.. ...+.+
T Consensus        50 ~~~~~ll~GppG~GKT~la~~ia~~l--~~~~---~~~~~~-~~~~~~~l~~~l~~l~~~~vl~IDEi~~l~~-~~~e~l  122 (328)
T PRK00080         50 ALDHVLLYGPPGLGKTTLANIIANEM--GVNI---RITSGP-ALEKPGDLAAILTNLEEGDVLFIDEIHRLSP-VVEEIL  122 (328)
T ss_pred             CCCcEEEECCCCccHHHHHHHHHHHh--CCCe---EEEecc-cccChHHHHHHHHhcccCCEEEEecHhhcch-HHHHHH
Confidence            45678899999999999999998853  2222   112211 1222233444444443222111122222110 011111


Q ss_pred             hhhc---------cC----------CCCCcEEEEEcCChhHHhhcC--CCCcccCCCCChhhHHhhhhccccCCCCCCCC
Q 038448          239 SRLF---------EA----------GAPGSKIVFTTRNLGVAEKMG--PLPAYPLKELSNDDCLSVFSPHSLGEKDFSTH  297 (385)
Q Consensus       239 ~~~l---------~~----------~~~gs~IivTTR~~~va~~~~--~~~~~~l~~L~~~~a~~Lf~~~a~~~~~~~~~  297 (385)
                      ...+         ..          ..+.+-|..||+...+.....  ....+.+.+++.++..+++.+.+.... ..  
T Consensus       123 ~~~~e~~~~~~~l~~~~~~~~~~~~l~~~~li~at~~~~~l~~~L~sRf~~~~~l~~~~~~e~~~il~~~~~~~~-~~--  199 (328)
T PRK00080        123 YPAMEDFRLDIMIGKGPAARSIRLDLPPFTLIGATTRAGLLTSPLRDRFGIVQRLEFYTVEELEKIVKRSARILG-VE--  199 (328)
T ss_pred             HHHHHhcceeeeeccCccccceeecCCCceEEeecCCcccCCHHHHHhcCeeeecCCCCHHHHHHHHHHHHHHcC-CC--
Confidence            1110         00          012344556776544433221  124578999999999999987763322 11  


Q ss_pred             ccHHHHHHHHHHHcCCChHHHHHHHHHhh
Q 038448          298 PSLKEIGEKIVKKCNGLPLVAKSLGGLLR  326 (385)
Q Consensus       298 ~~l~~~~~~i~~~c~glPLAi~~~~~~L~  326 (385)
                       --.+....|++.|+|.|-.+..+...+.
T Consensus       200 -~~~~~~~~ia~~~~G~pR~a~~~l~~~~  227 (328)
T PRK00080        200 -IDEEGALEIARRSRGTPRIANRLLRRVR  227 (328)
T ss_pred             -cCHHHHHHHHHHcCCCchHHHHHHHHHH
Confidence             1235688999999999976655555444

>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit

Probab=98.33  E-value=4.3e-06  Score=77.96  Aligned_cols=175  Identities=16%  Similarity=0.101  Sum_probs=87.8

Q ss_pred             hhhHHHHHHHHhcCCCCCCCCceEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecCCCCHHHHHHHHHHHhhcC
Q 038448          139 DKEKEETVKLLLRDDLRTDDGLSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDFDIIRVTKSILKSIASD  218 (385)
Q Consensus       139 ~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~il~~l~~~  218 (385)
                      +..++.+..++..... ....+..+.++|++|+|||+||+.+.+..  ...|   ..+..+..... ..+...+..+...
T Consensus        10 ~~~~~~l~~~l~~~~~-~~~~~~~~ll~Gp~G~GKT~la~~ia~~~--~~~~---~~~~~~~~~~~-~~l~~~l~~~~~~   82 (305)
T TIGR00635        10 EKVKEQLQLFIEAAKM-RQEALDHLLLYGPPGLGKTTLAHIIANEM--GVNL---KITSGPALEKP-GDLAAILTNLEEG   82 (305)
T ss_pred             HHHHHHHHHHHHHHHh-cCCCCCeEEEECCCCCCHHHHHHHHHHHh--CCCE---EEeccchhcCc-hhHHHHHHhcccC
Confidence            3344445555532111 12345668899999999999999998852  2222   12221111111 2233333333322


Q ss_pred             CCCCccchHHhhchhhHhhHhhhcc-------------------CCCCCcEEEEEcCChhHHhhcC--CCCcccCCCCCh
Q 038448          219 QLVDDHDLNLLQKYNDWTNRSRLFE-------------------AGAPGSKIVFTTRNLGVAEKMG--PLPAYPLKELSN  277 (385)
Q Consensus       219 ~~~~~~~~~~l~~~~~w~~l~~~l~-------------------~~~~gs~IivTTR~~~va~~~~--~~~~~~l~~L~~  277 (385)
                      ..-..++.+.+.. ...+.+...+.                   ...+.+-|..||+...+...+.  ....+.+.+++.
T Consensus        83 ~vl~iDEi~~l~~-~~~e~l~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~li~~t~~~~~l~~~l~sR~~~~~~l~~l~~  161 (305)
T TIGR00635        83 DVLFIDEIHRLSP-AVEELLYPAMEDFRLDIVIGKGPSARSVRLDLPPFTLVGATTRAGMLTSPLRDRFGIILRLEFYTV  161 (305)
T ss_pred             CEEEEehHhhhCH-HHHHHhhHHHhhhheeeeeccCccccceeecCCCeEEEEecCCccccCHHHHhhcceEEEeCCCCH
Confidence            1101122221111 11111111110                   0112344556777644433221  124578999999


Q ss_pred             hhHHhhhhccccCCCCCCCCccHHHHHHHHHHHcCCChHHHHHHHHHh
Q 038448          278 DDCLSVFSPHSLGEKDFSTHPSLKEIGEKIVKKCNGLPLVAKSLGGLL  325 (385)
Q Consensus       278 ~~a~~Lf~~~a~~~~~~~~~~~l~~~~~~i~~~c~glPLAi~~~~~~L  325 (385)
                      ++..+++.+.+.... ...   -.+....|++.|+|.|-.+..++..+
T Consensus       162 ~e~~~il~~~~~~~~-~~~---~~~al~~ia~~~~G~pR~~~~ll~~~  205 (305)
T TIGR00635       162 EELAEIVSRSAGLLN-VEI---EPEAALEIARRSRGTPRIANRLLRRV  205 (305)
T ss_pred             HHHHHHHHHHHHHhC-CCc---CHHHHHHHHHHhCCCcchHHHHHHHH
Confidence            999999987763221 111   14567889999999997665555443

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.

>PRK08727 hypothetical protein; Validated

Probab=98.24  E-value=7.4e-06  Score=73.19  Aligned_cols=149  Identities=12%  Similarity=0.080  Sum_probs=86.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecCCCCHHHHHHHHHHHhhcCCCCCccchHHhhchhhHhh-Hh
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDFDIIRVTKSILKSIASDQLVDDHDLNLLQKYNDWTN-RS  239 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~il~~l~~~~~~~~~~~~~l~~~~~w~~-l~  239 (385)
                      ..+.|+|.+|+|||+|++.+++.  .......+.|+++.+.   ...+.+++..+.....-..++++.+.....|.. +.
T Consensus        42 ~~l~l~G~~G~GKThL~~a~~~~--~~~~~~~~~y~~~~~~---~~~~~~~~~~l~~~dlLiIDDi~~l~~~~~~~~~lf  116 (233)
T PRK08727         42 DWLYLSGPAGTGKTHLALALCAA--AEQAGRSSAYLPLQAA---AGRLRDALEALEGRSLVALDGLESIAGQREDEVALF  116 (233)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH--HHHcCCcEEEEeHHHh---hhhHHHHHHHHhcCCEEEEeCcccccCChHHHHHHH
Confidence            45999999999999999999875  3333345667775442   122333444443222212233333333334443 22


Q ss_pred             hhccC-CCCCcEEEEEcCC---------hhHHhhcCCCCcccCCCCChhhHHhhhhccccCCCCCCCCccHHHHHHHHHH
Q 038448          240 RLFEA-GAPGSKIVFTTRN---------LGVAEKMGPLPAYPLKELSNDDCLSVFSPHSLGEKDFSTHPSLKEIGEKIVK  309 (385)
Q Consensus       240 ~~l~~-~~~gs~IivTTR~---------~~va~~~~~~~~~~l~~L~~~~a~~Lf~~~a~~~~~~~~~~~l~~~~~~i~~  309 (385)
                      ..+.. ..+|..||+||+.         +.+...+.....+++.+++.++-..++.+++.... ...   -.+...-|++
T Consensus       117 ~l~n~~~~~~~~vI~ts~~~p~~l~~~~~dL~SRl~~~~~~~l~~~~~e~~~~iL~~~a~~~~-l~l---~~e~~~~La~  192 (233)
T PRK08727        117 DFHNRARAAGITLLYTARQMPDGLALVLPDLRSRLAQCIRIGLPVLDDVARAAVLRERAQRRG-LAL---DEAAIDWLLT  192 (233)
T ss_pred             HHHHHHHHcCCeEEEECCCChhhhhhhhHHHHHHHhcCceEEecCCCHHHHHHHHHHHHHHcC-CCC---CHHHHHHHHH
Confidence            22221 1346679999984         22333333446789999999999999988664321 111   1456677888


Q ss_pred             HcCCChHHH
Q 038448          310 KCNGLPLVA  318 (385)
Q Consensus       310 ~c~glPLAi  318 (385)
                      .+.|-.-.+
T Consensus       193 ~~~rd~r~~  201 (233)
T PRK08727        193 HGERELAGL  201 (233)
T ss_pred             hCCCCHHHH
Confidence            888665444

>PRK08084 DNA replication initiation factor; Provisional

Probab=98.23  E-value=2.3e-05  Score=70.17  Aligned_cols=153  Identities=13%  Similarity=0.166  Sum_probs=88.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecCCCCHHHHHHHHHHHhhcCCCCCccchHHhhchhhHhh-H
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDFDIIRVTKSILKSIASDQLVDDHDLNLLQKYNDWTN-R  238 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~il~~l~~~~~~~~~~~~~l~~~~~w~~-l  238 (385)
                      ...+.|+|++|+|||+|++.+++.  ....-..+.++++.....   ...++.+.+.....-..++++.+.....|+. +
T Consensus        45 ~~~l~l~Gp~G~GKThLl~a~~~~--~~~~~~~v~y~~~~~~~~---~~~~~~~~~~~~dlliiDdi~~~~~~~~~~~~l  119 (235)
T PRK08084         45 SGYIYLWSREGAGRSHLLHAACAE--LSQRGRAVGYVPLDKRAW---FVPEVLEGMEQLSLVCIDNIECIAGDELWEMAI  119 (235)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHH--HHhCCCeEEEEEHHHHhh---hhHHHHHHhhhCCEEEEeChhhhcCCHHHHHHH
Confidence            357899999999999999998875  222223456676654211   1122223222111112334444444556654 2


Q ss_pred             hhhccC-CCCC-cEEEEEcCCh---------hHHhhcCCCCcccCCCCChhhHHhhhhccccCCCCCCCCccHHHHHHHH
Q 038448          239 SRLFEA-GAPG-SKIVFTTRNL---------GVAEKMGPLPAYPLKELSNDDCLSVFSPHSLGEKDFSTHPSLKEIGEKI  307 (385)
Q Consensus       239 ~~~l~~-~~~g-s~IivTTR~~---------~va~~~~~~~~~~l~~L~~~~a~~Lf~~~a~~~~~~~~~~~l~~~~~~i  307 (385)
                      ...+.. ...| .++|+||+..         .+...+....++.+.++++++-..++.+++... ....   -+++..-|
T Consensus       120 f~l~n~~~e~g~~~li~ts~~~p~~l~~~~~~L~SRl~~g~~~~l~~~~~~~~~~~l~~~a~~~-~~~l---~~~v~~~L  195 (235)
T PRK08084        120 FDLYNRILESGRTRLLITGDRPPRQLNLGLPDLASRLDWGQIYKLQPLSDEEKLQALQLRARLR-GFEL---PEDVGRFL  195 (235)
T ss_pred             HHHHHHHHHcCCCeEEEeCCCChHHcCcccHHHHHHHhCCceeeecCCCHHHHHHHHHHHHHHc-CCCC---CHHHHHHH
Confidence            223321 1233 3799999754         334445555789999999999888887755322 1111   24667778


Q ss_pred             HHHcCCChHHHHHH
Q 038448          308 VKKCNGLPLVAKSL  321 (385)
Q Consensus       308 ~~~c~glPLAi~~~  321 (385)
                      ++.+.|..-++..+
T Consensus       196 ~~~~~~d~r~l~~~  209 (235)
T PRK08084        196 LKRLDREMRTLFMT  209 (235)
T ss_pred             HHhhcCCHHHHHHH
Confidence            88888765554443

>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=98.22  E-value=6.6e-06  Score=73.13  Aligned_cols=68  Identities=22%  Similarity=0.207  Sum_probs=37.1

Q ss_pred             EEEEEcCChhHHhh--------cCCCCcccCCCCChhhHHhhhhccccCCCCCCCCccHHHHHHHHHHHcCCChHHHHH
Q 038448          250 KIVFTTRNLGVAEK--------MGPLPAYPLKELSNDDCLSVFSPHSLGEKDFSTHPSLKEIGEKIVKKCNGLPLVAKS  320 (385)
Q Consensus       250 ~IivTTR~~~va~~--------~~~~~~~~l~~L~~~~a~~Lf~~~a~~~~~~~~~~~l~~~~~~i~~~c~glPLAi~~  320 (385)
                      .+|+++....+...        .+....+.+++|+.+++++++....-..  ... +.-.+..++|...+||.|..|..
T Consensus       158 ~~v~~~S~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~e~~~~~~~~~~~~--~~~-~~~~~~~~~i~~~~gG~P~~l~~  233 (234)
T PF01637_consen  158 SIVITGSSDSLMEEFLDDKSPLFGRFSHIELKPLSKEEAREFLKELFKEL--IKL-PFSDEDIEEIYSLTGGNPRYLQE  233 (234)
T ss_dssp             EEEEEESSHHHHHHTT-TTSTTTT---EEEE----HHHHHHHHHHHHHCC---------HHHHHHHHHHHTT-HHHHHH
T ss_pred             eEEEECCchHHHHHhhcccCccccccceEEEeeCCHHHHHHHHHHHHHHh--hcc-cCCHHHHHHHHHHhCCCHHHHhc
Confidence            45555555544443        1222458999999999999998753221  111 12245568999999999998764

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

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

Probab=98.11  E-value=1.5e-05  Score=74.19  Aligned_cols=153  Identities=22%  Similarity=0.268  Sum_probs=83.4

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecCCCCHHHHHHHHHHHhhcCCC---CCccchHHhhchhh
Q 038448          158 DGLSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDFDIIRVTKSILKSIASDQL---VDDHDLNLLQKYND  234 (385)
Q Consensus       158 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~il~~l~~~~~---~~~~~~~~l~~~~~  234 (385)
                      +.+.-..+||++|+||||||+.+...  ....|     ..+|-..+-.+-++.+++.......   ...--++++...+.
T Consensus        46 ~~l~SmIl~GPPG~GKTTlA~liA~~--~~~~f-----~~~sAv~~gvkdlr~i~e~a~~~~~~gr~tiLflDEIHRfnK  118 (436)
T COG2256          46 GHLHSMILWGPPGTGKTTLARLIAGT--TNAAF-----EALSAVTSGVKDLREIIEEARKNRLLGRRTILFLDEIHRFNK  118 (436)
T ss_pred             CCCceeEEECCCCCCHHHHHHHHHHh--hCCce-----EEeccccccHHHHHHHHHHHHHHHhcCCceEEEEehhhhcCh
Confidence            46677889999999999999999874  44444     3344433333334444443311111   11222333331111


Q ss_pred             HhhHhhhccCCCCCcEEEE--EcCChhHH---hhcCCCCcccCCCCChhhHHhhhhccccC-CCCCC-CCccH-HHHHHH
Q 038448          235 WTNRSRLFEAGAPGSKIVF--TTRNLGVA---EKMGPLPAYPLKELSNDDCLSVFSPHSLG-EKDFS-THPSL-KEIGEK  306 (385)
Q Consensus       235 w~~l~~~l~~~~~gs~Iiv--TTR~~~va---~~~~~~~~~~l~~L~~~~a~~Lf~~~a~~-~~~~~-~~~~l-~~~~~~  306 (385)
                      - +....+|...+|.-|+|  ||.++...   ...+...++.+++|+.++-..++.+-+.. ..... ....+ .+...-
T Consensus       119 ~-QQD~lLp~vE~G~iilIGATTENPsF~ln~ALlSR~~vf~lk~L~~~di~~~l~ra~~~~~rgl~~~~~~i~~~a~~~  197 (436)
T COG2256         119 A-QQDALLPHVENGTIILIGATTENPSFELNPALLSRARVFELKPLSSEDIKKLLKRALLDEERGLGGQIIVLDEEALDY  197 (436)
T ss_pred             h-hhhhhhhhhcCCeEEEEeccCCCCCeeecHHHhhhhheeeeecCCHHHHHHHHHHHHhhhhcCCCcccccCCHHHHHH
Confidence            1 11224555577877766  66665432   11233478999999999999888872211 11110 01112 345566


Q ss_pred             HHHHcCCChHHH
Q 038448          307 IVKKCNGLPLVA  318 (385)
Q Consensus       307 i~~~c~glPLAi  318 (385)
                      ++..++|---+.
T Consensus       198 l~~~s~GD~R~a  209 (436)
T COG2256         198 LVRLSNGDARRA  209 (436)
T ss_pred             HHHhcCchHHHH
Confidence            888888865433

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

Probab=98.10  E-value=5.8e-06  Score=74.19  Aligned_cols=55  Identities=16%  Similarity=0.180  Sum_probs=46.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecCC--CCHHHHHHHHHHHh
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSED--FDIIRVTKSILKSI  215 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~--~~~~~~~~~il~~l  215 (385)
                      -..++|+|++|+|||||++.+|++.... +|+.++|+.++..  +++.++++.+...+
T Consensus        16 Gqr~~I~G~~G~GKTTLlr~I~n~l~~~-~fdv~~~v~vI~er~~ev~el~~~I~~~~   72 (249)
T cd01128          16 GQRGLIVAPPKAGKTTLLQSIANAITKN-HPEVYLIVLLIDERPEEVTDMQRSVKGEV   72 (249)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhccccc-cCCeEEEEEEccCCCccHHHHHHHhccEE
Confidence            3678999999999999999999985433 8999999998776  78999999884433

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.

>TIGR02928 orc1/cdc6 family replication initiation protein

Probab=98.07  E-value=0.00013  Score=69.81  Aligned_cols=58  Identities=12%  Similarity=0.116  Sum_probs=41.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcccccc-ccc---cceEEEEecCCCCHHHHHHHHHHHhh
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSDVRVH-NHF---DLKAWTCVSEDFDIIRVTKSILKSIA  216 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~-~~F---~~~~wv~vs~~~~~~~~~~~il~~l~  216 (385)
                      ....+.|+|++|+|||++++.++++..-. ...   -..+|++.....+...++..|+.++.
T Consensus        39 ~~~~i~I~G~~GtGKT~l~~~~~~~l~~~~~~~~~~~~~v~in~~~~~~~~~~~~~i~~~l~  100 (365)
T TIGR02928        39 RPSNVFIYGKTGTGKTAVTKYVMKELEEAAEDRDVRVVTVYVNCQILDTLYQVLVELANQLR  100 (365)
T ss_pred             CCCcEEEECCCCCCHHHHHHHHHHHHHHHhhccCCceEEEEEECCCCCCHHHHHHHHHHHHh
Confidence            34568999999999999999999752110 111   13467776666677788888888884

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

>PRK09376 rho transcription termination factor Rho; Provisional

Probab=98.05  E-value=4.6e-06  Score=78.45  Aligned_cols=51  Identities=16%  Similarity=0.225  Sum_probs=43.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecCCC--CHHHHHHHHH
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDF--DIIRVTKSIL  212 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~--~~~~~~~~il  212 (385)
                      ....|+|++|+||||||+.+|++.... +|+.++||.+++..  ++.++++.|.
T Consensus       170 QR~lIvgppGvGKTTLaK~Ian~I~~n-hFDv~~~VvLIgER~~EVtdiqrsIl  222 (416)
T PRK09376        170 QRGLIVAPPKAGKTVLLQNIANSITTN-HPEVHLIVLLIDERPEEVTDMQRSVK  222 (416)
T ss_pred             ceEEEeCCCCCChhHHHHHHHHHHHhh-cCCeEEEEEEeCCchhHHHHHHHHhc
Confidence            457899999999999999999985443 89999999999887  6777777776

>PRK05564 DNA polymerase III subunit delta'; Validated

Probab=98.03  E-value=0.00017  Score=67.56  Aligned_cols=164  Identities=15%  Similarity=0.178  Sum_probs=99.6

Q ss_pred             HHHHHHHHhcCCCCCCCCceEEEEEcCCCCcHHHHHHHHhccc----cccccccceEEEE-ecCCCCHHHHHHHHHHHhh
Q 038448          142 KEETVKLLLRDDLRTDDGLSVIPIIGTGRIGKTTLAQLAYSDV----RVHNHFDLKAWTC-VSEDFDIIRVTKSILKSIA  216 (385)
Q Consensus       142 ~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~----~~~~~F~~~~wv~-vs~~~~~~~~~~~il~~l~  216 (385)
                      ++.+.+++..+     .-...+.++|+.|+||||+|+.++...    ....|+|...|.. -+....... .+++...+.
T Consensus        13 ~~~l~~~~~~~-----~~~ha~Lf~G~~G~Gk~~la~~~a~~l~c~~~~~~h~D~~~~~~~~~~~i~v~~-ir~~~~~~~   86 (313)
T PRK05564         13 KNRIKNSIIKN-----RFSHAHIIVGEDGIGKSLLAKEIALKILGKSQQREYVDIIEFKPINKKSIGVDD-IRNIIEEVN   86 (313)
T ss_pred             HHHHHHHHHcC-----CCCceEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCeEEeccccCCCCCHHH-HHHHHHHHh
Confidence            45556666332     234678899999999999998887631    1234566656655 233444444 445555554


Q ss_pred             cCCCCCc---cchH--HhhchhhHhhHhhhccCCCCCcEEEEEcCChhHH-hhc-CCCCcccCCCCChhhHHhhhhcccc
Q 038448          217 SDQLVDD---HDLN--LLQKYNDWTNRSRLFEAGAPGSKIVFTTRNLGVA-EKM-GPLPAYPLKELSNDDCLSVFSPHSL  289 (385)
Q Consensus       217 ~~~~~~~---~~~~--~l~~~~~w~~l~~~l~~~~~gs~IivTTR~~~va-~~~-~~~~~~~l~~L~~~~a~~Lf~~~a~  289 (385)
                      .......   --++  +.-+...|+.+...+.....++.+|++|.+.+.. ..+ +....+.+.+++.++....+.+.. 
T Consensus        87 ~~p~~~~~kv~iI~~ad~m~~~a~naLLK~LEepp~~t~~il~~~~~~~ll~TI~SRc~~~~~~~~~~~~~~~~l~~~~-  165 (313)
T PRK05564         87 KKPYEGDKKVIIIYNSEKMTEQAQNAFLKTIEEPPKGVFIILLCENLEQILDTIKSRCQIYKLNRLSKEEIEKFISYKY-  165 (313)
T ss_pred             cCcccCCceEEEEechhhcCHHHHHHHHHHhcCCCCCeEEEEEeCChHhCcHHHHhhceeeeCCCcCHHHHHHHHHHHh-
Confidence            3322110   0011  1115667888998888777889998888765422 211 122678899999999877665442 


Q ss_pred             CCCCCCCCccHHHHHHHHHHHcCCChHHHH
Q 038448          290 GEKDFSTHPSLKEIGEKIVKKCNGLPLVAK  319 (385)
Q Consensus       290 ~~~~~~~~~~l~~~~~~i~~~c~glPLAi~  319 (385)
                      ...       -.+.+..++..++|.|.-+.
T Consensus       166 ~~~-------~~~~~~~l~~~~~g~~~~a~  188 (313)
T PRK05564        166 NDI-------KEEEKKSAIAFSDGIPGKVE  188 (313)
T ss_pred             cCC-------CHHHHHHHHHHcCCCHHHHH
Confidence            110       12346678899999886543

>PRK05642 DNA replication initiation factor; Validated

Probab=98.02  E-value=3.4e-05  Score=68.96  Aligned_cols=152  Identities=17%  Similarity=0.260  Sum_probs=86.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecCCCCHHHHHHHHHHHhhcCCCCCccchHHhhchhhHhh-H
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDFDIIRVTKSILKSIASDQLVDDHDLNLLQKYNDWTN-R  238 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~il~~l~~~~~~~~~~~~~l~~~~~w~~-l  238 (385)
                      ...+.|+|.+|+|||.|++.+++.  ....-..++|++..+-..   ....+.+.+...+.-..++++.+.....|+. +
T Consensus        45 ~~~l~l~G~~G~GKTHLl~a~~~~--~~~~~~~v~y~~~~~~~~---~~~~~~~~~~~~d~LiiDDi~~~~~~~~~~~~L  119 (234)
T PRK05642         45 ESLIYLWGKDGVGRSHLLQAACLR--FEQRGEPAVYLPLAELLD---RGPELLDNLEQYELVCLDDLDVIAGKADWEEAL  119 (234)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHH--HHhCCCcEEEeeHHHHHh---hhHHHHHhhhhCCEEEEechhhhcCChHHHHHH
Confidence            367899999999999999999874  222223567777543111   1123333332222112344444444455654 4


Q ss_pred             hhhccC-CCCCcEEEEEcCChhH---------HhhcCCCCcccCCCCChhhHHhhhhccccCCCCCCCCccHHHHHHHHH
Q 038448          239 SRLFEA-GAPGSKIVFTTRNLGV---------AEKMGPLPAYPLKELSNDDCLSVFSPHSLGEKDFSTHPSLKEIGEKIV  308 (385)
Q Consensus       239 ~~~l~~-~~~gs~IivTTR~~~v---------a~~~~~~~~~~l~~L~~~~a~~Lf~~~a~~~~~~~~~~~l~~~~~~i~  308 (385)
                      ...+.. ...|..+|+||+...-         ...+....++.+++++.++-..++..++.... ...+   .++..-|+
T Consensus       120 f~l~n~~~~~g~~ilits~~~p~~l~~~~~~L~SRl~~gl~~~l~~~~~e~~~~il~~ka~~~~-~~l~---~ev~~~L~  195 (234)
T PRK05642        120 FHLFNRLRDSGRRLLLAASKSPRELPIKLPDLKSRLTLALVFQMRGLSDEDKLRALQLRASRRG-LHLT---DEVGHFIL  195 (234)
T ss_pred             HHHHHHHHhcCCEEEEeCCCCHHHcCccCccHHHHHhcCeeeecCCCCHHHHHHHHHHHHHHcC-CCCC---HHHHHHHH
Confidence            443332 2346678998874322         22223345688999999999888886553321 1112   46667778


Q ss_pred             HHcCCChHHHHH
Q 038448          309 KKCNGLPLVAKS  320 (385)
Q Consensus       309 ~~c~glPLAi~~  320 (385)
                      +.+.|..-.+..
T Consensus       196 ~~~~~d~r~l~~  207 (234)
T PRK05642        196 TRGTRSMSALFD  207 (234)
T ss_pred             HhcCCCHHHHHH
Confidence            877776544443

>PRK13342 recombination factor protein RarA; Reviewed

Probab=97.97  E-value=9.8e-05  Score=71.84  Aligned_cols=155  Identities=17%  Similarity=0.131  Sum_probs=81.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecCCCCHHHHHHHHHHHhhcCC---CCCccchHHhh--chh
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDFDIIRVTKSILKSIASDQ---LVDDHDLNLLQ--KYN  233 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~il~~l~~~~---~~~~~~~~~l~--~~~  233 (385)
                      ....+.++|++|+||||||+.+++.  ....|     +.++.......-++.++.......   ....--+++++  ...
T Consensus        35 ~~~~ilL~GppGtGKTtLA~~ia~~--~~~~~-----~~l~a~~~~~~~ir~ii~~~~~~~~~g~~~vL~IDEi~~l~~~  107 (413)
T PRK13342         35 RLSSMILWGPPGTGKTTLARIIAGA--TDAPF-----EALSAVTSGVKDLREVIEEARQRRSAGRRTILFIDEIHRFNKA  107 (413)
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHH--hCCCE-----EEEecccccHHHHHHHHHHHHHhhhcCCceEEEEechhhhCHH
Confidence            3457888999999999999999885  33233     333322222223334444332111   00111122222  222


Q ss_pred             hHhhHhhhccCCCCCcEEEE--EcCChhHH--h-hcCCCCcccCCCCChhhHHhhhhccccCCCCCCCCccHHHHHHHHH
Q 038448          234 DWTNRSRLFEAGAPGSKIVF--TTRNLGVA--E-KMGPLPAYPLKELSNDDCLSVFSPHSLGEKDFSTHPSLKEIGEKIV  308 (385)
Q Consensus       234 ~w~~l~~~l~~~~~gs~Iiv--TTR~~~va--~-~~~~~~~~~l~~L~~~~a~~Lf~~~a~~~~~~~~~~~l~~~~~~i~  308 (385)
                      ..+.+...+.   .|+.+++  ||.+....  . ..+....+.+.+++.++.+.++.+.+....... ..-..+....|+
T Consensus       108 ~q~~LL~~le---~~~iilI~att~n~~~~l~~aL~SR~~~~~~~~ls~e~i~~lL~~~l~~~~~~~-i~i~~~al~~l~  183 (413)
T PRK13342        108 QQDALLPHVE---DGTITLIGATTENPSFEVNPALLSRAQVFELKPLSEEDIEQLLKRALEDKERGL-VELDDEALDALA  183 (413)
T ss_pred             HHHHHHHHhh---cCcEEEEEeCCCChhhhccHHHhccceeeEeCCCCHHHHHHHHHHHHHHhhcCC-CCCCHHHHHHHH
Confidence            3344444443   3554544  34433211  1 112225789999999999999887542211000 011245677899


Q ss_pred             HHcCCChHHHHHHHHH
Q 038448          309 KKCNGLPLVAKSLGGL  324 (385)
Q Consensus       309 ~~c~glPLAi~~~~~~  324 (385)
                      +.|+|.|..+..+...
T Consensus       184 ~~s~Gd~R~aln~Le~  199 (413)
T PRK13342        184 RLANGDARRALNLLEL  199 (413)
T ss_pred             HhCCCCHHHHHHHHHH
Confidence            9999998766554433

>PRK09087 hypothetical protein; Validated

Probab=97.95  E-value=6.7e-05  Score=66.59  Aligned_cols=145  Identities=12%  Similarity=0.081  Sum_probs=83.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecCCCCHHHHHHHHHHHhhcCCCCCccchHHhh-chhhHhhHh
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDFDIIRVTKSILKSIASDQLVDDHDLNLLQ-KYNDWTNRS  239 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~il~~l~~~~~~~~~~~~~l~-~~~~w~~l~  239 (385)
                      +.+.|+|.+|+|||+|++..+...       ...+++..      .+...++..+..... ..++++.+. ....+-.+.
T Consensus        45 ~~l~l~G~~GsGKThLl~~~~~~~-------~~~~i~~~------~~~~~~~~~~~~~~l-~iDDi~~~~~~~~~lf~l~  110 (226)
T PRK09087         45 PVVVLAGPVGSGKTHLASIWREKS-------DALLIHPN------EIGSDAANAAAEGPV-LIEDIDAGGFDETGLFHLI  110 (226)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHhc-------CCEEecHH------HcchHHHHhhhcCeE-EEECCCCCCCCHHHHHHHH
Confidence            668999999999999999988752       12245432      222222222211100 112221111 222233333


Q ss_pred             hhccCCCCCcEEEEEcCC---------hhHHhhcCCCCcccCCCCChhhHHhhhhccccCCCCCCCCccHHHHHHHHHHH
Q 038448          240 RLFEAGAPGSKIVFTTRN---------LGVAEKMGPLPAYPLKELSNDDCLSVFSPHSLGEKDFSTHPSLKEIGEKIVKK  310 (385)
Q Consensus       240 ~~l~~~~~gs~IivTTR~---------~~va~~~~~~~~~~l~~L~~~~a~~Lf~~~a~~~~~~~~~~~l~~~~~~i~~~  310 (385)
                      ..+.  ..|..||+|++.         +.+...+.....+++++++.++-..++.+.+-. .....+   +++..-|++.
T Consensus       111 n~~~--~~g~~ilits~~~p~~~~~~~~dL~SRl~~gl~~~l~~pd~e~~~~iL~~~~~~-~~~~l~---~ev~~~La~~  184 (226)
T PRK09087        111 NSVR--QAGTSLLMTSRLWPSSWNVKLPDLKSRLKAATVVEIGEPDDALLSQVIFKLFAD-RQLYVD---PHVVYYLVSR  184 (226)
T ss_pred             HHHH--hCCCeEEEECCCChHHhccccccHHHHHhCCceeecCCCCHHHHHHHHHHHHHH-cCCCCC---HHHHHHHHHH
Confidence            3333  336679998873         344445556678999999999999999877632 122222   4667778888


Q ss_pred             cCCChHHHHHHHHHh
Q 038448          311 CNGLPLVAKSLGGLL  325 (385)
Q Consensus       311 c~glPLAi~~~~~~L  325 (385)
                      +.|.+-++..+-..|
T Consensus       185 ~~r~~~~l~~~l~~L  199 (226)
T PRK09087        185 MERSLFAAQTIVDRL  199 (226)
T ss_pred             hhhhHHHHHHHHHHH
Confidence            888776665544333

>PRK08118 topology modulation protein; Reviewed

Probab=97.73  E-value=1.6e-05  Score=67.08  Aligned_cols=35  Identities=34%  Similarity=0.579  Sum_probs=28.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcccccc-ccccceEE
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSDVRVH-NHFDLKAW  195 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~~~~~-~~F~~~~w  195 (385)
                      +.|.|+|++|+||||||+.+++...+. -+||..+|
T Consensus         2 ~rI~I~G~~GsGKSTlak~L~~~l~~~~~~lD~l~~   37 (167)
T PRK08118          2 KKIILIGSGGSGKSTLARQLGEKLNIPVHHLDALFW   37 (167)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhCCCceecchhhc
Confidence            358999999999999999999875443 45777775

>PRK14961 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.72  E-value=0.00069  Score=64.73  Aligned_cols=155  Identities=14%  Similarity=0.103  Sum_probs=85.2

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhccccccc-------------------cccceEEEEecCCCCHHHHHHHHHHHhhcCCC
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSDVRVHN-------------------HFDLKAWTCVSEDFDIIRVTKSILKSIASDQL  220 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~-------------------~F~~~~wv~vs~~~~~~~~~~~il~~l~~~~~  220 (385)
                      ...+.++|++|+||||+|+.+.+......                   .+....++..+..... +-+++++..+.....
T Consensus        38 ~h~~L~~Gp~G~GKTtla~~la~~l~c~~~~~~~pc~~c~~c~~~~~~~~~d~~~~~~~~~~~v-~~ir~i~~~~~~~p~  116 (363)
T PRK14961         38 HHAWLLSGTRGVGKTTIARLLAKSLNCQNGITSNPCRKCIICKEIEKGLCLDLIEIDAASRTKV-EEMREILDNIYYSPS  116 (363)
T ss_pred             CeEEEEecCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHHHHhcCCCCceEEecccccCCH-HHHHHHHHHHhcCcc
Confidence            45678999999999999998876421100                   1112233333222233 334556555432211


Q ss_pred             C---CccchHHhh--chhhHhhHhhhccCCCCCcEEEEEcCCh-hHHhhcC-CCCcccCCCCChhhHHhhhhccccCCCC
Q 038448          221 V---DDHDLNLLQ--KYNDWTNRSRLFEAGAPGSKIVFTTRNL-GVAEKMG-PLPAYPLKELSNDDCLSVFSPHSLGEKD  293 (385)
Q Consensus       221 ~---~~~~~~~l~--~~~~w~~l~~~l~~~~~gs~IivTTR~~-~va~~~~-~~~~~~l~~L~~~~a~~Lf~~~a~~~~~  293 (385)
                      .   ..--+++.+  ....++.+...+.......++|++|.+. .+...+. ....+++.+++.++....+...+-... 
T Consensus       117 ~~~~kviIIDEa~~l~~~a~naLLk~lEe~~~~~~fIl~t~~~~~l~~tI~SRc~~~~~~~l~~~el~~~L~~~~~~~g-  195 (363)
T PRK14961        117 KSRFKVYLIDEVHMLSRHSFNALLKTLEEPPQHIKFILATTDVEKIPKTILSRCLQFKLKIISEEKIFNFLKYILIKES-  195 (363)
T ss_pred             cCCceEEEEEChhhcCHHHHHHHHHHHhcCCCCeEEEEEcCChHhhhHHHHhhceEEeCCCCCHHHHHHHHHHHHHHcC-
Confidence            0   011122222  3345666766666555566777766543 3333222 225789999999998877766542211 


Q ss_pred             CCCCccHHHHHHHHHHHcCCChHHHH
Q 038448          294 FSTHPSLKEIGEKIVKKCNGLPLVAK  319 (385)
Q Consensus       294 ~~~~~~l~~~~~~i~~~c~glPLAi~  319 (385)
                      ..   --.+.+..|+..++|.|-.+.
T Consensus       196 ~~---i~~~al~~ia~~s~G~~R~al  218 (363)
T PRK14961        196 ID---TDEYALKLIAYHAHGSMRDAL  218 (363)
T ss_pred             CC---CCHHHHHHHHHHcCCCHHHHH
Confidence            11   113556778999999885433

>PF00308 Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013317 This entry represents the central domain of bacterial DnaA proteins [, , ] that play an important role in initiating and regulating chromosomal replication

Probab=97.70  E-value=0.00017  Score=63.81  Aligned_cols=150  Identities=11%  Similarity=0.143  Sum_probs=82.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcccccccccc--ceEEEEecCCCCHHHHHHHHHHHhhc------------CCCCCcc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFD--LKAWTCVSEDFDIIRVTKSILKSIAS------------DQLVDDH  224 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~--~~~wv~vs~~~~~~~~~~~il~~l~~------------~~~~~~~  224 (385)
                      ....+-|+|..|+|||.|.+.+++.  +....+  .+++++.      .++...+...+..            .+.-..+
T Consensus        33 ~~~~l~l~G~~G~GKTHLL~Ai~~~--~~~~~~~~~v~y~~~------~~f~~~~~~~~~~~~~~~~~~~~~~~DlL~iD  104 (219)
T PF00308_consen   33 RYNPLFLYGPSGLGKTHLLQAIANE--AQKQHPGKRVVYLSA------EEFIREFADALRDGEIEEFKDRLRSADLLIID  104 (219)
T ss_dssp             SSSEEEEEESTTSSHHHHHHHHHHH--HHHHCTTS-EEEEEH------HHHHHHHHHHHHTTSHHHHHHHHCTSSEEEEE
T ss_pred             CCCceEEECCCCCCHHHHHHHHHHH--HHhccccccceeecH------HHHHHHHHHHHHcccchhhhhhhhcCCEEEEe
Confidence            3456789999999999999999986  333222  3556643      3344433333322            1111234


Q ss_pred             chHHhhchhhHhh-HhhhccC-CCCCcEEEEEcCCh---------hHHhhcCCCCcccCCCCChhhHHhhhhccccCCCC
Q 038448          225 DLNLLQKYNDWTN-RSRLFEA-GAPGSKIVFTTRNL---------GVAEKMGPLPAYPLKELSNDDCLSVFSPHSLGEKD  293 (385)
Q Consensus       225 ~~~~l~~~~~w~~-l~~~l~~-~~~gs~IivTTR~~---------~va~~~~~~~~~~l~~L~~~~a~~Lf~~~a~~~~~  293 (385)
                      +++.+.....|.. +...+.. ...|.+||+|+...         .+...+...-.+++.+++.++...++.+.+-... 
T Consensus       105 Di~~l~~~~~~q~~lf~l~n~~~~~~k~li~ts~~~P~~l~~~~~~L~SRl~~Gl~~~l~~pd~~~r~~il~~~a~~~~-  183 (219)
T PF00308_consen  105 DIQFLAGKQRTQEELFHLFNRLIESGKQLILTSDRPPSELSGLLPDLRSRLSWGLVVELQPPDDEDRRRILQKKAKERG-  183 (219)
T ss_dssp             TGGGGTTHHHHHHHHHHHHHHHHHTTSEEEEEESS-TTTTTTS-HHHHHHHHCSEEEEE----HHHHHHHHHHHHHHTT-
T ss_pred             cchhhcCchHHHHHHHHHHHHHHhhCCeEEEEeCCCCccccccChhhhhhHhhcchhhcCCCCHHHHHHHHHHHHHHhC-
Confidence            4455545555554 2222221 13466899999642         2333344456788999999999998888763222 


Q ss_pred             CCCCccHHHHHHHHHHHcCCChHHHHH
Q 038448          294 FSTHPSLKEIGEKIVKKCNGLPLVAKS  320 (385)
Q Consensus       294 ~~~~~~l~~~~~~i~~~c~glPLAi~~  320 (385)
                      ..   --.+++.-|++.+.+..-.+..
T Consensus       184 ~~---l~~~v~~~l~~~~~~~~r~L~~  207 (219)
T PF00308_consen  184 IE---LPEEVIEYLARRFRRDVRELEG  207 (219)
T ss_dssp             -----S-HHHHHHHHHHTTSSHHHHHH
T ss_pred             CC---CcHHHHHHHHHhhcCCHHHHHH
Confidence            11   1245667777777766554443

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.

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

Probab=97.70  E-value=0.00061  Score=59.42  Aligned_cols=155  Identities=20%  Similarity=0.198  Sum_probs=77.1

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecCCCCHHHHHHHHHHHhhcCCCC---CccchHHhhchhh
Q 038448          158 DGLSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDFDIIRVTKSILKSIASDQLV---DDHDLNLLQKYND  234 (385)
Q Consensus       158 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~il~~l~~~~~~---~~~~~~~l~~~~~  234 (385)
                      +.+.-+.+||++|+||||||..+.+.  ....|.   +++... ..-..-+..++..+.....-   +.+.++..+    
T Consensus        48 ~~l~h~lf~GPPG~GKTTLA~IIA~e--~~~~~~---~~sg~~-i~k~~dl~~il~~l~~~~ILFIDEIHRlnk~~----  117 (233)
T PF05496_consen   48 EALDHMLFYGPPGLGKTTLARIIANE--LGVNFK---ITSGPA-IEKAGDLAAILTNLKEGDILFIDEIHRLNKAQ----  117 (233)
T ss_dssp             S---EEEEESSTTSSHHHHHHHHHHH--CT--EE---EEECCC---SCHHHHHHHHT--TT-EEEECTCCC--HHH----
T ss_pred             CCcceEEEECCCccchhHHHHHHHhc--cCCCeE---eccchh-hhhHHHHHHHHHhcCCCcEEEEechhhccHHH----
Confidence            45678899999999999999999986  444452   333211 11112233445554332210   122222111    


Q ss_pred             HhhHhhhcc--------CCCC-----------CcEEEEEcCChhHHhhcCCCC--cccCCCCChhhHHhhhhccccCCCC
Q 038448          235 WTNRSRLFE--------AGAP-----------GSKIVFTTRNLGVAEKMGPLP--AYPLKELSNDDCLSVFSPHSLGEKD  293 (385)
Q Consensus       235 w~~l~~~l~--------~~~~-----------gs~IivTTR~~~va~~~~~~~--~~~l~~L~~~~a~~Lf~~~a~~~~~  293 (385)
                      -+.+..+.-        ..++           =+-|=.|||...+........  ..+++..+.+|-..+..+.+.--. 
T Consensus       118 qe~LlpamEd~~idiiiG~g~~ar~~~~~l~~FTligATTr~g~ls~pLrdRFgi~~~l~~Y~~~el~~Iv~r~a~~l~-  196 (233)
T PF05496_consen  118 QEILLPAMEDGKIDIIIGKGPNARSIRINLPPFTLIGATTRAGLLSSPLRDRFGIVLRLEFYSEEELAKIVKRSARILN-  196 (233)
T ss_dssp             HHHHHHHHHCSEEEEEBSSSSS-BEEEEE----EEEEEESSGCCTSHCCCTTSSEEEE----THHHHHHHHHHCCHCTT-
T ss_pred             HHHHHHHhccCeEEEEeccccccceeeccCCCceEeeeeccccccchhHHhhcceecchhcCCHHHHHHHHHHHHHHhC-
Confidence            111111111        1111           123456888766655544432  347999999999998887652211 


Q ss_pred             CCCCccHHHHHHHHHHHcCCChHHHHHHHHHhh
Q 038448          294 FSTHPSLKEIGEKIVKKCNGLPLVAKSLGGLLR  326 (385)
Q Consensus       294 ~~~~~~l~~~~~~i~~~c~glPLAi~~~~~~L~  326 (385)
                         -+--.+.+.+|+++|.|-|--..-+-...+
T Consensus       197 ---i~i~~~~~~~Ia~rsrGtPRiAnrll~rvr  226 (233)
T PF05496_consen  197 ---IEIDEDAAEEIARRSRGTPRIANRLLRRVR  226 (233)
T ss_dssp             ----EE-HHHHHHHHHCTTTSHHHHHHHHHHHC
T ss_pred             ---CCcCHHHHHHHHHhcCCChHHHHHHHHHHH
Confidence               122357889999999999966555444433

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.

>PRK12402 replication factor C small subunit 2; Reviewed

Probab=97.69  E-value=0.00058  Score=64.51  Aligned_cols=156  Identities=16%  Similarity=0.096  Sum_probs=79.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhcccccccccc-ceEEEEecCCC-----------C--------------HHHHHHHHHH
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFD-LKAWTCVSEDF-----------D--------------IIRVTKSILK  213 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~-~~~wv~vs~~~-----------~--------------~~~~~~~il~  213 (385)
                      .+.+.++|++|+||||+|+.+.+... ...+. ..+.++++.-.           +              ....++.++.
T Consensus        36 ~~~lll~Gp~GtGKT~la~~~~~~l~-~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  114 (337)
T PRK12402         36 LPHLLVQGPPGSGKTAAVRALARELY-GDPWENNFTEFNVADFFDQGKKYLVEDPRFAHFLGTDKRIRSSKIDNFKHVLK  114 (337)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHhc-CcccccceEEechhhhhhcchhhhhcCcchhhhhhhhhhhccchHHHHHHHHH
Confidence            34578999999999999999876421 11111 12344433210           0              1223333333


Q ss_pred             HhhcCCC----CCccchHHhh--chhhHhhHhhhccCCCCCcEEEEEcCChh-HHhhcC-CCCcccCCCCChhhHHhhhh
Q 038448          214 SIASDQL----VDDHDLNLLQ--KYNDWTNRSRLFEAGAPGSKIVFTTRNLG-VAEKMG-PLPAYPLKELSNDDCLSVFS  285 (385)
Q Consensus       214 ~l~~~~~----~~~~~~~~l~--~~~~w~~l~~~l~~~~~gs~IivTTR~~~-va~~~~-~~~~~~l~~L~~~~a~~Lf~  285 (385)
                      ......+    ...--+++.+  ....+..+...+......+++|+||.... +...+. ....+.+.+++.++...++.
T Consensus       115 ~~~~~~~~~~~~~vlilDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~~~~~~~~~L~sr~~~v~~~~~~~~~~~~~l~  194 (337)
T PRK12402        115 EYASYRPLSADYKTILLDNAEALREDAQQALRRIMEQYSRTCRFIIATRQPSKLIPPIRSRCLPLFFRAPTDDELVDVLE  194 (337)
T ss_pred             HHHhcCCCCCCCcEEEEeCcccCCHHHHHHHHHHHHhccCCCeEEEEeCChhhCchhhcCCceEEEecCCCHHHHHHHHH
Confidence            3221111    0011111111  12223345544443345567887775432 222222 22457888999988888777


Q ss_pred             ccccCCCCCCCCccHHHHHHHHHHHcCCChHHHHH
Q 038448          286 PHSLGEKDFSTHPSLKEIGEKIVKKCNGLPLVAKS  320 (385)
Q Consensus       286 ~~a~~~~~~~~~~~l~~~~~~i~~~c~glPLAi~~  320 (385)
                      ..+-... ...   -.+....+++.++|.+-.+..
T Consensus       195 ~~~~~~~-~~~---~~~al~~l~~~~~gdlr~l~~  225 (337)
T PRK12402        195 SIAEAEG-VDY---DDDGLELIAYYAGGDLRKAIL  225 (337)
T ss_pred             HHHHHcC-CCC---CHHHHHHHHHHcCCCHHHHHH
Confidence            6542211 111   145677788889887655443

>COG3903 Predicted ATPase [General function prediction only]

Probab=97.68  E-value=0.00011  Score=68.89  Aligned_cols=163  Identities=17%  Similarity=0.159  Sum_probs=96.3

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHhccccccccccceEEEE-ecCCCCHHHHHHHHHHHhhcCCCCCccchHHhh------
Q 038448          158 DGLSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTC-VSEDFDIIRVTKSILKSIASDQLVDDHDLNLLQ------  230 (385)
Q Consensus       158 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~-vs~~~~~~~~~~~il~~l~~~~~~~~~~~~~l~------  230 (385)
                      ...+.+.++|.|||||||++-++.+   +..-|..-.|+. ...-.+...+.-.....++..........+.+.      
T Consensus        12 ~~~RlvtL~g~ggvgkttl~~~~a~---~~~~~~~~v~~vdl~pitD~~~v~~~~ag~~gl~~~~g~~~~~~~~~~~~~r   88 (414)
T COG3903          12 TALRLVTLTGAGGVGKTTLALQAAH---AASEYADGVAFVDLAPITDPALVFPTLAGALGLHVQPGDSAVDTLVRRIGDR   88 (414)
T ss_pred             hhhheeeeeccCccceehhhhhhHh---HhhhcccceeeeeccccCchhHhHHHHHhhcccccccchHHHHHHHHHHhhh
Confidence            3568999999999999999999987   566676555444 333334444444434434433321111111111      


Q ss_pred             -------chhh----HhhHhhhccCCCCCcEEEEEcCChhHHhhcCCCCcccCCCCChh-hHHhhhhccccCCCC-CCCC
Q 038448          231 -------KYND----WTNRSRLFEAGAPGSKIVFTTRNLGVAEKMGPLPAYPLKELSND-DCLSVFSPHSLGEKD-FSTH  297 (385)
Q Consensus       231 -------~~~~----w~~l~~~l~~~~~gs~IivTTR~~~va~~~~~~~~~~l~~L~~~-~a~~Lf~~~a~~~~~-~~~~  297 (385)
                             +...    -..+...+..+.+.-.|+.|+|.....   .+...+.+.+|+.. ++.++|...+..... ....
T Consensus        89 r~llvldncehl~~~~a~~i~all~~~~~~~~~atsre~~l~---~ge~~~~~~~L~~~d~a~~lf~~ra~~~~~~f~l~  165 (414)
T COG3903          89 RALLVLDNCEHLLDACAALIVALLGACPRLAILATSREAILV---AGEVHRRVPSLSLFDEAIELFVCRAVLVALSFWLT  165 (414)
T ss_pred             hHHHHhcCcHHHHHHHHHHHHHHHccchhhhhHHHhHhhhcc---cccccccCCccccCCchhHHHHHHHHHhccceeec
Confidence                   1111    111222333444555688888864433   33456777777765 678888766532211 1112


Q ss_pred             ccHHHHHHHHHHHcCCChHHHHHHHHHhh
Q 038448          298 PSLKEIGEKIVKKCNGLPLVAKSLGGLLR  326 (385)
Q Consensus       298 ~~l~~~~~~i~~~c~glPLAi~~~~~~L~  326 (385)
                      ........+|+++..|.||+|...++..+
T Consensus       166 ~~~~a~v~~icr~ldg~~laielaaarv~  194 (414)
T COG3903         166 DDNAAAVAEICRRLDGIPLAIELAAARVR  194 (414)
T ss_pred             CCchHHHHHHHHHhhcchHHHHHHHHHHH
Confidence            33356788999999999999999998887

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

Probab=97.61  E-value=0.00048  Score=55.90  Aligned_cols=42  Identities=19%  Similarity=0.095  Sum_probs=29.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecCCC
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDF  202 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~  202 (385)
                      ..+.+.|+|.+|+|||+|++.+++...  ..-..++++..+...
T Consensus        18 ~~~~v~i~G~~G~GKT~l~~~i~~~~~--~~~~~v~~~~~~~~~   59 (151)
T cd00009          18 PPKNLLLYGPPGTGKTTLARAIANELF--RPGAPFLYLNASDLL   59 (151)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHhh--cCCCCeEEEehhhhh
Confidence            346888999999999999999998632  222345666655543

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.

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

Probab=97.60  E-value=0.0003  Score=64.89  Aligned_cols=153  Identities=16%  Similarity=0.222  Sum_probs=86.5

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecCCCCHHHHHHHHHHHhhcCCC----CCccchHHhhchh
Q 038448          158 DGLSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDFDIIRVTKSILKSIASDQL----VDDHDLNLLQKYN  233 (385)
Q Consensus       158 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~il~~l~~~~~----~~~~~~~~l~~~~  233 (385)
                      +.+.-+.+||++|+||||||+.+.+..+...    ..||..|-...-..-.++|+++......    ...--++++...+
T Consensus       160 ~~ipSmIlWGppG~GKTtlArlia~tsk~~S----yrfvelSAt~a~t~dvR~ife~aq~~~~l~krkTilFiDEiHRFN  235 (554)
T KOG2028|consen  160 NRIPSMILWGPPGTGKTTLARLIASTSKKHS----YRFVELSATNAKTNDVRDIFEQAQNEKSLTKRKTILFIDEIHRFN  235 (554)
T ss_pred             CCCCceEEecCCCCchHHHHHHHHhhcCCCc----eEEEEEeccccchHHHHHHHHHHHHHHhhhcceeEEEeHHhhhhh
Confidence            4667888999999999999999998643322    4577777654444445555554432111    0111223322111


Q ss_pred             hHhhHhhhccCCCCCcEEEE--EcCChhHH---hhcCCCCcccCCCCChhhHHhhhhccc--cCC-CC-CCCCcc-----
Q 038448          234 DWTNRSRLFEAGAPGSKIVF--TTRNLGVA---EKMGPLPAYPLKELSNDDCLSVFSPHS--LGE-KD-FSTHPS-----  299 (385)
Q Consensus       234 ~w~~l~~~l~~~~~gs~Iiv--TTR~~~va---~~~~~~~~~~l~~L~~~~a~~Lf~~~a--~~~-~~-~~~~~~-----  299 (385)
                      .- +...++|.-.+|+-++|  ||.++...   ..+..-.++-|++|..++-..++.+-.  .+. .. ...-++     
T Consensus       236 ks-QQD~fLP~VE~G~I~lIGATTENPSFqln~aLlSRC~VfvLekL~~n~v~~iL~raia~l~dser~~~~l~n~s~~v  314 (554)
T KOG2028|consen  236 KS-QQDTFLPHVENGDITLIGATTENPSFQLNAALLSRCRVFVLEKLPVNAVVTILMRAIASLGDSERPTDPLPNSSMFV  314 (554)
T ss_pred             hh-hhhcccceeccCceEEEecccCCCccchhHHHHhccceeEeccCCHHHHHHHHHHHHHhhccccccCCCCCCcchhh
Confidence            11 12235666677876665  77766442   222333678899999999888877622  111 11 111111     


Q ss_pred             HHHHHHHHHHHcCCCh
Q 038448          300 LKEIGEKIVKKCNGLP  315 (385)
Q Consensus       300 l~~~~~~i~~~c~glP  315 (385)
                      ...+.+-++..|.|-.
T Consensus       315 e~siidyla~lsdGDa  330 (554)
T KOG2028|consen  315 EDSIIDYLAYLSDGDA  330 (554)
T ss_pred             hHHHHHHHHHhcCchH
Confidence            2245566777787764

>TIGR00767 rho transcription termination factor Rho

Probab=97.60  E-value=0.00021  Score=67.76  Aligned_cols=57  Identities=16%  Similarity=0.239  Sum_probs=46.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecCC--CCHHHHHHHHHHHhhcC
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSED--FDIIRVTKSILKSIASD  218 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~--~~~~~~~~~il~~l~~~  218 (385)
                      ..++|+|++|.|||||++.+++... .++|+..+||.+.+.  .++.++++.|+..+-..
T Consensus       169 q~~~IvG~~g~GKTtL~~~i~~~I~-~nhfdv~v~VlLIgER~~EVtDLqrsIlg~Vvas  227 (415)
T TIGR00767       169 QRGLIVAPPKAGKTVLLQKIAQAIT-RNHPEVELIVLLIDERPEEVTDMQRSVKGEVVAS  227 (415)
T ss_pred             CEEEEECCCCCChhHHHHHHHHhhc-ccCCceEEEEEEcCCCCccHHHHHHHhhceEEEe
Confidence            4588999999999999999999743 337999999999865  78889999886544333

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

>CHL00181 cbbX CbbX; Provisional

Probab=97.57  E-value=0.0014  Score=60.47  Aligned_cols=126  Identities=14%  Similarity=0.080  Sum_probs=61.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecCCCCHH--------HHHHHHHHHhhcCCCCCccchHHhh--
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDFDII--------RVTKSILKSIASDQLVDDHDLNLLQ--  230 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~--------~~~~~il~~l~~~~~~~~~~~~~l~--  230 (385)
                      ..+.++|.+|+||||+|+.++........-...-|+.++.. ++.        .-...+++...+.-. ..++.+.+-  
T Consensus        60 ~~ill~G~pGtGKT~lAr~la~~~~~~g~~~~~~~~~v~~~-~l~~~~~g~~~~~~~~~l~~a~ggVL-fIDE~~~l~~~  137 (287)
T CHL00181         60 LHMSFTGSPGTGKTTVALKMADILYKLGYIKKGHLLTVTRD-DLVGQYIGHTAPKTKEVLKKAMGGVL-FIDEAYYLYKP  137 (287)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHHHHcCCCCCCceEEecHH-HHHHHHhccchHHHHHHHHHccCCEE-EEEccchhccC
Confidence            34788999999999999999763111111111124444321 110        011233333221100 112222220  


Q ss_pred             ------chhhHhhHhhhccCCCCCcEEEEEcCChhHHhhcC--------CCCcccCCCCChhhHHhhhhccc
Q 038448          231 ------KYNDWTNRSRLFEAGAPGSKIVFTTRNLGVAEKMG--------PLPAYPLKELSNDDCLSVFSPHS  288 (385)
Q Consensus       231 ------~~~~w~~l~~~l~~~~~gs~IivTTR~~~va~~~~--------~~~~~~l~~L~~~~a~~Lf~~~a  288 (385)
                            ..+.-..+...+.....+.+||+++....+.....        ....+.+.+++.++..+++...+
T Consensus       138 ~~~~~~~~e~~~~L~~~me~~~~~~~vI~ag~~~~~~~~~~~np~L~sR~~~~i~F~~~t~~el~~I~~~~l  209 (287)
T CHL00181        138 DNERDYGSEAIEILLQVMENQRDDLVVIFAGYKDRMDKFYESNPGLSSRIANHVDFPDYTPEELLQIAKIML  209 (287)
T ss_pred             CCccchHHHHHHHHHHHHhcCCCCEEEEEeCCcHHHHHHHhcCHHHHHhCCceEEcCCcCHHHHHHHHHHHH
Confidence                  11222334444444445567777776544332111        12357788888888877776654

>TIGR02903 spore_lon_C ATP-dependent protease, Lon family

Probab=97.57  E-value=0.0098  Score=60.76  Aligned_cols=119  Identities=13%  Similarity=0.113  Sum_probs=62.0

Q ss_pred             hHhhHhhhccCCCCCcEEEE--EcCChhH-HhhcC-CCCcccCCCCChhhHHhhhhccccCCCCCCCCccHHHHHHHHHH
Q 038448          234 DWTNRSRLFEAGAPGSKIVF--TTRNLGV-AEKMG-PLPAYPLKELSNDDCLSVFSPHSLGEKDFSTHPSLKEIGEKIVK  309 (385)
Q Consensus       234 ~w~~l~~~l~~~~~gs~Iiv--TTR~~~v-a~~~~-~~~~~~l~~L~~~~a~~Lf~~~a~~~~~~~~~~~l~~~~~~i~~  309 (385)
                      .|..+...+....+..-|++  ||++... ...+. ....+.+.+++.++.+.++.+.+-.. .....   .+....|.+
T Consensus       308 ~~~~ik~~~~~~~~~~~VLI~aTt~~~~~l~~aLrSR~~~i~~~pls~edi~~Il~~~a~~~-~v~ls---~eal~~L~~  383 (615)
T TIGR02903       308 VPKYIKKLFEEGAPADFVLIGATTRDPEEINPALRSRCAEVFFEPLTPEDIALIVLNAAEKI-NVHLA---AGVEELIAR  383 (615)
T ss_pred             cchhhhhhcccCccceEEEEEeccccccccCHHHHhceeEEEeCCCCHHHHHHHHHHHHHHc-CCCCC---HHHHHHHHH
Confidence            35566655555455544555  5664432 11111 11356789999999999998865321 11111   344555666


Q ss_pred             HcCCChHHHHHHHHHhhccc--CCC--CccCcHHHHHHHHHHHHHhccccce
Q 038448          310 KCNGLPLVAKSLGGLLRGFL--NHE--SDKKQMENLGRKYFQELYSRLFFQL  357 (385)
Q Consensus       310 ~c~glPLAi~~~~~~L~g~~--~~~--~~~~~~e~~~~~~~~~Lv~rsll~~  357 (385)
                      .+..-+-|+..++.+. ++.  ...  ........+....+.+.+..+=+.|
T Consensus       384 ys~~gRraln~L~~~~-~~~~~~~~~~~~~~~~~~I~~edv~~~l~~~r~~~  434 (615)
T TIGR02903       384 YTIEGRKAVNILADVY-GYALYRAAEAGKENDKVTITQDDVYEVIQISRLSP  434 (615)
T ss_pred             CCCcHHHHHHHHHHHH-HHHHHHHHHhccCCCCeeECHHHHHHHhCCCcCcc
Confidence            6665578887776653 221  000  0000111234455677777665543

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.

>PRK12323 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.57  E-value=0.0011  Score=66.63  Aligned_cols=173  Identities=12%  Similarity=0.070  Sum_probs=92.9

Q ss_pred             hhhHHHHHHHHhcCCCCCCCCceEEEEEcCCCCcHHHHHHHHhccccc------------------------cccccceE
Q 038448          139 DKEKEETVKLLLRDDLRTDDGLSVIPIIGTGRIGKTTLAQLAYSDVRV------------------------HNHFDLKA  194 (385)
Q Consensus       139 ~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~------------------------~~~F~~~~  194 (385)
                      +.-++.|.+++..+.     -...+.++|..|+||||+|+.+.+...-                        ...|...+
T Consensus        22 e~vv~~L~~al~~gR-----LpHA~LFtGP~GvGKTTLAriLAkaLnC~~p~~~~g~~~~PCG~C~sC~~I~aG~hpDvi   96 (700)
T PRK12323         22 EHVVRALTHALEQQR-----LHHAYLFTGTRGVGKTTLSRILAKSLNCTGADGEGGITAQPCGQCRACTEIDAGRFVDYI   96 (700)
T ss_pred             HHHHHHHHHHHHhCC-----CceEEEEECCCCCCHHHHHHHHHHHhcCCCccccccCCCCCCcccHHHHHHHcCCCCcce
Confidence            333455566664432     2356789999999999999887653211                        01122234


Q ss_pred             EEEecCCCCHHHHHHHHHHHhhcCCCC---CccchHHhh--chhhHhhHhhhccCCCCCcEEEE-EcCChhHHhhcCC-C
Q 038448          195 WTCVSEDFDIIRVTKSILKSIASDQLV---DDHDLNLLQ--KYNDWTNRSRLFEAGAPGSKIVF-TTRNLGVAEKMGP-L  267 (385)
Q Consensus       195 wv~vs~~~~~~~~~~~il~~l~~~~~~---~~~~~~~l~--~~~~w~~l~~~l~~~~~gs~Iiv-TTR~~~va~~~~~-~  267 (385)
                      ++..+....+.+ +++|++.+......   ..-.+++..  +...++.+...+..-..+..+|+ ||....+...+.+ .
T Consensus        97 EIdAas~~gVDd-IReLie~~~~~P~~gr~KViIIDEah~Ls~~AaNALLKTLEEPP~~v~FILaTtep~kLlpTIrSRC  175 (700)
T PRK12323         97 EMDAASNRGVDE-MAQLLDKAVYAPTAGRFKVYMIDEVHMLTNHAFNAMLKTLEEPPEHVKFILATTDPQKIPVTVLSRC  175 (700)
T ss_pred             EecccccCCHHH-HHHHHHHHHhchhcCCceEEEEEChHhcCHHHHHHHHHhhccCCCCceEEEEeCChHhhhhHHHHHH
Confidence            454443333333 34455544322110   111122222  44556667766655445566555 5544455433322 2


Q ss_pred             CcccCCCCChhhHHhhhhccccCCCCCCCCccHHHHHHHHHHHcCCChHHHHHH
Q 038448          268 PAYPLKELSNDDCLSVFSPHSLGEKDFSTHPSLKEIGEKIVKKCNGLPLVAKSL  321 (385)
Q Consensus       268 ~~~~l~~L~~~~a~~Lf~~~a~~~~~~~~~~~l~~~~~~i~~~c~glPLAi~~~  321 (385)
                      ..+.+..++.++..+.+.+.+-. ....   .-.+....|++.++|.|.-...+
T Consensus       176 q~f~f~~ls~eei~~~L~~Il~~-Egi~---~d~eAL~~IA~~A~Gs~RdALsL  225 (700)
T PRK12323        176 LQFNLKQMPPGHIVSHLDAILGE-EGIA---HEVNALRLLAQAAQGSMRDALSL  225 (700)
T ss_pred             HhcccCCCChHHHHHHHHHHHHH-cCCC---CCHHHHHHHHHHcCCCHHHHHHH
Confidence            57899999999988877755421 1111   11345577899999988644433

>PRK07003 DNA polymerase III subunits gamma and tau; Validated

Probab=97.57  E-value=0.0014  Score=66.87  Aligned_cols=173  Identities=10%  Similarity=0.058  Sum_probs=95.9

Q ss_pred             hhhHHHHHHHHhcCCCCCCCCceEEEEEcCCCCcHHHHHHHHhcccccc-------------------ccccceEEEEec
Q 038448          139 DKEKEETVKLLLRDDLRTDDGLSVIPIIGTGRIGKTTLAQLAYSDVRVH-------------------NHFDLKAWTCVS  199 (385)
Q Consensus       139 ~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~-------------------~~F~~~~wv~vs  199 (385)
                      +.-++.|.+++..+.     -...+.++|..|+||||+|+.+.+...-.                   ..|...+++..+
T Consensus        22 e~Vv~~L~~aL~~gR-----L~HAyLFtGPpGvGKTTlAriLAKaLnCe~~~~~~PCG~C~sCr~I~~G~h~DviEIDAa   96 (830)
T PRK07003         22 EHVVRALTHALDGGR-----LHHAYLFTGTRGVGKTTLSRIFAKALNCETGVTSQPCGVCRACREIDEGRFVDYVEMDAA   96 (830)
T ss_pred             HHHHHHHHHHHhcCC-----CCeEEEEECCCCCCHHHHHHHHHHHhcCccCCCCCCCcccHHHHHHhcCCCceEEEeccc
Confidence            334455566664322     24566799999999999998776532111                   122234555544


Q ss_pred             CCCCHHHHHHHHHHHhhcCCCC---CccchHHhh--chhhHhhHhhhccCCCCCcEEEEEcCCh-hHHhhcC-CCCcccC
Q 038448          200 EDFDIIRVTKSILKSIASDQLV---DDHDLNLLQ--KYNDWTNRSRLFEAGAPGSKIVFTTRNL-GVAEKMG-PLPAYPL  272 (385)
Q Consensus       200 ~~~~~~~~~~~il~~l~~~~~~---~~~~~~~l~--~~~~w~~l~~~l~~~~~gs~IivTTR~~-~va~~~~-~~~~~~l  272 (385)
                      ....+.+ ++++++........   ....+++..  ....|+.+...+..-....++|+||.+. .+...+. ....+.+
T Consensus        97 s~rgVDd-IReLIe~a~~~P~~gr~KVIIIDEah~LT~~A~NALLKtLEEPP~~v~FILaTtd~~KIp~TIrSRCq~f~F  175 (830)
T PRK07003         97 SNRGVDE-MAALLERAVYAPVDARFKVYMIDEVHMLTNHAFNAMLKTLEEPPPHVKFILATTDPQKIPVTVLSRCLQFNL  175 (830)
T ss_pred             ccccHHH-HHHHHHHHHhccccCCceEEEEeChhhCCHHHHHHHHHHHHhcCCCeEEEEEECChhhccchhhhheEEEec
Confidence            3333332 34455544322110   111122222  3455777777776555677877777654 3332222 2256899


Q ss_pred             CCCChhhHHhhhhccccCCCCCCCCccHHHHHHHHHHHcCCCh-HHHHHH
Q 038448          273 KELSNDDCLSVFSPHSLGEKDFSTHPSLKEIGEKIVKKCNGLP-LVAKSL  321 (385)
Q Consensus       273 ~~L~~~~a~~Lf~~~a~~~~~~~~~~~l~~~~~~i~~~c~glP-LAi~~~  321 (385)
                      +.++.++..+.+.+.+-. +...   --.+....|++.++|.. -|+..+
T Consensus       176 k~Ls~eeIv~~L~~Il~~-EgI~---id~eAL~lIA~~A~GsmRdALsLL  221 (830)
T PRK07003        176 KQMPAGHIVSHLERILGE-ERIA---FEPQALRLLARAAQGSMRDALSLT  221 (830)
T ss_pred             CCcCHHHHHHHHHHHHHH-cCCC---CCHHHHHHHHHHcCCCHHHHHHHH
Confidence            999999998888765422 1111   12456678899998854 455553

>PRK06645 DNA polymerase III subunits gamma and tau; Validated

Probab=97.57  E-value=0.0031  Score=62.46  Aligned_cols=154  Identities=16%  Similarity=0.101  Sum_probs=86.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhcccccccc----------c-------------cceEEEEecCCCCHHHHHHHHHHHhh
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSDVRVHNH----------F-------------DLKAWTCVSEDFDIIRVTKSILKSIA  216 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~----------F-------------~~~~wv~vs~~~~~~~~~~~il~~l~  216 (385)
                      ...+.++|++|+||||+|+.+++...-...          +             .-++.+.......+.+ +++++....
T Consensus        43 ~~a~Lf~Gp~G~GKTT~ArilAk~Lnc~~~~~~~~~~~~C~~C~~C~~i~~~~h~Dv~eidaas~~~vd~-Ir~iie~a~  121 (507)
T PRK06645         43 AGGYLLTGIRGVGKTTSARIIAKAVNCSALITENTTIKTCEQCTNCISFNNHNHPDIIEIDAASKTSVDD-IRRIIESAE  121 (507)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHhcCccccccCcCcCCCCCChHHHHHhcCCCCcEEEeeccCCCCHHH-HHHHHHHHH
Confidence            467889999999999999998764211100          0             1122333333333333 344555443


Q ss_pred             cCCCC---CccchHHhh--chhhHhhHhhhccCCCCCcEEE-EEcCChhHHhhcCC-CCcccCCCCChhhHHhhhhcccc
Q 038448          217 SDQLV---DDHDLNLLQ--KYNDWTNRSRLFEAGAPGSKIV-FTTRNLGVAEKMGP-LPAYPLKELSNDDCLSVFSPHSL  289 (385)
Q Consensus       217 ~~~~~---~~~~~~~l~--~~~~w~~l~~~l~~~~~gs~Ii-vTTR~~~va~~~~~-~~~~~l~~L~~~~a~~Lf~~~a~  289 (385)
                      .....   ..--+++..  ....|+.+...+......+.+| .||+...+...+.. ...+.+.+++.++....+...+-
T Consensus       122 ~~P~~~~~KVvIIDEa~~Ls~~a~naLLk~LEepp~~~vfI~aTte~~kI~~tI~SRc~~~ef~~ls~~el~~~L~~i~~  201 (507)
T PRK06645        122 YKPLQGKHKIFIIDEVHMLSKGAFNALLKTLEEPPPHIIFIFATTEVQKIPATIISRCQRYDLRRLSFEEIFKLLEYITK  201 (507)
T ss_pred             hccccCCcEEEEEEChhhcCHHHHHHHHHHHhhcCCCEEEEEEeCChHHhhHHHHhcceEEEccCCCHHHHHHHHHHHHH
Confidence            22110   001112212  3456777777776555566655 45555555544332 25688999999999988887653


Q ss_pred             CCCCCCCCccHHHHHHHHHHHcCCChHHH
Q 038448          290 GEKDFSTHPSLKEIGEKIVKKCNGLPLVA  318 (385)
Q Consensus       290 ~~~~~~~~~~l~~~~~~i~~~c~glPLAi  318 (385)
                      ... ...   -.+....|++.++|.+--+
T Consensus       202 ~eg-i~i---e~eAL~~Ia~~s~GslR~a  226 (507)
T PRK06645        202 QEN-LKT---DIEALRIIAYKSEGSARDA  226 (507)
T ss_pred             HcC-CCC---CHHHHHHHHHHcCCCHHHH
Confidence            221 111   1345677899999977444

>TIGR00678 holB DNA polymerase III, delta' subunit

Probab=97.55  E-value=0.0013  Score=56.55  Aligned_cols=146  Identities=14%  Similarity=0.150  Sum_probs=83.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhcccccc--------------------ccccceEEEEecC-CCCHHHHHHHHHHHhhcC
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSDVRVH--------------------NHFDLKAWTCVSE-DFDIIRVTKSILKSIASD  218 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~--------------------~~F~~~~wv~vs~-~~~~~~~~~~il~~l~~~  218 (385)
                      ...+.++|+.|+||||+|..+.....-.                    .+.+ ..++.... .... +.+++++..+...
T Consensus        14 ~~~~L~~G~~G~gkt~~a~~~~~~l~~~~~~~~~~c~~~~~c~~~~~~~~~d-~~~~~~~~~~~~~-~~i~~i~~~~~~~   91 (188)
T TIGR00678        14 AHAYLFAGPEGVGKELLALALAKALLCEQPGGGEPCGECPSCRLIEAGNHPD-LHRLEPEGQSIKV-DQVRELVEFLSRT   91 (188)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHHcCCCCc-EEEeccccCcCCH-HHHHHHHHHHccC
Confidence            3678999999999999998775532111                    1112 23333222 2333 3344455554432


Q ss_pred             CCCC---ccchHHhh--chhhHhhHhhhccCCCCCcEEEEEcCCh-hHHhhcC-CCCcccCCCCChhhHHhhhhccccCC
Q 038448          219 QLVD---DHDLNLLQ--KYNDWTNRSRLFEAGAPGSKIVFTTRNL-GVAEKMG-PLPAYPLKELSNDDCLSVFSPHSLGE  291 (385)
Q Consensus       219 ~~~~---~~~~~~l~--~~~~w~~l~~~l~~~~~gs~IivTTR~~-~va~~~~-~~~~~~l~~L~~~~a~~Lf~~~a~~~  291 (385)
                      ....   .--+++..  ..+.++.+...+......+.+|++|++. .+...+. ....+.+.+++.++....+.+.  + 
T Consensus        92 ~~~~~~kviiide~~~l~~~~~~~Ll~~le~~~~~~~~il~~~~~~~l~~~i~sr~~~~~~~~~~~~~~~~~l~~~--g-  168 (188)
T TIGR00678        92 PQESGRRVVIIEDAERMNEAAANALLKTLEEPPPNTLFILITPSPEKLLPTIRSRCQVLPFPPLSEEALLQWLIRQ--G-  168 (188)
T ss_pred             cccCCeEEEEEechhhhCHHHHHHHHHHhcCCCCCeEEEEEECChHhChHHHHhhcEEeeCCCCCHHHHHHHHHHc--C-
Confidence            2100   01112111  3344666777776555566777777643 2222221 2257899999999988888765  1 


Q ss_pred             CCCCCCccHHHHHHHHHHHcCCChHH
Q 038448          292 KDFSTHPSLKEIGEKIVKKCNGLPLV  317 (385)
Q Consensus       292 ~~~~~~~~l~~~~~~i~~~c~glPLA  317 (385)
                        ..     .+.+..|+..++|.|..
T Consensus       169 --i~-----~~~~~~i~~~~~g~~r~  187 (188)
T TIGR00678       169 --IS-----EEAAELLLALAGGSPGA  187 (188)
T ss_pred             --CC-----HHHHHHHHHHcCCCccc
Confidence              11     35678899999998853

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.

>TIGR02881 spore_V_K stage V sporulation protein K

Probab=97.51  E-value=0.0022  Score=58.34  Aligned_cols=26  Identities=23%  Similarity=0.183  Sum_probs=21.9

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          158 DGLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       158 ~~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      +...-+.++|++|+||||+|+.+++.
T Consensus        40 ~~~~~vll~GppGtGKTtlA~~ia~~   65 (261)
T TIGR02881        40 KQVLHMIFKGNPGTGKTTVARILGKL   65 (261)
T ss_pred             CCcceEEEEcCCCCCHHHHHHHHHHH
Confidence            45567889999999999999998763

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

>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX

Probab=97.51  E-value=0.0022  Score=59.01  Aligned_cols=125  Identities=15%  Similarity=0.071  Sum_probs=61.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecCCCCH--------HHHHHHHHHHhhcCCCCCccchHHhh---
Q 038448          162 VIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDFDI--------IRVTKSILKSIASDQLVDDHDLNLLQ---  230 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~--------~~~~~~il~~l~~~~~~~~~~~~~l~---  230 (385)
                      -+.++|++|.||||+|+.+..............|+.++.. +.        ..-...++.+..+... ..++.+.+.   
T Consensus        60 ~vll~G~pGTGKT~lA~~ia~~l~~~g~~~~~~~v~v~~~-~l~~~~~g~~~~~~~~~~~~a~~gvL-~iDEi~~L~~~~  137 (284)
T TIGR02880        60 HMSFTGNPGTGKTTVALRMAQILHRLGYVRKGHLVSVTRD-DLVGQYIGHTAPKTKEILKRAMGGVL-FIDEAYYLYRPD  137 (284)
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHHHHcCCcccceEEEecHH-HHhHhhcccchHHHHHHHHHccCcEE-EEechhhhccCC
Confidence            5789999999999999766543111111111123433321 00        0112233333322110 122333331   


Q ss_pred             -----chhhHhhHhhhccCCCCCcEEEEEcCChhHHhhc--C------CCCcccCCCCChhhHHhhhhccc
Q 038448          231 -----KYNDWTNRSRLFEAGAPGSKIVFTTRNLGVAEKM--G------PLPAYPLKELSNDDCLSVFSPHS  288 (385)
Q Consensus       231 -----~~~~w~~l~~~l~~~~~gs~IivTTR~~~va~~~--~------~~~~~~l~~L~~~~a~~Lf~~~a  288 (385)
                           ..+.+..+...+.....+.+||+++.....-...  .      ....+++.+++.++-..++...+
T Consensus       138 ~~~~~~~~~~~~Ll~~le~~~~~~~vI~a~~~~~~~~~~~~np~L~sR~~~~i~fp~l~~edl~~I~~~~l  208 (284)
T TIGR02880       138 NERDYGQEAIEILLQVMENQRDDLVVILAGYKDRMDSFFESNPGFSSRVAHHVDFPDYSEAELLVIAGLML  208 (284)
T ss_pred             CccchHHHHHHHHHHHHhcCCCCEEEEEeCCcHHHHHHHhhCHHHHhhCCcEEEeCCcCHHHHHHHHHHHH
Confidence                 1223444555555444556777776543332211  1      12457888898888888877654

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.

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

Probab=97.50  E-value=0.00011  Score=59.19  Aligned_cols=60  Identities=15%  Similarity=0.124  Sum_probs=44.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcccccccc-----ccceEEEEecCCCCHHHHHHHHHHHhhcCCC
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSDVRVHNH-----FDLKAWTCVSEDFDIIRVTKSILKSIASDQL  220 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~-----F~~~~wv~vs~~~~~~~~~~~il~~l~~~~~  220 (385)
                      +-+.+.|+|.+|+|||+++..+..+.  ...     -..++|++.....+...+...|+.++.....
T Consensus         3 ~~~~~~i~G~~G~GKT~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~   67 (131)
T PF13401_consen    3 SQRILVISGPPGSGKTTLIKRLARQL--NAEAEIKNHPDVIYVNCPSSRTPRDFAQEILEALGLPLK   67 (131)
T ss_dssp             ----EEEEE-TTSSHHHHHHHHHHHH--HHHHHHCCCEEEEEEEHHHHSSHHHHHHHHHHHHT-SSS
T ss_pred             CCcccEEEcCCCCCHHHHHHHHHHHh--HHhhhccCCCcEEEEEeCCCCCHHHHHHHHHHHhCcccc
Confidence            34789999999999999999998752  211     3456799988877899999999999987765

>PRK00440 rfc replication factor C small subunit; Reviewed

Probab=97.49  E-value=0.0019  Score=60.46  Aligned_cols=154  Identities=14%  Similarity=0.118  Sum_probs=78.2

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEe--cCCCCHHHHHHHHHHHhhcCCCCC-----ccchHHhh--
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCV--SEDFDIIRVTKSILKSIASDQLVD-----DHDLNLLQ--  230 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v--s~~~~~~~~~~~il~~l~~~~~~~-----~~~~~~l~--  230 (385)
                      .+.+.++|.+|+||||+|+.+.+.. ....+. ..++.+  +...... ...+.+..+....+..     .--+++..  
T Consensus        38 ~~~~ll~G~~G~GKt~~~~~l~~~l-~~~~~~-~~~i~~~~~~~~~~~-~~~~~i~~~~~~~~~~~~~~~vviiDe~~~l  114 (319)
T PRK00440         38 MPHLLFAGPPGTGKTTAALALAREL-YGEDWR-ENFLELNASDERGID-VIRNKIKEFARTAPVGGAPFKIIFLDEADNL  114 (319)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHH-cCCccc-cceEEeccccccchH-HHHHHHHHHHhcCCCCCCCceEEEEeCcccC
Confidence            3457999999999999999998752 111221 122332  2222222 2222222222111000     00111111  


Q ss_pred             chhhHhhHhhhccCCCCCcEEEEEcCCh-hHHhhc-CCCCcccCCCCChhhHHhhhhccccCCCCCCCCccHHHHHHHHH
Q 038448          231 KYNDWTNRSRLFEAGAPGSKIVFTTRNL-GVAEKM-GPLPAYPLKELSNDDCLSVFSPHSLGEKDFSTHPSLKEIGEKIV  308 (385)
Q Consensus       231 ~~~~w~~l~~~l~~~~~gs~IivTTR~~-~va~~~-~~~~~~~l~~L~~~~a~~Lf~~~a~~~~~~~~~~~l~~~~~~i~  308 (385)
                      ..+.+..+...+......+.+|+++... .+.... .....+++.+++.++....+...+-... ...   -.+....++
T Consensus       115 ~~~~~~~L~~~le~~~~~~~lIl~~~~~~~l~~~l~sr~~~~~~~~l~~~ei~~~l~~~~~~~~-~~i---~~~al~~l~  190 (319)
T PRK00440        115 TSDAQQALRRTMEMYSQNTRFILSCNYSSKIIDPIQSRCAVFRFSPLKKEAVAERLRYIAENEG-IEI---TDDALEAIY  190 (319)
T ss_pred             CHHHHHHHHHHHhcCCCCCeEEEEeCCccccchhHHHHhheeeeCCCCHHHHHHHHHHHHHHcC-CCC---CHHHHHHHH
Confidence            2223445555555444556777776432 121111 1124578899999988777776543211 111   145677889


Q ss_pred             HHcCCChHHHHH
Q 038448          309 KKCNGLPLVAKS  320 (385)
Q Consensus       309 ~~c~glPLAi~~  320 (385)
                      +.++|.+--+..
T Consensus       191 ~~~~gd~r~~~~  202 (319)
T PRK00440        191 YVSEGDMRKAIN  202 (319)
T ss_pred             HHcCCCHHHHHH
Confidence            999998755433

>PRK14949 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.48  E-value=0.002  Score=66.91  Aligned_cols=155  Identities=16%  Similarity=0.122  Sum_probs=85.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhcccccccc-------------------ccceEEEEecCCCCHHHHHHHHHHHhhcCCC
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSDVRVHNH-------------------FDLKAWTCVSEDFDIIRVTKSILKSIASDQL  220 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~-------------------F~~~~wv~vs~~~~~~~~~~~il~~l~~~~~  220 (385)
                      ...+.++|+.|+||||+|+.+.+...-...                   |.-.+++..+....+ +.+++|+..+.....
T Consensus        38 ~HAyLFtGPpGtGKTTLARiLAk~Lnce~~~~~~pCg~C~sC~~i~~g~~~DviEidAas~~kV-DdIReLie~v~~~P~  116 (944)
T PRK14949         38 HHAYLFTGTRGVGKTSLARLFAKGLNCEQGVTATPCGVCSSCVEIAQGRFVDLIEVDAASRTKV-DDTRELLDNVQYRPS  116 (944)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHhccCccCCCCCCCCCchHHHHHhcCCCceEEEeccccccCH-HHHHHHHHHHHhhhh
Confidence            355689999999999999998865311111                   111233433222222 334556555432211


Q ss_pred             C---CccchHHhh--chhhHhhHhhhccCCCCCcEEEEEcCC-hhHHhhcC-CCCcccCCCCChhhHHhhhhccccCCCC
Q 038448          221 V---DDHDLNLLQ--KYNDWTNRSRLFEAGAPGSKIVFTTRN-LGVAEKMG-PLPAYPLKELSNDDCLSVFSPHSLGEKD  293 (385)
Q Consensus       221 ~---~~~~~~~l~--~~~~w~~l~~~l~~~~~gs~IivTTR~-~~va~~~~-~~~~~~l~~L~~~~a~~Lf~~~a~~~~~  293 (385)
                      .   ..-.+++.+  ....++.+...+-......++|++|.+ ..+...+- ....|++.+|+.++....+.+.+-.. .
T Consensus       117 ~gk~KViIIDEAh~LT~eAqNALLKtLEEPP~~vrFILaTTe~~kLl~TIlSRCq~f~fkpLs~eEI~~~L~~il~~E-g  195 (944)
T PRK14949        117 RGRFKVYLIDEVHMLSRSSFNALLKTLEEPPEHVKFLLATTDPQKLPVTVLSRCLQFNLKSLTQDEIGTQLNHILTQE-Q  195 (944)
T ss_pred             cCCcEEEEEechHhcCHHHHHHHHHHHhccCCCeEEEEECCCchhchHHHHHhheEEeCCCCCHHHHHHHHHHHHHHc-C
Confidence            0   111122222  455666676666554455666655543 44443322 22679999999999988877654211 1


Q ss_pred             CCCCccHHHHHHHHHHHcCCChHHHH
Q 038448          294 FSTHPSLKEIGEKIVKKCNGLPLVAK  319 (385)
Q Consensus       294 ~~~~~~l~~~~~~i~~~c~glPLAi~  319 (385)
                      .   .--.+....|++.++|.|--+.
T Consensus       196 I---~~edeAL~lIA~~S~Gd~R~AL  218 (944)
T PRK14949        196 L---PFEAEALTLLAKAANGSMRDAL  218 (944)
T ss_pred             C---CCCHHHHHHHHHHcCCCHHHHH
Confidence            1   1123566779999999885333

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

Probab=97.45  E-value=0.001  Score=68.71  Aligned_cols=146  Identities=16%  Similarity=0.148  Sum_probs=72.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecC--CCCHHHHHHHHHHHhhcCCCCCccchHHhh--chhh
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSE--DFDIIRVTKSILKSIASDQLVDDHDLNLLQ--KYND  234 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~--~~~~~~~~~~il~~l~~~~~~~~~~~~~l~--~~~~  234 (385)
                      ....+.++|++|+||||||+.+++.  ....|.   .++.+.  ..+....+..+...+........--++++.  +...
T Consensus        51 ~~~slLL~GPpGtGKTTLA~aIA~~--~~~~f~---~lna~~~~i~dir~~i~~a~~~l~~~~~~~IL~IDEIh~Ln~~q  125 (725)
T PRK13341         51 RVGSLILYGPPGVGKTTLARIIANH--TRAHFS---SLNAVLAGVKDLRAEVDRAKERLERHGKRTILFIDEVHRFNKAQ  125 (725)
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHH--hcCcce---eehhhhhhhHHHHHHHHHHHHHhhhcCCceEEEEeChhhCCHHH
Confidence            4456789999999999999999985  344442   122111  011222222222212111110111122222  2233


Q ss_pred             HhhHhhhccCCCCCcEEEEE--cCChh--HHhhc-CCCCcccCCCCChhhHHhhhhccccC------CCCCCCCccHHHH
Q 038448          235 WTNRSRLFEAGAPGSKIVFT--TRNLG--VAEKM-GPLPAYPLKELSNDDCLSVFSPHSLG------EKDFSTHPSLKEI  303 (385)
Q Consensus       235 w~~l~~~l~~~~~gs~IivT--TR~~~--va~~~-~~~~~~~l~~L~~~~a~~Lf~~~a~~------~~~~~~~~~l~~~  303 (385)
                      ++.+...+   ..|+.++++  |.+..  +.... +....+.+.+|+.++...++.+.+-.      .....   --.+.
T Consensus       126 QdaLL~~l---E~g~IiLI~aTTenp~~~l~~aL~SR~~v~~l~pLs~edi~~IL~~~l~~~~~~~g~~~v~---I~dea  199 (725)
T PRK13341        126 QDALLPWV---ENGTITLIGATTENPYFEVNKALVSRSRLFRLKSLSDEDLHQLLKRALQDKERGYGDRKVD---LEPEA  199 (725)
T ss_pred             HHHHHHHh---cCceEEEEEecCCChHhhhhhHhhccccceecCCCCHHHHHHHHHHHHHHHHhhcCCcccC---CCHHH
Confidence            44444433   335555553  44332  21111 12357899999999998888765421      11111   12345


Q ss_pred             HHHHHHHcCCCh
Q 038448          304 GEKIVKKCNGLP  315 (385)
Q Consensus       304 ~~~i~~~c~glP  315 (385)
                      ...|++.+.|..
T Consensus       200 L~~La~~s~GD~  211 (725)
T PRK13341        200 EKHLVDVANGDA  211 (725)
T ss_pred             HHHHHHhCCCCH
Confidence            677888888753

>PLN03025 replication factor C subunit; Provisional

Probab=97.45  E-value=0.0023  Score=60.03  Aligned_cols=151  Identities=15%  Similarity=0.103  Sum_probs=77.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhcccccccccc-ceEEEEecCCCCHHHHHHHHHHHhhcCCC------CCccchHHhh--
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFD-LKAWTCVSEDFDIIRVTKSILKSIASDQL------VDDHDLNLLQ--  230 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~-~~~wv~vs~~~~~~~~~~~il~~l~~~~~------~~~~~~~~l~--  230 (385)
                      ..-+.++|++|+||||+|..+.+.. ....|. ..+-++.+...+. +.++++++.+.....      ...--+++..  
T Consensus        34 ~~~lll~Gp~G~GKTtla~~la~~l-~~~~~~~~~~eln~sd~~~~-~~vr~~i~~~~~~~~~~~~~~~kviiiDE~d~l  111 (319)
T PLN03025         34 MPNLILSGPPGTGKTTSILALAHEL-LGPNYKEAVLELNASDDRGI-DVVRNKIKMFAQKKVTLPPGRHKIVILDEADSM  111 (319)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHH-hcccCccceeeecccccccH-HHHHHHHHHHHhccccCCCCCeEEEEEechhhc
Confidence            3446799999999999999987742 112232 1222333333332 234444433321110      0011112222  


Q ss_pred             chhhHhhHhhhccCCCCCcEEEEEcCCh-hHHhhcC-CCCcccCCCCChhhHHhhhhccccCCCCCCCCccHHHHHHHHH
Q 038448          231 KYNDWTNRSRLFEAGAPGSKIVFTTRNL-GVAEKMG-PLPAYPLKELSNDDCLSVFSPHSLGEKDFSTHPSLKEIGEKIV  308 (385)
Q Consensus       231 ~~~~w~~l~~~l~~~~~gs~IivTTR~~-~va~~~~-~~~~~~l~~L~~~~a~~Lf~~~a~~~~~~~~~~~l~~~~~~i~  308 (385)
                      .......+...+......+++|+++... .+...+. ....+++.+++.++....+...+-.. ....+   .+....|+
T Consensus       112 t~~aq~aL~~~lE~~~~~t~~il~~n~~~~i~~~L~SRc~~i~f~~l~~~~l~~~L~~i~~~e-gi~i~---~~~l~~i~  187 (319)
T PLN03025        112 TSGAQQALRRTMEIYSNTTRFALACNTSSKIIEPIQSRCAIVRFSRLSDQEILGRLMKVVEAE-KVPYV---PEGLEAII  187 (319)
T ss_pred             CHHHHHHHHHHHhcccCCceEEEEeCCccccchhHHHhhhcccCCCCCHHHHHHHHHHHHHHc-CCCCC---HHHHHHHH
Confidence            2222333444443334556777766432 2221111 12568999999999888877665221 11111   35677889


Q ss_pred             HHcCCChH
Q 038448          309 KKCNGLPL  316 (385)
Q Consensus       309 ~~c~glPL  316 (385)
                      ..++|-.-
T Consensus       188 ~~~~gDlR  195 (319)
T PLN03025        188 FTADGDMR  195 (319)
T ss_pred             HHcCCCHH
Confidence            99998653

>PRK14963 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.43  E-value=0.00048  Score=68.32  Aligned_cols=154  Identities=11%  Similarity=0.044  Sum_probs=84.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhcccccccccc------------------ceEEEEecCCCCHHHHHHHHHHHhhcCCC-
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFD------------------LKAWTCVSEDFDIIRVTKSILKSIASDQL-  220 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~------------------~~~wv~vs~~~~~~~~~~~il~~l~~~~~-  220 (385)
                      ...+.++|++|+||||+|+.+.+.......+.                  .+.+++.+..... +..+++...+..... 
T Consensus        36 ~ha~Lf~GppGtGKTTlA~~lA~~l~c~~~~~~~cg~C~sc~~i~~~~h~dv~el~~~~~~~v-d~iR~l~~~~~~~p~~  114 (504)
T PRK14963         36 GHAYLFSGPRGVGKTTTARLIAMAVNCSGEDPKPCGECESCLAVRRGAHPDVLEIDAASNNSV-EDVRDLREKVLLAPLR  114 (504)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHhccCCCCCCCCcChhhHHHhcCCCCceEEecccccCCH-HHHHHHHHHHhhcccc
Confidence            35679999999999999998876532111121                  1334443333222 333445444332111 


Q ss_pred             --CCccchHHhh--chhhHhhHhhhccCCCCCcEEEEEcCC-hhHHhhcCC-CCcccCCCCChhhHHhhhhccccCCCCC
Q 038448          221 --VDDHDLNLLQ--KYNDWTNRSRLFEAGAPGSKIVFTTRN-LGVAEKMGP-LPAYPLKELSNDDCLSVFSPHSLGEKDF  294 (385)
Q Consensus       221 --~~~~~~~~l~--~~~~w~~l~~~l~~~~~gs~IivTTR~-~~va~~~~~-~~~~~l~~L~~~~a~~Lf~~~a~~~~~~  294 (385)
                        ...--+++..  ....++.+...+......+.+|++|.. ..+...+.. ...+.+.+++.++....+.+.+-... .
T Consensus       115 ~~~kVVIIDEad~ls~~a~naLLk~LEep~~~t~~Il~t~~~~kl~~~I~SRc~~~~f~~ls~~el~~~L~~i~~~eg-i  193 (504)
T PRK14963        115 GGRKVYILDEAHMMSKSAFNALLKTLEEPPEHVIFILATTEPEKMPPTILSRTQHFRFRRLTEEEIAGKLRRLLEAEG-R  193 (504)
T ss_pred             CCCeEEEEECccccCHHHHHHHHHHHHhCCCCEEEEEEcCChhhCChHHhcceEEEEecCCCHHHHHHHHHHHHHHcC-C
Confidence              0011111111  334566677777654455565555543 333332222 35789999999999988887653221 1


Q ss_pred             CCCccHHHHHHHHHHHcCCChHHH
Q 038448          295 STHPSLKEIGEKIVKKCNGLPLVA  318 (385)
Q Consensus       295 ~~~~~l~~~~~~i~~~c~glPLAi  318 (385)
                      ..   -.+....|++.++|.+--+
T Consensus       194 ~i---~~~Al~~ia~~s~GdlR~a  214 (504)
T PRK14963        194 EA---EPEALQLVARLADGAMRDA  214 (504)
T ss_pred             CC---CHHHHHHHHHHcCCCHHHH
Confidence            11   1456778899999987544

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

Probab=97.39  E-value=0.0024  Score=61.62  Aligned_cols=115  Identities=18%  Similarity=0.159  Sum_probs=72.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecCCCCHHHHHHHHHHHhhcCCC--CCccchHHhhchhhHhhHh
Q 038448          162 VIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDFDIIRVTKSILKSIASDQL--VDDHDLNLLQKYNDWTNRS  239 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~il~~l~~~~~--~~~~~~~~l~~~~~w~~l~  239 (385)
                      ++.|.|+-++|||||++.+...  ..+.   .++++..+......-+.+..........  ....-+|++|....|+...
T Consensus        39 i~~i~GpR~~GKTtll~~l~~~--~~~~---~iy~~~~d~~~~~~~l~d~~~~~~~~~~~~~~yifLDEIq~v~~W~~~l  113 (398)
T COG1373          39 IILILGPRQVGKTTLLKLLIKG--LLEE---IIYINFDDLRLDRIELLDLLRAYIELKEREKSYIFLDEIQNVPDWERAL  113 (398)
T ss_pred             EEEEECCccccHHHHHHHHHhh--CCcc---eEEEEecchhcchhhHHHHHHHHHHhhccCCceEEEecccCchhHHHHH
Confidence            9999999999999999666553  2222   5555543322111111222222222111  1234578888999999988


Q ss_pred             hhccCCCCCcEEEEEcCChhHHhhc------CCCCcccCCCCChhhHHh
Q 038448          240 RLFEAGAPGSKIVFTTRNLGVAEKM------GPLPAYPLKELSNDDCLS  282 (385)
Q Consensus       240 ~~l~~~~~gs~IivTTR~~~va~~~------~~~~~~~l~~L~~~~a~~  282 (385)
                      ..+.+..+. +|++|+-+..+....      +....+.+.||+..|-..
T Consensus       114 k~l~d~~~~-~v~itgsss~ll~~~~~~~L~GR~~~~~l~PlSF~Efl~  161 (398)
T COG1373         114 KYLYDRGNL-DVLITGSSSSLLSKEISESLAGRGKDLELYPLSFREFLK  161 (398)
T ss_pred             HHHHccccc-eEEEECCchhhhccchhhhcCCCceeEEECCCCHHHHHh
Confidence            888876666 898888876554322      223568899999988865

>PTZ00202 tuzin; Provisional

Probab=97.38  E-value=0.0043  Score=59.43  Aligned_cols=69  Identities=17%  Similarity=0.170  Sum_probs=48.0

Q ss_pred             hhhHHHHHHHHhcCCCCCCCCceEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecCCCCHHHHHHHHHHHhhcC
Q 038448          139 DKEKEETVKLLLRDDLRTDDGLSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDFDIIRVTKSILKSIASD  218 (385)
Q Consensus       139 ~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~il~~l~~~  218 (385)
                      +.+...+...|....   ....+++.|+|++|+|||||++.+.....    +  ..++.-..  +..+++..|+.+|+..
T Consensus       268 eaEla~Lr~VL~~~d---~~~privvLtG~~G~GKTTLlR~~~~~l~----~--~qL~vNpr--g~eElLr~LL~ALGV~  336 (550)
T PTZ00202        268 EAEESWVRQVLRRLD---TAHPRIVVFTGFRGCGKSSLCRSAVRKEG----M--PAVFVDVR--GTEDTLRSVVKALGVP  336 (550)
T ss_pred             HHHHHHHHHHHhccC---CCCceEEEEECCCCCCHHHHHHHHHhcCC----c--eEEEECCC--CHHHHHHHHHHHcCCC
Confidence            556666666664322   12346999999999999999999987422    2  13333222  6799999999999963

>PRK14087 dnaA chromosomal replication initiation protein; Provisional

Probab=97.37  E-value=0.0013  Score=64.53  Aligned_cols=156  Identities=12%  Similarity=0.073  Sum_probs=87.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhccccccccc--cceEEEEecCCCCHHHHHHHHHHHhhcC-----------CCCCccch
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSDVRVHNHF--DLKAWTCVSEDFDIIRVTKSILKSIASD-----------QLVDDHDL  226 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F--~~~~wv~vs~~~~~~~~~~~il~~l~~~-----------~~~~~~~~  226 (385)
                      ..-+.|+|..|+|||+|++.+.+.  +....  ..+++++.      .+++..+...+...           ...+.--+
T Consensus       141 ~npl~i~G~~G~GKTHLl~Ai~~~--l~~~~~~~~v~yv~~------~~f~~~~~~~l~~~~~~~~~~~~~~~~~dvLiI  212 (450)
T PRK14087        141 YNPLFIYGESGMGKTHLLKAAKNY--IESNFSDLKVSYMSG------DEFARKAVDILQKTHKEIEQFKNEICQNDVLII  212 (450)
T ss_pred             cCceEEECCCCCcHHHHHHHHHHH--HHHhCCCCeEEEEEH------HHHHHHHHHHHHHhhhHHHHHHHHhccCCEEEE
Confidence            355889999999999999999884  22211  23345543      23444443333220           00011112


Q ss_pred             HHhh---chhhHh-hHhhhccC-CCCCcEEEEEcCCh---------hHHhhcCCCCcccCCCCChhhHHhhhhccccCCC
Q 038448          227 NLLQ---KYNDWT-NRSRLFEA-GAPGSKIVFTTRNL---------GVAEKMGPLPAYPLKELSNDDCLSVFSPHSLGEK  292 (385)
Q Consensus       227 ~~l~---~~~~w~-~l~~~l~~-~~~gs~IivTTR~~---------~va~~~~~~~~~~l~~L~~~~a~~Lf~~~a~~~~  292 (385)
                      |+++   ..+.|. .+...+.. ...|..||+|+...         .+...+...-.+.+++++.++-..++.+++-...
T Consensus       213 DDiq~l~~k~~~~e~lf~l~N~~~~~~k~iIltsd~~P~~l~~l~~rL~SR~~~Gl~~~L~~pd~e~r~~iL~~~~~~~g  292 (450)
T PRK14087        213 DDVQFLSYKEKTNEIFFTIFNNFIENDKQLFFSSDKSPELLNGFDNRLITRFNMGLSIAIQKLDNKTATAIIKKEIKNQN  292 (450)
T ss_pred             eccccccCCHHHHHHHHHHHHHHHHcCCcEEEECCCCHHHHhhccHHHHHHHhCCceeccCCcCHHHHHHHHHHHHHhcC
Confidence            3332   222332 23333322 13455788887643         2223334445678999999999999988763211


Q ss_pred             CCCCCccHHHHHHHHHHHcCCChHHHHHHHHHh
Q 038448          293 DFSTHPSLKEIGEKIVKKCNGLPLVAKSLGGLL  325 (385)
Q Consensus       293 ~~~~~~~l~~~~~~i~~~c~glPLAi~~~~~~L  325 (385)
                       .. ..--.++..-|+..++|.|-.+.-+...+
T Consensus       293 -l~-~~l~~evl~~Ia~~~~gd~R~L~gaL~~l  323 (450)
T PRK14087        293 -IK-QEVTEEAINFISNYYSDDVRKIKGSVSRL  323 (450)
T ss_pred             -CC-CCCCHHHHHHHHHccCCCHHHHHHHHHHH
Confidence             10 01224677889999999987776665544

>PRK14962 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.33  E-value=0.0058  Score=60.21  Aligned_cols=159  Identities=15%  Similarity=0.132  Sum_probs=83.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhccccccc-------------------cccceEEEEecCCCCHHHHHHHHHHHhhcCCCC
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSDVRVHN-------------------HFDLKAWTCVSEDFDIIRVTKSILKSIASDQLV  221 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~-------------------~F~~~~wv~vs~~~~~~~~~~~il~~l~~~~~~  221 (385)
                      ..+.++|++|+||||+|+.+.+......                   .+.....++.+...+... ++.|..........
T Consensus        37 ~~~Lf~GPpGtGKTTlA~~lA~~l~~~~~~~~~pc~~c~~c~~i~~g~~~dv~el~aa~~~gid~-iR~i~~~~~~~p~~  115 (472)
T PRK14962         37 HAYIFAGPRGTGKTTVARILAKSLNCENRKGVEPCNECRACRSIDEGTFMDVIELDAASNRGIDE-IRKIRDAVGYRPME  115 (472)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhccccCCCCCCCcccHHHHHHhcCCCCccEEEeCcccCCHHH-HHHHHHHHhhChhc
Confidence            5688999999999999998866421100                   011233444433333433 34455443322110


Q ss_pred             ------CccchHHhhchhhHhhHhhhccCCCCCcEEEEEcCC-hhHHhhcC-CCCcccCCCCChhhHHhhhhccccCCCC
Q 038448          222 ------DDHDLNLLQKYNDWTNRSRLFEAGAPGSKIVFTTRN-LGVAEKMG-PLPAYPLKELSNDDCLSVFSPHSLGEKD  293 (385)
Q Consensus       222 ------~~~~~~~l~~~~~w~~l~~~l~~~~~gs~IivTTR~-~~va~~~~-~~~~~~l~~L~~~~a~~Lf~~~a~~~~~  293 (385)
                            ..++.+.+ .....+.+...+........+|++|.+ ..+...+. ....+.+.+++.++....+...+.... 
T Consensus       116 ~~~kVvIIDE~h~L-t~~a~~~LLk~LE~p~~~vv~Ilattn~~kl~~~L~SR~~vv~f~~l~~~el~~~L~~i~~~eg-  193 (472)
T PRK14962        116 GKYKVYIIDEVHML-TKEAFNALLKTLEEPPSHVVFVLATTNLEKVPPTIISRCQVIEFRNISDELIIKRLQEVAEAEG-  193 (472)
T ss_pred             CCeEEEEEEChHHh-HHHHHHHHHHHHHhCCCcEEEEEEeCChHhhhHHHhcCcEEEEECCccHHHHHHHHHHHHHHcC-
Confidence                  11112222 223344555555443334444444433 34433332 235788999999998887776653211 


Q ss_pred             CCCCccHHHHHHHHHHHcC-CChHHHHHHHHHh
Q 038448          294 FSTHPSLKEIGEKIVKKCN-GLPLVAKSLGGLL  325 (385)
Q Consensus       294 ~~~~~~l~~~~~~i~~~c~-glPLAi~~~~~~L  325 (385)
                      ...   -.+....|++.++ +++.|+..+-.+.
T Consensus       194 i~i---~~eal~~Ia~~s~GdlR~aln~Le~l~  223 (472)
T PRK14962        194 IEI---DREALSFIAKRASGGLRDALTMLEQVW  223 (472)
T ss_pred             CCC---CHHHHHHHHHHhCCCHHHHHHHHHHHH
Confidence            111   1355677888776 4567777766543

>TIGR01242 26Sp45 26S proteasome subunit P45 family

Probab=97.32  E-value=0.0013  Score=62.93  Aligned_cols=149  Identities=12%  Similarity=0.080  Sum_probs=73.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecCCC--CHHHHHHHHHHHhhcCCCC--CccchHHhh-----
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDF--DIIRVTKSILKSIASDQLV--DDHDLNLLQ-----  230 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~--~~~~~~~~il~~l~~~~~~--~~~~~~~l~-----  230 (385)
                      .+-+.++|++|+|||+||+.+++.  ....|-......+...+  .....++.++.......+.  -.++++.+.     
T Consensus       156 p~gvLL~GppGtGKT~lakaia~~--l~~~~~~v~~~~l~~~~~g~~~~~i~~~f~~a~~~~p~il~iDEiD~l~~~~~~  233 (364)
T TIGR01242       156 PKGVLLYGPPGTGKTLLAKAVAHE--TNATFIRVVGSELVRKYIGEGARLVREIFELAKEKAPSIIFIDEIDAIAAKRTD  233 (364)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHh--CCCCEEecchHHHHHHhhhHHHHHHHHHHHHHHhcCCcEEEhhhhhhhcccccc
Confidence            456899999999999999999985  33333211100000000  1122333444333221110  112222221     


Q ss_pred             -----ch---hhHhhHhhhccC--CCCCcEEEEEcCChhHHh-hc----CCCCcccCCCCChhhHHhhhhccccCCCCCC
Q 038448          231 -----KY---NDWTNRSRLFEA--GAPGSKIVFTTRNLGVAE-KM----GPLPAYPLKELSNDDCLSVFSPHSLGEKDFS  295 (385)
Q Consensus       231 -----~~---~~w~~l~~~l~~--~~~gs~IivTTR~~~va~-~~----~~~~~~~l~~L~~~~a~~Lf~~~a~~~~~~~  295 (385)
                           +.   ..+..+...+..  ...+..||.||....... .+    .....+.+...+.++..++|..++...... 
T Consensus       234 ~~~~~~~~~~~~l~~ll~~ld~~~~~~~v~vI~ttn~~~~ld~al~r~grfd~~i~v~~P~~~~r~~Il~~~~~~~~l~-  312 (364)
T TIGR01242       234 SGTSGDREVQRTLMQLLAELDGFDPRGNVKVIAATNRPDILDPALLRPGRFDRIIEVPLPDFEGRLEILKIHTRKMKLA-  312 (364)
T ss_pred             CCCCccHHHHHHHHHHHHHhhCCCCCCCEEEEEecCChhhCChhhcCcccCceEEEeCCcCHHHHHHHHHHHHhcCCCC-
Confidence                 01   112222222221  134567888887543221 11    123467889999999999998775432211 


Q ss_pred             CCccHHHHHHHHHHHcCCCh
Q 038448          296 THPSLKEIGEKIVKKCNGLP  315 (385)
Q Consensus       296 ~~~~l~~~~~~i~~~c~glP  315 (385)
                      ..-+    ...+++.+.|..
T Consensus       313 ~~~~----~~~la~~t~g~s  328 (364)
T TIGR01242       313 EDVD----LEAIAKMTEGAS  328 (364)
T ss_pred             ccCC----HHHHHHHcCCCC
Confidence            1112    355777777764

Many proteins may score above the trusted cutoff because an internal

>PRK08903 DnaA regulatory inactivator Hda; Validated

Probab=97.31  E-value=0.0011  Score=58.93  Aligned_cols=153  Identities=16%  Similarity=0.143  Sum_probs=77.4

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecCCCCHHHHHHHHHHHhhcCCCCCccchHHhhchhhHhhHh
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDFDIIRVTKSILKSIASDQLVDDHDLNLLQKYNDWTNRS  239 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~il~~l~~~~~~~~~~~~~l~~~~~w~~l~  239 (385)
                      ...+.|+|.+|+|||+||+.+++.. ..... ...+++......      . .........-..++.+.+.. ..-..+.
T Consensus        42 ~~~~~l~G~~G~GKT~La~ai~~~~-~~~~~-~~~~i~~~~~~~------~-~~~~~~~~~liiDdi~~l~~-~~~~~L~  111 (227)
T PRK08903         42 DRFFYLWGEAGSGRSHLLQALVADA-SYGGR-NARYLDAASPLL------A-FDFDPEAELYAVDDVERLDD-AQQIALF  111 (227)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHH-HhCCC-cEEEEehHHhHH------H-HhhcccCCEEEEeChhhcCc-hHHHHHH
Confidence            4678899999999999999998852 11222 344555433211      1 11111111001222222211 1111233


Q ss_pred             hhccC-CCCCc-EEEEEcCChhHHh--------hcCCCCcccCCCCChhhHHhhhhccccCCCCCCCCccHHHHHHHHHH
Q 038448          240 RLFEA-GAPGS-KIVFTTRNLGVAE--------KMGPLPAYPLKELSNDDCLSVFSPHSLGEKDFSTHPSLKEIGEKIVK  309 (385)
Q Consensus       240 ~~l~~-~~~gs-~IivTTR~~~va~--------~~~~~~~~~l~~L~~~~a~~Lf~~~a~~~~~~~~~~~l~~~~~~i~~  309 (385)
                      ..+.. ...+. .+|+|++......        .+.....+.+.+|+.++-..++.+.+ .......   -.+....+++
T Consensus       112 ~~~~~~~~~~~~~vl~~~~~~~~~~~l~~~L~sr~~~~~~i~l~pl~~~~~~~~l~~~~-~~~~v~l---~~~al~~L~~  187 (227)
T PRK08903        112 NLFNRVRAHGQGALLVAGPAAPLALPLREDLRTRLGWGLVYELKPLSDADKIAALKAAA-AERGLQL---ADEVPDYLLT  187 (227)
T ss_pred             HHHHHHHHcCCcEEEEeCCCCHHhCCCCHHHHHHHhcCeEEEecCCCHHHHHHHHHHHH-HHcCCCC---CHHHHHHHHH
Confidence            33321 12343 3666666433221        22223567899999887666655432 1111111   1456677888


Q ss_pred             HcCCChHHHHHHHHHhh
Q 038448          310 KCNGLPLVAKSLGGLLR  326 (385)
Q Consensus       310 ~c~glPLAi~~~~~~L~  326 (385)
                      .+.|.|..+..+...|.
T Consensus       188 ~~~gn~~~l~~~l~~l~  204 (227)
T PRK08903        188 HFRRDMPSLMALLDALD  204 (227)
T ss_pred             hccCCHHHHHHHHHHHH
Confidence            88888888777666553

>PRK07940 DNA polymerase III subunit delta'; Validated

Probab=97.30  E-value=0.0064  Score=58.49  Aligned_cols=149  Identities=10%  Similarity=0.049  Sum_probs=81.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhcccccc------------------ccccceEEEEec-CCCCHHHHHHHHHHHhhcCCC
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSDVRVH------------------NHFDLKAWTCVS-EDFDIIRVTKSILKSIASDQL  220 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~------------------~~F~~~~wv~vs-~~~~~~~~~~~il~~l~~~~~  220 (385)
                      ..-+.++|++|+|||++|..+.....-.                  ..++-..++... ....+.+ .+++.+.+.....
T Consensus        36 ~ha~Lf~Gp~G~GKt~lA~~lA~~l~c~~~~~~~Cg~C~~C~~~~~~~hpD~~~i~~~~~~i~i~~-iR~l~~~~~~~p~  114 (394)
T PRK07940         36 THAWLFTGPPGSGRSVAARAFAAALQCTDPDEPGCGECRACRTVLAGTHPDVRVVAPEGLSIGVDE-VRELVTIAARRPS  114 (394)
T ss_pred             CeEEEEECCCCCcHHHHHHHHHHHhCCCCCCCCCCCCCHHHHHHhcCCCCCEEEeccccccCCHHH-HHHHHHHHHhCcc
Confidence            4668899999999999998875421000                  011112233222 1223333 4455555543221


Q ss_pred             C------CccchHHhhchhhHhhHhhhccCCCCCcEEEEEcCCh-hHHhhcC-CCCcccCCCCChhhHHhhhhccccCCC
Q 038448          221 V------DDHDLNLLQKYNDWTNRSRLFEAGAPGSKIVFTTRNL-GVAEKMG-PLPAYPLKELSNDDCLSVFSPHSLGEK  292 (385)
Q Consensus       221 ~------~~~~~~~l~~~~~w~~l~~~l~~~~~gs~IivTTR~~-~va~~~~-~~~~~~l~~L~~~~a~~Lf~~~a~~~~  292 (385)
                      .      ..++.+.+ +....+.+...+.....++.+|++|.+. .+...+. ....+.+.+++.++....+....    
T Consensus       115 ~~~~kViiIDead~m-~~~aanaLLk~LEep~~~~~fIL~a~~~~~llpTIrSRc~~i~f~~~~~~~i~~~L~~~~----  189 (394)
T PRK07940        115 TGRWRIVVIEDADRL-TERAANALLKAVEEPPPRTVWLLCAPSPEDVLPTIRSRCRHVALRTPSVEAVAEVLVRRD----  189 (394)
T ss_pred             cCCcEEEEEechhhc-CHHHHHHHHHHhhcCCCCCeEEEEECChHHChHHHHhhCeEEECCCCCHHHHHHHHHHhc----
Confidence            1      11222222 3334455666655445566666666553 4443322 23678999999999988876432    


Q ss_pred             CCCCCccHHHHHHHHHHHcCCChHHHH
Q 038448          293 DFSTHPSLKEIGEKIVKKCNGLPLVAK  319 (385)
Q Consensus       293 ~~~~~~~l~~~~~~i~~~c~glPLAi~  319 (385)
                      ..  +   .+.+..++..++|.|....
T Consensus       190 ~~--~---~~~a~~la~~s~G~~~~A~  211 (394)
T PRK07940        190 GV--D---PETARRAARASQGHIGRAR  211 (394)
T ss_pred             CC--C---HHHHHHHHHHcCCCHHHHH
Confidence            11  1   3446778999999886443

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

Probab=97.30  E-value=0.002  Score=57.66  Aligned_cols=163  Identities=15%  Similarity=0.145  Sum_probs=84.4

Q ss_pred             CCCCceEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecCCCCHHHHHHHHHHHhhcCCCCCccchHHhhchhhH
Q 038448          156 TDDGLSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDFDIIRVTKSILKSIASDQLVDDHDLNLLQKYNDW  235 (385)
Q Consensus       156 ~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~il~~l~~~~~~~~~~~~~l~~~~~w  235 (385)
                      .+..+--+.++|++|.||||||.-+.+.  ....+.    ++-.....-..-+..|+..+...+.-..+.+..+. ...-
T Consensus        48 r~e~lDHvLl~GPPGlGKTTLA~IIA~E--mgvn~k----~tsGp~leK~gDlaaiLt~Le~~DVLFIDEIHrl~-~~vE  120 (332)
T COG2255          48 RGEALDHVLLFGPPGLGKTTLAHIIANE--LGVNLK----ITSGPALEKPGDLAAILTNLEEGDVLFIDEIHRLS-PAVE  120 (332)
T ss_pred             cCCCcCeEEeeCCCCCcHHHHHHHHHHH--hcCCeE----ecccccccChhhHHHHHhcCCcCCeEEEehhhhcC-hhHH
Confidence            3456778999999999999999999985  333332    22222222222333444444333221111111111 0000


Q ss_pred             hhHhhhc--------cCCCCCcE-----------EEEEcCChhHHhhcCC--CCcccCCCCChhhHHhhhhccccCCCCC
Q 038448          236 TNRSRLF--------EAGAPGSK-----------IVFTTRNLGVAEKMGP--LPAYPLKELSNDDCLSVFSPHSLGEKDF  294 (385)
Q Consensus       236 ~~l~~~l--------~~~~~gs~-----------IivTTR~~~va~~~~~--~~~~~l~~L~~~~a~~Lf~~~a~~~~~~  294 (385)
                      +-+.++.        -..++++|           |=-|||.-.+.+....  ..+.+++--+.+|-..+..+.+.- -+.
T Consensus       121 E~LYpaMEDf~lDI~IG~gp~Arsv~ldLppFTLIGATTr~G~lt~PLrdRFGi~~rlefY~~~eL~~Iv~r~a~~-l~i  199 (332)
T COG2255         121 EVLYPAMEDFRLDIIIGKGPAARSIRLDLPPFTLIGATTRAGMLTNPLRDRFGIIQRLEFYTVEELEEIVKRSAKI-LGI  199 (332)
T ss_pred             HHhhhhhhheeEEEEEccCCccceEeccCCCeeEeeeccccccccchhHHhcCCeeeeecCCHHHHHHHHHHHHHH-hCC
Confidence            0011110        01122222           3468886554443322  145677777888887777766521 111


Q ss_pred             CCCccHHHHHHHHHHHcCCChHHHHHHHHHhhccc
Q 038448          295 STHPSLKEIGEKIVKKCNGLPLVAKSLGGLLRGFL  329 (385)
Q Consensus       295 ~~~~~l~~~~~~i~~~c~glPLAi~~~~~~L~g~~  329 (385)
                         .--.+-+.+|+++..|-|--..-+-+..+.|.
T Consensus       200 ---~i~~~~a~eIA~rSRGTPRIAnRLLrRVRDfa  231 (332)
T COG2255         200 ---EIDEEAALEIARRSRGTPRIANRLLRRVRDFA  231 (332)
T ss_pred             ---CCChHHHHHHHHhccCCcHHHHHHHHHHHHHH
Confidence               11245688999999999976665555555443

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

Probab=97.30  E-value=0.00053  Score=66.12  Aligned_cols=62  Identities=15%  Similarity=0.045  Sum_probs=45.7

Q ss_pred             hhhHHHHHHHHhcCCCCCCCCceEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecCCCCHHHHH
Q 038448          139 DKEKEETVKLLLRDDLRTDDGLSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDFDIIRVT  208 (385)
Q Consensus       139 ~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~  208 (385)
                      +...+.++..|..        .+.|.++|++|+|||++|+.+++.......|+.+.||++++.++..+++
T Consensus       181 e~~le~l~~~L~~--------~~~iil~GppGtGKT~lA~~la~~l~~~~~~~~v~~VtFHpsySYeDFI  242 (459)
T PRK11331        181 ETTIETILKRLTI--------KKNIILQGPPGVGKTFVARRLAYLLTGEKAPQRVNMVQFHQSYSYEDFI  242 (459)
T ss_pred             HHHHHHHHHHHhc--------CCCEEEECCCCCCHHHHHHHHHHHhcCCcccceeeEEeecccccHHHHh
Confidence            4556667766643        2567889999999999999998764334567788899988877655544

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

Probab=97.28  E-value=0.016  Score=53.00  Aligned_cols=63  Identities=14%  Similarity=0.151  Sum_probs=48.4

Q ss_pred             CCCceEEEEEcCCCCcHHHHHHHHhcccccc-----ccccceEEEEecCCCCHHHHHHHHHHHhhcCCC
Q 038448          157 DDGLSVIPIIGTGRIGKTTLAQLAYSDVRVH-----NHFDLKAWTCVSEDFDIIRVTKSILKSIASDQL  220 (385)
Q Consensus       157 ~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~-----~~F~~~~wv~vs~~~~~~~~~~~il~~l~~~~~  220 (385)
                      .....-+.|||.+|.|||++++++....-..     ..+ .++.|.....++...++..|+.+++....
T Consensus        58 ~~Rmp~lLivG~snnGKT~Ii~rF~~~hp~~~d~~~~~~-PVv~vq~P~~p~~~~~Y~~IL~~lgaP~~  125 (302)
T PF05621_consen   58 RHRMPNLLIVGDSNNGKTMIIERFRRLHPPQSDEDAERI-PVVYVQMPPEPDERRFYSAILEALGAPYR  125 (302)
T ss_pred             ccCCCceEEecCCCCcHHHHHHHHHHHCCCCCCCCCccc-cEEEEecCCCCChHHHHHHHHHHhCcccC
Confidence            3556779999999999999999998542111     111 46667777889999999999999987654

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

>PRK14957 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.27  E-value=0.0035  Score=62.55  Aligned_cols=170  Identities=18%  Similarity=0.075  Sum_probs=89.7

Q ss_pred             HHHHHHHHhcCCCCCCCCceEEEEEcCCCCcHHHHHHHHhccccc-------------------cccccceEEEEecCCC
Q 038448          142 KEETVKLLLRDDLRTDDGLSVIPIIGTGRIGKTTLAQLAYSDVRV-------------------HNHFDLKAWTCVSEDF  202 (385)
Q Consensus       142 ~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~-------------------~~~F~~~~wv~vs~~~  202 (385)
                      .+.+.+.+..+     .-...+.++|+.|+||||+|+.+.+...-                   ...|...+++......
T Consensus        25 v~~L~~~i~~~-----rl~ha~Lf~Gp~GvGKTTlAr~lAk~L~c~~~~~~~pCg~C~sC~~i~~~~~~dlieidaas~~   99 (546)
T PRK14957         25 LNSLVHALETQ-----KVHHAYLFTGTRGVGKTTLGRLLAKCLNCKTGVTAEPCNKCENCVAINNNSFIDLIEIDAASRT   99 (546)
T ss_pred             HHHHHHHHHcC-----CCCeEEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCcccHHHHHHhcCCCCceEEeeccccc
Confidence            34455555332     23456789999999999999988753110                   0123334445443333


Q ss_pred             CHHHHHHHHHHHhhcCCC---CCccchHHhh--chhhHhhHhhhccCCCCCcEEEE-EcCChhHHhhcC-CCCcccCCCC
Q 038448          203 DIIRVTKSILKSIASDQL---VDDHDLNLLQ--KYNDWTNRSRLFEAGAPGSKIVF-TTRNLGVAEKMG-PLPAYPLKEL  275 (385)
Q Consensus       203 ~~~~~~~~il~~l~~~~~---~~~~~~~~l~--~~~~w~~l~~~l~~~~~gs~Iiv-TTR~~~va~~~~-~~~~~~l~~L  275 (385)
                      .+.. .+.|+..+.....   ...--+++..  +...++.+...+......+.+|+ ||....+...+. ....+++.++
T Consensus       100 gvd~-ir~ii~~~~~~p~~g~~kViIIDEa~~ls~~a~naLLK~LEepp~~v~fIL~Ttd~~kil~tI~SRc~~~~f~~L  178 (546)
T PRK14957        100 GVEE-TKEILDNIQYMPSQGRYKVYLIDEVHMLSKQSFNALLKTLEEPPEYVKFILATTDYHKIPVTILSRCIQLHLKHI  178 (546)
T ss_pred             CHHH-HHHHHHHHHhhhhcCCcEEEEEechhhccHHHHHHHHHHHhcCCCCceEEEEECChhhhhhhHHHheeeEEeCCC
Confidence            3332 3444444432111   0011112222  34556677777765555666664 554444443322 2367899999


Q ss_pred             ChhhHHhhhhccccCCCCCCCCccHHHHHHHHHHHcCCCh-HHHHHH
Q 038448          276 SNDDCLSVFSPHSLGEKDFSTHPSLKEIGEKIVKKCNGLP-LVAKSL  321 (385)
Q Consensus       276 ~~~~a~~Lf~~~a~~~~~~~~~~~l~~~~~~i~~~c~glP-LAi~~~  321 (385)
                      +.++....+...+-. .+.   .--......|++.++|.+ .|+..+
T Consensus       179 s~~eI~~~L~~il~~-egi---~~e~~Al~~Ia~~s~GdlR~alnlL  221 (546)
T PRK14957        179 SQADIKDQLKIILAK-ENI---NSDEQSLEYIAYHAKGSLRDALSLL  221 (546)
T ss_pred             CHHHHHHHHHHHHHH-cCC---CCCHHHHHHHHHHcCCCHHHHHHHH
Confidence            999877666654311 111   112345567888888865 444444

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

Probab=97.26  E-value=0.0016  Score=62.06  Aligned_cols=124  Identities=15%  Similarity=0.133  Sum_probs=74.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecCCCCHHHHHHHHHHHhhc-----------CCCCCccchH
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDFDIIRVTKSILKSIAS-----------DQLVDDHDLN  227 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~il~~l~~-----------~~~~~~~~~~  227 (385)
                      ....+-|+|..|.|||.|++++.+.  .....+....+.++.    .....+.+..+..           .+.--.++++
T Consensus       112 ~~nplfi~G~~GlGKTHLl~Aign~--~~~~~~~a~v~y~~s----e~f~~~~v~a~~~~~~~~Fk~~y~~dlllIDDiq  185 (408)
T COG0593         112 AYNPLFIYGGVGLGKTHLLQAIGNE--ALANGPNARVVYLTS----EDFTNDFVKALRDNEMEKFKEKYSLDLLLIDDIQ  185 (408)
T ss_pred             cCCcEEEECCCCCCHHHHHHHHHHH--HHhhCCCceEEeccH----HHHHHHHHHHHHhhhHHHHHHhhccCeeeechHh
Confidence            4678999999999999999999995  445555333343332    2333333333222           1111234444


Q ss_pred             HhhchhhHhh-HhhhccC-CCCCcEEEEEcCC---------hhHHhhcCCCCcccCCCCChhhHHhhhhccc
Q 038448          228 LLQKYNDWTN-RSRLFEA-GAPGSKIVFTTRN---------LGVAEKMGPLPAYPLKELSNDDCLSVFSPHS  288 (385)
Q Consensus       228 ~l~~~~~w~~-l~~~l~~-~~~gs~IivTTR~---------~~va~~~~~~~~~~l~~L~~~~a~~Lf~~~a  288 (385)
                      .+...+.|+. +...|.. ...|-.||+|++.         +.+...+...-.+.+.+++.+....++.+++
T Consensus       186 ~l~gk~~~qeefFh~FN~l~~~~kqIvltsdr~P~~l~~~~~rL~SR~~~Gl~~~I~~Pd~e~r~aiL~kka  257 (408)
T COG0593         186 FLAGKERTQEEFFHTFNALLENGKQIVLTSDRPPKELNGLEDRLRSRLEWGLVVEIEPPDDETRLAILRKKA  257 (408)
T ss_pred             HhcCChhHHHHHHHHHHHHHhcCCEEEEEcCCCchhhccccHHHHHHHhceeEEeeCCCCHHHHHHHHHHHH
Confidence            4445555543 3333322 1234489999963         3444455556778999999999998888765

>PRK14960 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.26  E-value=0.006  Score=61.61  Aligned_cols=171  Identities=14%  Similarity=0.106  Sum_probs=92.7

Q ss_pred             hhHHHHHHHHhcCCCCCCCCceEEEEEcCCCCcHHHHHHHHhccccc-------------------cccccceEEEEecC
Q 038448          140 KEKEETVKLLLRDDLRTDDGLSVIPIIGTGRIGKTTLAQLAYSDVRV-------------------HNHFDLKAWTCVSE  200 (385)
Q Consensus       140 ~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~-------------------~~~F~~~~wv~vs~  200 (385)
                      .-++.|.+++..+.     -...+.++|+.|+||||+|+.+.+...-                   ...|.-.+.+..+.
T Consensus        22 ~vv~~L~~aI~~gr-----l~HAyLF~GPpGvGKTTlAriLAK~LnC~~~~~~~pCg~C~sC~~I~~g~hpDviEIDAAs   96 (702)
T PRK14960         22 HVSRALSSALERGR-----LHHAYLFTGTRGVGKTTIARILAKCLNCETGVTSTPCEVCATCKAVNEGRFIDLIEIDAAS   96 (702)
T ss_pred             HHHHHHHHHHHcCC-----CCeEEEEECCCCCCHHHHHHHHHHHhCCCcCCCCCCCccCHHHHHHhcCCCCceEEecccc
Confidence            33455566664332     2467899999999999999887653211                   01122234444443


Q ss_pred             CCCHHHHHHHHHHHhhcCCCC---CccchHHhh--chhhHhhHhhhccCCCCCcEEEEEcCCh-hHHhh-cCCCCcccCC
Q 038448          201 DFDIIRVTKSILKSIASDQLV---DDHDLNLLQ--KYNDWTNRSRLFEAGAPGSKIVFTTRNL-GVAEK-MGPLPAYPLK  273 (385)
Q Consensus       201 ~~~~~~~~~~il~~l~~~~~~---~~~~~~~l~--~~~~w~~l~~~l~~~~~gs~IivTTR~~-~va~~-~~~~~~~~l~  273 (385)
                      ...+.. .++++..+......   ..--+++..  +...++.+...+.....+.++|++|.+. .+... .+....+++.
T Consensus        97 ~~~Vdd-IReli~~~~y~P~~gk~KV~IIDEVh~LS~~A~NALLKtLEEPP~~v~FILaTtd~~kIp~TIlSRCq~feFk  175 (702)
T PRK14960         97 RTKVED-TRELLDNVPYAPTQGRFKVYLIDEVHMLSTHSFNALLKTLEEPPEHVKFLFATTDPQKLPITVISRCLQFTLR  175 (702)
T ss_pred             cCCHHH-HHHHHHHHhhhhhcCCcEEEEEechHhcCHHHHHHHHHHHhcCCCCcEEEEEECChHhhhHHHHHhhheeecc
Confidence            333333 34455544221110   111122222  3345566666665545566788777653 23222 1223678999


Q ss_pred             CCChhhHHhhhhccccCCCCCCCCccHHHHHHHHHHHcCCChHHHHH
Q 038448          274 ELSNDDCLSVFSPHSLGEKDFSTHPSLKEIGEKIVKKCNGLPLVAKS  320 (385)
Q Consensus       274 ~L~~~~a~~Lf~~~a~~~~~~~~~~~l~~~~~~i~~~c~glPLAi~~  320 (385)
                      +++.++....+...+-... ..   --.+....|++.++|.+-.+..
T Consensus       176 pLs~eEI~k~L~~Il~kEg-I~---id~eAL~~IA~~S~GdLRdALn  218 (702)
T PRK14960        176 PLAVDEITKHLGAILEKEQ-IA---ADQDAIWQIAESAQGSLRDALS  218 (702)
T ss_pred             CCCHHHHHHHHHHHHHHcC-CC---CCHHHHHHHHHHcCCCHHHHHH
Confidence            9999998887766542211 11   1135567788999987744433

>PRK14086 dnaA chromosomal replication initiation protein; Provisional

Probab=97.26  E-value=0.0039  Score=62.62  Aligned_cols=142  Identities=13%  Similarity=0.158  Sum_probs=76.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhccccccccc--cceEEEEecCCCCHHHHHHHHHHHhhc------------CCCCCccch
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSDVRVHNHF--DLKAWTCVSEDFDIIRVTKSILKSIAS------------DQLVDDHDL  226 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F--~~~~wv~vs~~~~~~~~~~~il~~l~~------------~~~~~~~~~  226 (385)
                      ..+.|+|..|+|||.|++.+.+.  ....+  ..+++++..      +++.++...+..            .+.-..+++
T Consensus       315 NpL~LyG~sGsGKTHLL~AIa~~--a~~~~~g~~V~Yitae------ef~~el~~al~~~~~~~f~~~y~~~DLLlIDDI  386 (617)
T PRK14086        315 NPLFIYGESGLGKTHLLHAIGHY--ARRLYPGTRVRYVSSE------EFTNEFINSIRDGKGDSFRRRYREMDILLVDDI  386 (617)
T ss_pred             CcEEEECCCCCCHHHHHHHHHHH--HHHhCCCCeEEEeeHH------HHHHHHHHHHHhccHHHHHHHhhcCCEEEEehh
Confidence            45899999999999999999985  33222  234566542      222222222211            111012333


Q ss_pred             HHhhchhhHhh-HhhhccC-CCCCcEEEEEcCCh---------hHHhhcCCCCcccCCCCChhhHHhhhhccccCCCCCC
Q 038448          227 NLLQKYNDWTN-RSRLFEA-GAPGSKIVFTTRNL---------GVAEKMGPLPAYPLKELSNDDCLSVFSPHSLGEKDFS  295 (385)
Q Consensus       227 ~~l~~~~~w~~-l~~~l~~-~~~gs~IivTTR~~---------~va~~~~~~~~~~l~~L~~~~a~~Lf~~~a~~~~~~~  295 (385)
                      +.+...+.|.. +...+.. ...|..||+||...         .+...+...-.+.+.+.+.+.-..++.+++-.. ...
T Consensus       387 q~l~gke~tqeeLF~l~N~l~e~gk~IIITSd~~P~eL~~l~~rL~SRf~~GLvv~I~~PD~EtR~aIL~kka~~r-~l~  465 (617)
T PRK14086        387 QFLEDKESTQEEFFHTFNTLHNANKQIVLSSDRPPKQLVTLEDRLRNRFEWGLITDVQPPELETRIAILRKKAVQE-QLN  465 (617)
T ss_pred             ccccCCHHHHHHHHHHHHHHHhcCCCEEEecCCChHhhhhccHHHHhhhhcCceEEcCCCCHHHHHHHHHHHHHhc-CCC
Confidence            33333344432 3332221 13355688888752         233344455678999999999999988876332 111


Q ss_pred             CCccHHHHHHHHHHHcCCC
Q 038448          296 THPSLKEIGEKIVKKCNGL  314 (385)
Q Consensus       296 ~~~~l~~~~~~i~~~c~gl  314 (385)
                      .+   .++..-|++.+.+.
T Consensus       466 l~---~eVi~yLa~r~~rn  481 (617)
T PRK14086        466 AP---PEVLEFIASRISRN  481 (617)
T ss_pred             CC---HHHHHHHHHhccCC
Confidence            11   34455555555544

>PRK14956 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.21  E-value=0.004  Score=60.78  Aligned_cols=151  Identities=13%  Similarity=0.022  Sum_probs=79.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhccccccc--cc-c----------------ceEEEEecCCCCHHHHHHHHHHHhhcCCCC
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSDVRVHN--HF-D----------------LKAWTCVSEDFDIIRVTKSILKSIASDQLV  221 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~--~F-~----------------~~~wv~vs~~~~~~~~~~~il~~l~~~~~~  221 (385)
                      ..+.++|+.|+||||+|+.+.+...-..  .+ .                ..+.+......++ +..+++...+......
T Consensus        41 ha~Lf~GP~GtGKTTlAriLAk~Lnce~~~~~~pCg~C~sC~~i~~g~~~dviEIdaas~~gV-d~IReL~e~l~~~p~~  119 (484)
T PRK14956         41 HAYIFFGPRGVGKTTIARILAKRLNCENPIGNEPCNECTSCLEITKGISSDVLEIDAASNRGI-ENIRELRDNVKFAPMG  119 (484)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhcCcccccCccccCCCcHHHHHHccCCccceeechhhcccH-HHHHHHHHHHHhhhhc
Confidence            4688999999999999999876421110  00 0                0111222222222 2334444444321110


Q ss_pred             ---CccchHHhh--chhhHhhHhhhccCCCCCcEEE-EEcCChhHHhhcCC-CCcccCCCCChhhHHhhhhccccCCCCC
Q 038448          222 ---DDHDLNLLQ--KYNDWTNRSRLFEAGAPGSKIV-FTTRNLGVAEKMGP-LPAYPLKELSNDDCLSVFSPHSLGEKDF  294 (385)
Q Consensus       222 ---~~~~~~~l~--~~~~w~~l~~~l~~~~~gs~Ii-vTTR~~~va~~~~~-~~~~~l~~L~~~~a~~Lf~~~a~~~~~~  294 (385)
                         ..--+++.+  ..+.++.+...+........+| .||....+...+.. ...|.+.+++.++-...+...+-..+ .
T Consensus       120 g~~KV~IIDEah~Ls~~A~NALLKtLEEPp~~viFILaTte~~kI~~TI~SRCq~~~f~~ls~~~i~~~L~~i~~~Eg-i  198 (484)
T PRK14956        120 GKYKVYIIDEVHMLTDQSFNALLKTLEEPPAHIVFILATTEFHKIPETILSRCQDFIFKKVPLSVLQDYSEKLCKIEN-V  198 (484)
T ss_pred             CCCEEEEEechhhcCHHHHHHHHHHhhcCCCceEEEeecCChhhccHHHHhhhheeeecCCCHHHHHHHHHHHHHHcC-C
Confidence               111122222  4456777766665433445545 44444444333322 25689999999888777766542211 1


Q ss_pred             CCCccHHHHHHHHHHHcCCChH
Q 038448          295 STHPSLKEIGEKIVKKCNGLPL  316 (385)
Q Consensus       295 ~~~~~l~~~~~~i~~~c~glPL  316 (385)
                      .   --.+....|++.++|.|-
T Consensus       199 ~---~e~eAL~~Ia~~S~Gd~R  217 (484)
T PRK14956        199 Q---YDQEGLFWIAKKGDGSVR  217 (484)
T ss_pred             C---CCHHHHHHHHHHcCChHH
Confidence            1   124566778899998873

>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=97.20  E-value=0.00027  Score=56.04  Aligned_cols=22  Identities=41%  Similarity=0.376  Sum_probs=20.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcc
Q 038448          162 VIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      +|.|.|++|+||||+|+.+...
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

...

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

Probab=97.20  E-value=0.00057  Score=58.40  Aligned_cols=44  Identities=20%  Similarity=0.253  Sum_probs=27.3

Q ss_pred             hhhhHHHHHHHHhcCCCCCCCCceEEEEEcCCCCcHHHHHHHHhccc
Q 038448          138 KDKEKEETVKLLLRDDLRTDDGLSVIPIIGTGRIGKTTLAQLAYSDV  184 (385)
Q Consensus       138 ~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  184 (385)
                      ++++.+.+...|.. .  .....+.+.|+|.+|+|||+|.+.++...
T Consensus         5 R~~e~~~l~~~l~~-~--~~~~~~~~ll~G~~G~GKT~ll~~~~~~~   48 (185)
T PF13191_consen    5 REEEIERLRDLLDA-A--QSGSPRNLLLTGESGSGKTSLLRALLDRL   48 (185)
T ss_dssp             -HHHHHHHHHTTGG-T--SS-----EEE-B-TTSSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHH-H--HcCCCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            35566777777741 1  33566999999999999999999998863

>PRK06620 hypothetical protein; Validated

Probab=97.17  E-value=0.0044  Score=54.50  Aligned_cols=133  Identities=11%  Similarity=0.041  Sum_probs=68.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecCCCCHHHHHHHHHHHhhcCCCCCccchHHhhchhhHhhHhh
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDFDIIRVTKSILKSIASDQLVDDHDLNLLQKYNDWTNRSR  240 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~il~~l~~~~~~~~~~~~~l~~~~~w~~l~~  240 (385)
                      +.+-|+|++|+|||+|++.+.+...  .     .++.  ..+...    ....+.   ..--.++++.++. ...-.+..
T Consensus        45 ~~l~l~Gp~G~GKThLl~a~~~~~~--~-----~~~~--~~~~~~----~~~~~~---d~lliDdi~~~~~-~~lf~l~N  107 (214)
T PRK06620         45 FTLLIKGPSSSGKTYLTKIWQNLSN--A-----YIIK--DIFFNE----EILEKY---NAFIIEDIENWQE-PALLHIFN  107 (214)
T ss_pred             ceEEEECCCCCCHHHHHHHHHhccC--C-----EEcc--hhhhch----hHHhcC---CEEEEeccccchH-HHHHHHHH
Confidence            6789999999999999999877532  1     2222  111111    111110   0001122221111 11112222


Q ss_pred             hccCCCCCcEEEEEcCChh-------HHhhcCCCCcccCCCCChhhHHhhhhccccCCCCCCCCccHHHHHHHHHHHcCC
Q 038448          241 LFEAGAPGSKIVFTTRNLG-------VAEKMGPLPAYPLKELSNDDCLSVFSPHSLGEKDFSTHPSLKEIGEKIVKKCNG  313 (385)
Q Consensus       241 ~l~~~~~gs~IivTTR~~~-------va~~~~~~~~~~l~~L~~~~a~~Lf~~~a~~~~~~~~~~~l~~~~~~i~~~c~g  313 (385)
                      .+.  ..|..||+|++...       +...+...-++.+++++.++-..++.+.+.. .....+   +++..-|++.+.|
T Consensus       108 ~~~--e~g~~ilits~~~p~~l~l~~L~SRl~~gl~~~l~~pd~~~~~~~l~k~~~~-~~l~l~---~ev~~~L~~~~~~  181 (214)
T PRK06620        108 IIN--EKQKYLLLTSSDKSRNFTLPDLSSRIKSVLSILLNSPDDELIKILIFKHFSI-SSVTIS---RQIIDFLLVNLPR  181 (214)
T ss_pred             HHH--hcCCEEEEEcCCCccccchHHHHHHHhCCceEeeCCCCHHHHHHHHHHHHHH-cCCCCC---HHHHHHHHHHccC
Confidence            222  45678999987432       2233334457889999988877777665421 111111   4566667777776


Q ss_pred             ChH
Q 038448          314 LPL  316 (385)
Q Consensus       314 lPL  316 (385)
                      ---
T Consensus       182 d~r  184 (214)
T PRK06620        182 EYS  184 (214)
T ss_pred             CHH
Confidence            543

>PRK07261 topology modulation protein; Provisional

Probab=97.16  E-value=0.0009  Score=56.72  Aligned_cols=51  Identities=25%  Similarity=0.195  Sum_probs=31.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcccccc-ccccceEEEEecCCCCHHHHHHHHH
Q 038448          162 VIPIIGTGRIGKTTLAQLAYSDVRVH-NHFDLKAWTCVSEDFDIIRVTKSIL  212 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v~~~~~~~-~~F~~~~wv~vs~~~~~~~~~~~il  212 (385)
                      .|.|+|++|+||||||+.+.....+. -+.|...|-......+...+...+.
T Consensus         2 ri~i~G~~GsGKSTla~~l~~~~~~~~i~~D~~~~~~~~~~~~~~~~~~~~~   53 (171)
T PRK07261          2 KIAIIGYSGSGKSTLARKLSQHYNCPVLHLDTLHFQPNWQERDDDDMIADIS   53 (171)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHhCCCeEecCCEEeccccccCCHHHHHHHHH
Confidence            48899999999999999987542221 2345566643322333344444433

>PRK04195 replication factor C large subunit; Provisional

Probab=97.14  E-value=0.0063  Score=60.47  Aligned_cols=167  Identities=15%  Similarity=0.106  Sum_probs=85.9

Q ss_pred             hhhHHHHHHHHhcCCCCCCCCceEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecCCCCHHHHHHHHHHHhhcC
Q 038448          139 DKEKEETVKLLLRDDLRTDDGLSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDFDIIRVTKSILKSIASD  218 (385)
Q Consensus       139 ~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~il~~l~~~  218 (385)
                      +..++.+.+|+....  .....+.+.|+|++|+||||+|+.+++..    .|+ .+-++.+...+. ..+..++......
T Consensus        20 ~~~~~~l~~~l~~~~--~g~~~~~lLL~GppG~GKTtla~ala~el----~~~-~ielnasd~r~~-~~i~~~i~~~~~~   91 (482)
T PRK04195         20 EKAKEQLREWIESWL--KGKPKKALLLYGPPGVGKTSLAHALANDY----GWE-VIELNASDQRTA-DVIERVAGEAATS   91 (482)
T ss_pred             HHHHHHHHHHHHHHh--cCCCCCeEEEECCCCCCHHHHHHHHHHHc----CCC-EEEEcccccccH-HHHHHHHHHhhcc
Confidence            344455556654321  11226789999999999999999998852    122 233444443222 3333333332221


Q ss_pred             CC-----C---CccchHHhh---chhhHhhHhhhccCCCCCcEEEEEcCChh-HHh-hc-CCCCcccCCCCChhhHHhhh
Q 038448          219 QL-----V---DDHDLNLLQ---KYNDWTNRSRLFEAGAPGSKIVFTTRNLG-VAE-KM-GPLPAYPLKELSNDDCLSVF  284 (385)
Q Consensus       219 ~~-----~---~~~~~~~l~---~~~~w~~l~~~l~~~~~gs~IivTTR~~~-va~-~~-~~~~~~~l~~L~~~~a~~Lf  284 (385)
                      ..     .   ..++.+.+.   +...+..+...+..  .+..||+|+.+.. ... .. .....+.+.+++.++....+
T Consensus        92 ~sl~~~~~kvIiIDEaD~L~~~~d~~~~~aL~~~l~~--~~~~iIli~n~~~~~~~k~Lrsr~~~I~f~~~~~~~i~~~L  169 (482)
T PRK04195         92 GSLFGARRKLILLDEVDGIHGNEDRGGARAILELIKK--AKQPIILTANDPYDPSLRELRNACLMIEFKRLSTRSIVPVL  169 (482)
T ss_pred             CcccCCCCeEEEEecCcccccccchhHHHHHHHHHHc--CCCCEEEeccCccccchhhHhccceEEEecCCCHHHHHHHH
Confidence            10     0   111122221   11234555555542  3345666664321 111 11 12256788999998887777


Q ss_pred             hccccCCCCCCCCccHHHHHHHHHHHcCCChHHHH
Q 038448          285 SPHSLGEKDFSTHPSLKEIGEKIVKKCNGLPLVAK  319 (385)
Q Consensus       285 ~~~a~~~~~~~~~~~l~~~~~~i~~~c~glPLAi~  319 (385)
                      ...+.... ...+   .+....|++.++|-.-.+.
T Consensus       170 ~~i~~~eg-i~i~---~eaL~~Ia~~s~GDlR~ai  200 (482)
T PRK04195        170 KRICRKEG-IECD---DEALKEIAERSGGDLRSAI  200 (482)
T ss_pred             HHHHHHcC-CCCC---HHHHHHHHHHcCCCHHHHH
Confidence            66543221 1122   3567778888888654443

>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau

Probab=97.13  E-value=0.016  Score=55.18  Aligned_cols=172  Identities=12%  Similarity=0.097  Sum_probs=90.4

Q ss_pred             hhhHHHHHHHHhcCCCCCCCCceEEEEEcCCCCcHHHHHHHHhcccc---cc-----------------ccccceEEEEe
Q 038448          139 DKEKEETVKLLLRDDLRTDDGLSVIPIIGTGRIGKTTLAQLAYSDVR---VH-----------------NHFDLKAWTCV  198 (385)
Q Consensus       139 ~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~---~~-----------------~~F~~~~wv~v  198 (385)
                      +..++.+.+++....     -...+.++|++|+||||+|+.+.....   ..                 .+++ .+++..
T Consensus        20 ~~~~~~l~~~~~~~~-----~~~~~Ll~G~~G~GKt~~a~~la~~l~~~~~~~~~~c~~c~~c~~~~~~~~~~-~~~~~~   93 (355)
T TIGR02397        20 EHIVQTLKNAIKNGR-----IAHAYLFSGPRGTGKTSIARIFAKALNCQNGPDGEPCNECESCKEINSGSSLD-VIEIDA   93 (355)
T ss_pred             HHHHHHHHHHHHcCC-----CCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHHHHhcCCCCC-EEEeec
Confidence            334455555553321     235788999999999999987764311   00                 1222 233433


Q ss_pred             cCCCCHHHHHHHHHHHhhcCCCC---C---ccchHHhhchhhHhhHhhhccCCCCCcEEEEEcCChh-HHhhcC-CCCcc
Q 038448          199 SEDFDIIRVTKSILKSIASDQLV---D---DHDLNLLQKYNDWTNRSRLFEAGAPGSKIVFTTRNLG-VAEKMG-PLPAY  270 (385)
Q Consensus       199 s~~~~~~~~~~~il~~l~~~~~~---~---~~~~~~l~~~~~w~~l~~~l~~~~~gs~IivTTR~~~-va~~~~-~~~~~  270 (385)
                      +..... .-.++++..+......   .   .++.+.+ ....++.+...+......+.+|++|.+.. +...+. ....+
T Consensus        94 ~~~~~~-~~~~~l~~~~~~~p~~~~~~vviidea~~l-~~~~~~~Ll~~le~~~~~~~lIl~~~~~~~l~~~l~sr~~~~  171 (355)
T TIGR02397        94 ASNNGV-DDIREILDNVKYAPSSGKYKVYIIDEVHML-SKSAFNALLKTLEEPPEHVVFILATTEPHKIPATILSRCQRF  171 (355)
T ss_pred             cccCCH-HHHHHHHHHHhcCcccCCceEEEEeChhhc-CHHHHHHHHHHHhCCccceeEEEEeCCHHHHHHHHHhheeEE
Confidence            322222 2234454444322110   0   1111111 22345566666654445666667765443 232222 22467


Q ss_pred             cCCCCChhhHHhhhhccccCCCCCCCCccHHHHHHHHHHHcCCChHHHHHHH
Q 038448          271 PLKELSNDDCLSVFSPHSLGEKDFSTHPSLKEIGEKIVKKCNGLPLVAKSLG  322 (385)
Q Consensus       271 ~l~~L~~~~a~~Lf~~~a~~~~~~~~~~~l~~~~~~i~~~c~glPLAi~~~~  322 (385)
                      ++.+++.++....+...+-... ...+   .+.+..+++.++|.|..+....
T Consensus       172 ~~~~~~~~~l~~~l~~~~~~~g-~~i~---~~a~~~l~~~~~g~~~~a~~~l  219 (355)
T TIGR02397       172 DFKRIPLEDIVERLKKILDKEG-IKIE---DEALELIARAADGSLRDALSLL  219 (355)
T ss_pred             EcCCCCHHHHHHHHHHHHHHcC-CCCC---HHHHHHHHHHcCCChHHHHHHH
Confidence            8889999888777776542211 1111   3567788999999886665544

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.

>PRK14958 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.11  E-value=0.011  Score=58.88  Aligned_cols=172  Identities=12%  Similarity=0.042  Sum_probs=91.1

Q ss_pred             hhhHHHHHHHHhcCCCCCCCCceEEEEEcCCCCcHHHHHHHHhcccccc-------------------ccccceEEEEec
Q 038448          139 DKEKEETVKLLLRDDLRTDDGLSVIPIIGTGRIGKTTLAQLAYSDVRVH-------------------NHFDLKAWTCVS  199 (385)
Q Consensus       139 ~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~-------------------~~F~~~~wv~vs  199 (385)
                      +.-++.|.+++....     -...+.++|++|+||||+|+.+.+...-.                   ..|.-.+.+..+
T Consensus        22 ~~v~~~L~~~~~~~~-----l~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pCg~C~~C~~i~~g~~~d~~eidaa   96 (509)
T PRK14958         22 APVVRALSNALDQQY-----LHHAYLFTGTRGVGKTTISRILAKCLNCEKGVSANPCNDCENCREIDEGRFPDLFEVDAA   96 (509)
T ss_pred             HHHHHHHHHHHHhCC-----CCeeEEEECCCCCCHHHHHHHHHHHhcCCCCCCcccCCCCHHHHHHhcCCCceEEEEccc
Confidence            333455666664322     23567899999999999998876532111                   112224445544


Q ss_pred             CCCCHHHHHHHHHHHhhcCCCC---CccchHHhh--chhhHhhHhhhccCCCCCcEEEEEcCC-hhHHhhcC-CCCcccC
Q 038448          200 EDFDIIRVTKSILKSIASDQLV---DDHDLNLLQ--KYNDWTNRSRLFEAGAPGSKIVFTTRN-LGVAEKMG-PLPAYPL  272 (385)
Q Consensus       200 ~~~~~~~~~~~il~~l~~~~~~---~~~~~~~l~--~~~~w~~l~~~l~~~~~gs~IivTTR~-~~va~~~~-~~~~~~l  272 (385)
                      ....+.+ .++++..+......   ..--+++..  ..+..+.+...+......+++|++|.+ ..+...+. ....+++
T Consensus        97 s~~~v~~-iR~l~~~~~~~p~~~~~kV~iIDE~~~ls~~a~naLLk~LEepp~~~~fIlattd~~kl~~tI~SRc~~~~f  175 (509)
T PRK14958         97 SRTKVED-TRELLDNIPYAPTKGRFKVYLIDEVHMLSGHSFNALLKTLEEPPSHVKFILATTDHHKLPVTVLSRCLQFHL  175 (509)
T ss_pred             ccCCHHH-HHHHHHHHhhccccCCcEEEEEEChHhcCHHHHHHHHHHHhccCCCeEEEEEECChHhchHHHHHHhhhhhc
Confidence            4444444 35566654332211   011122222  344566666666655556777665543 33332221 2256889


Q ss_pred             CCCChhhHHhhhhccccCCCCCCCCccHHHHHHHHHHHcCCChHHHHH
Q 038448          273 KELSNDDCLSVFSPHSLGEKDFSTHPSLKEIGEKIVKKCNGLPLVAKS  320 (385)
Q Consensus       273 ~~L~~~~a~~Lf~~~a~~~~~~~~~~~l~~~~~~i~~~c~glPLAi~~  320 (385)
                      .+++.++-...+...+-. .+...   -......|++.++|.|--+..
T Consensus       176 ~~l~~~~i~~~l~~il~~-egi~~---~~~al~~ia~~s~GslR~al~  219 (509)
T PRK14958        176 AQLPPLQIAAHCQHLLKE-ENVEF---ENAALDLLARAANGSVRDALS  219 (509)
T ss_pred             CCCCHHHHHHHHHHHHHH-cCCCC---CHHHHHHHHHHcCCcHHHHHH
Confidence            999988876655443311 11111   134466788899998754443

>PRK14955 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.11  E-value=0.0056  Score=59.25  Aligned_cols=155  Identities=12%  Similarity=0.105  Sum_probs=82.2

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhccccccc----------------------------cccceEEEEecCCCCHHHHHHHH
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSDVRVHN----------------------------HFDLKAWTCVSEDFDIIRVTKSI  211 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~----------------------------~F~~~~wv~vs~~~~~~~~~~~i  211 (385)
                      ...+.++|++|+||||+|..+.+...-..                            +++. ..+..+..... +-++++
T Consensus        38 ~ha~lf~Gp~G~GKtt~A~~~a~~l~c~~~~~~~~~~~~~~~~c~~c~~c~~~~~~~~~n~-~~~~~~~~~~i-d~Ir~l  115 (397)
T PRK14955         38 GHGYIFSGLRGVGKTTAARVFAKAVNCQRMIDDADYLQEVTEPCGECESCRDFDAGTSLNI-SEFDAASNNSV-DDIRLL  115 (397)
T ss_pred             ceeEEEECCCCCCHHHHHHHHHHHhcCCCCcCcccccccCCCCCCCCHHHHHHhcCCCCCe-EeecccccCCH-HHHHHH
Confidence            35588999999999999988765321100                            1111 11221122222 333445


Q ss_pred             HHHhhcCCCC---CccchHHhh--chhhHhhHhhhccCCCCCcEEEEEc-CChhHHhhcCC-CCcccCCCCChhhHHhhh
Q 038448          212 LKSIASDQLV---DDHDLNLLQ--KYNDWTNRSRLFEAGAPGSKIVFTT-RNLGVAEKMGP-LPAYPLKELSNDDCLSVF  284 (385)
Q Consensus       212 l~~l~~~~~~---~~~~~~~l~--~~~~w~~l~~~l~~~~~gs~IivTT-R~~~va~~~~~-~~~~~l~~L~~~~a~~Lf  284 (385)
                      ...+......   ..--+++..  ....|+.+...+....+.+.+|++| +...+...+.. ...+++.+++.++....+
T Consensus       116 ~~~~~~~p~~~~~kvvIIdea~~l~~~~~~~LLk~LEep~~~t~~Il~t~~~~kl~~tl~sR~~~v~f~~l~~~ei~~~l  195 (397)
T PRK14955        116 RENVRYGPQKGRYRVYIIDEVHMLSIAAFNAFLKTLEEPPPHAIFIFATTELHKIPATIASRCQRFNFKRIPLEEIQQQL  195 (397)
T ss_pred             HHHHhhchhcCCeEEEEEeChhhCCHHHHHHHHHHHhcCCCCeEEEEEeCChHHhHHHHHHHHHHhhcCCCCHHHHHHHH
Confidence            5555322210   011112222  3346777777776655566666555 43444332221 246889999998887766


Q ss_pred             hccccCCCCCCCCccHHHHHHHHHHHcCCChHHHHH
Q 038448          285 SPHSLGEKDFSTHPSLKEIGEKIVKKCNGLPLVAKS  320 (385)
Q Consensus       285 ~~~a~~~~~~~~~~~l~~~~~~i~~~c~glPLAi~~  320 (385)
                      ...+-.. ...   --.+.+..|+..++|.+--+..
T Consensus       196 ~~~~~~~-g~~---i~~~al~~l~~~s~g~lr~a~~  227 (397)
T PRK14955        196 QGICEAE-GIS---VDADALQLIGRKAQGSMRDAQS  227 (397)
T ss_pred             HHHHHHc-CCC---CCHHHHHHHHHHcCCCHHHHHH
Confidence            6543211 111   1145678899999997754444

>PRK07994 DNA polymerase III subunits gamma and tau; Validated

Probab=97.10  E-value=0.0043  Score=63.04  Aligned_cols=154  Identities=14%  Similarity=0.104  Sum_probs=83.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcccccc-------------------ccccceEEEEecCCCCHHHHHHHHHHHhhcCCCC
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSDVRVH-------------------NHFDLKAWTCVSEDFDIIRVTKSILKSIASDQLV  221 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~~~~~-------------------~~F~~~~wv~vs~~~~~~~~~~~il~~l~~~~~~  221 (385)
                      ..+.++|..|+||||+|+.+.+...-.                   ..|.-.+.+..+....+. -+++|+..+......
T Consensus        39 hAyLf~Gp~GvGKTTlAr~lAk~L~c~~~~~~~pCg~C~~C~~i~~g~~~D~ieidaas~~~Vd-diR~li~~~~~~p~~  117 (647)
T PRK07994         39 HAYLFSGTRGVGKTTIARLLAKGLNCETGITATPCGECDNCREIEQGRFVDLIEIDAASRTKVE-DTRELLDNVQYAPAR  117 (647)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhhhhccCCCCCCCCCCHHHHHHHcCCCCCceeecccccCCHH-HHHHHHHHHHhhhhc
Confidence            557899999999999998886542110                   012122344433222333 345555554322110


Q ss_pred             ---CccchHHhh--chhhHhhHhhhccCCCCCcEEEEEcCC-hhHHhhcC-CCCcccCCCCChhhHHhhhhccccCCCCC
Q 038448          222 ---DDHDLNLLQ--KYNDWTNRSRLFEAGAPGSKIVFTTRN-LGVAEKMG-PLPAYPLKELSNDDCLSVFSPHSLGEKDF  294 (385)
Q Consensus       222 ---~~~~~~~l~--~~~~w~~l~~~l~~~~~gs~IivTTR~-~~va~~~~-~~~~~~l~~L~~~~a~~Lf~~~a~~~~~~  294 (385)
                         ..--+++..  +....+.+...+-......++|++|.+ ..+...+. ....|++.+|+.++....+...+-.. ..
T Consensus       118 g~~KV~IIDEah~Ls~~a~NALLKtLEEPp~~v~FIL~Tt~~~kLl~TI~SRC~~~~f~~Ls~~ei~~~L~~il~~e-~i  196 (647)
T PRK07994        118 GRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTILSRCLQFHLKALDVEQIRQQLEHILQAE-QI  196 (647)
T ss_pred             CCCEEEEEechHhCCHHHHHHHHHHHHcCCCCeEEEEecCCccccchHHHhhheEeeCCCCCHHHHHHHHHHHHHHc-CC
Confidence               111122222  445566666666554455566555444 44433222 23678999999999888777543111 11


Q ss_pred             CCCccHHHHHHHHHHHcCCChHHHH
Q 038448          295 STHPSLKEIGEKIVKKCNGLPLVAK  319 (385)
Q Consensus       295 ~~~~~l~~~~~~i~~~c~glPLAi~  319 (385)
                         ..-......|++.++|.|--+.
T Consensus       197 ---~~e~~aL~~Ia~~s~Gs~R~Al  218 (647)
T PRK07994        197 ---PFEPRALQLLARAADGSMRDAL  218 (647)
T ss_pred             ---CCCHHHHHHHHHHcCCCHHHHH
Confidence               1113456778899999775333

>PTZ00112 origin recognition complex 1 protein; Provisional

Probab=97.08  E-value=0.0088  Score=61.97  Aligned_cols=78  Identities=13%  Similarity=-0.002  Sum_probs=51.3

Q ss_pred             hhhHHHHHHHHhcCCCCCCCCceEEEEEcCCCCcHHHHHHHHhccccc---ccccc--ceEEEEecCCCCHHHHHHHHHH
Q 038448          139 DKEKEETVKLLLRDDLRTDDGLSVIPIIGTGRIGKTTLAQLAYSDVRV---HNHFD--LKAWTCVSEDFDIIRVTKSILK  213 (385)
Q Consensus       139 ~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~---~~~F~--~~~wv~vs~~~~~~~~~~~il~  213 (385)
                      +++.+.|...|..... ......++-|+|.+|.|||+.++.|.....-   ....+  .+++|+...-.+...++..|..
T Consensus       761 EeEIeeLasfL~paIk-gsgpnnvLYIyG~PGTGKTATVK~VLrELqeeaeqk~lp~f~vVYINCm~Lstp~sIYqvI~q  839 (1164)
T PTZ00112        761 EKEIKEVHGFLESGIK-QSGSNQILYISGMPGTGKTATVYSVIQLLQHKTKQKLLPSFNVFEINGMNVVHPNAAYQVLYK  839 (1164)
T ss_pred             HHHHHHHHHHHHHHHh-cCCCCceEEEECCCCCCHHHHHHHHHHHHHHHHhhccCCCceEEEEeCCccCCHHHHHHHHHH
Confidence            8888888888755322 2223367789999999999999999864211   11122  2456665555567777777777


Q ss_pred             Hhhc
Q 038448          214 SIAS  217 (385)
Q Consensus       214 ~l~~  217 (385)
                      ++..
T Consensus       840 qL~g  843 (1164)
T PTZ00112        840 QLFN  843 (1164)
T ss_pred             HHcC
Confidence            7743

>PRK14951 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.08  E-value=0.0063  Score=61.65  Aligned_cols=170  Identities=12%  Similarity=0.097  Sum_probs=91.4

Q ss_pred             hHHHHHHHHhcCCCCCCCCceEEEEEcCCCCcHHHHHHHHhccccc------------------------cccccceEEE
Q 038448          141 EKEETVKLLLRDDLRTDDGLSVIPIIGTGRIGKTTLAQLAYSDVRV------------------------HNHFDLKAWT  196 (385)
Q Consensus       141 ~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~------------------------~~~F~~~~wv  196 (385)
                      -+..|.+++..+.     -...+.++|..|+||||+|+.+.+...-                        ...+.-.+++
T Consensus        24 vv~~L~~~l~~~r-----l~ha~Lf~Gp~GvGKTtlAr~lAk~LnC~~~~~~~~~~~~pCg~C~~C~~i~~g~h~D~~el   98 (618)
T PRK14951         24 VVQALTNALTQQR-----LHHAYLFTGTRGVGKTTVSRILAKSLNCQGPDGQGGITATPCGVCQACRDIDSGRFVDYTEL   98 (618)
T ss_pred             HHHHHHHHHHcCC-----CCeEEEEECCCCCCHHHHHHHHHHHhcCCCcccccCCCCCCCCccHHHHHHHcCCCCceeec
Confidence            3445555554322     3467789999999999999888432100                        0012223444


Q ss_pred             EecCCCCHHHHHHHHHHHhhcCCCC---CccchHHhh--chhhHhhHhhhccCCCCCcEEEEEc-CChhHHhhc-CCCCc
Q 038448          197 CVSEDFDIIRVTKSILKSIASDQLV---DDHDLNLLQ--KYNDWTNRSRLFEAGAPGSKIVFTT-RNLGVAEKM-GPLPA  269 (385)
Q Consensus       197 ~vs~~~~~~~~~~~il~~l~~~~~~---~~~~~~~l~--~~~~w~~l~~~l~~~~~gs~IivTT-R~~~va~~~-~~~~~  269 (385)
                      ..+....+.. .+++++.+......   ..--+++..  +...++.+...+.......++|++| ....+...+ +....
T Consensus        99 daas~~~Vd~-iReli~~~~~~p~~g~~KV~IIDEvh~Ls~~a~NaLLKtLEEPP~~~~fIL~Ttd~~kil~TIlSRc~~  177 (618)
T PRK14951         99 DAASNRGVDE-VQQLLEQAVYKPVQGRFKVFMIDEVHMLTNTAFNAMLKTLEEPPEYLKFVLATTDPQKVPVTVLSRCLQ  177 (618)
T ss_pred             CcccccCHHH-HHHHHHHHHhCcccCCceEEEEEChhhCCHHHHHHHHHhcccCCCCeEEEEEECCchhhhHHHHHhcee
Confidence            4433333333 35555554322210   111122222  4455666777766544566666555 434443322 22367


Q ss_pred             ccCCCCChhhHHhhhhccccCCCCCCCCccHHHHHHHHHHHcCCChHHHHH
Q 038448          270 YPLKELSNDDCLSVFSPHSLGEKDFSTHPSLKEIGEKIVKKCNGLPLVAKS  320 (385)
Q Consensus       270 ~~l~~L~~~~a~~Lf~~~a~~~~~~~~~~~l~~~~~~i~~~c~glPLAi~~  320 (385)
                      +++++++.++....+.+.+-.. ....   -.+....|++.++|.+--+..
T Consensus       178 ~~f~~Ls~eei~~~L~~i~~~e-gi~i---e~~AL~~La~~s~GslR~al~  224 (618)
T PRK14951        178 FNLRPMAPETVLEHLTQVLAAE-NVPA---EPQALRLLARAARGSMRDALS  224 (618)
T ss_pred             eecCCCCHHHHHHHHHHHHHHc-CCCC---CHHHHHHHHHHcCCCHHHHHH
Confidence            8999999999887777654221 1111   135567788899987744443

>PRK14964 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.08  E-value=0.0055  Score=60.36  Aligned_cols=153  Identities=15%  Similarity=0.139  Sum_probs=86.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhccc------c------------c-cccccceEEEEecCCCCHHHHHHHHHHHhhcCCC
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSDV------R------------V-HNHFDLKAWTCVSEDFDIIRVTKSILKSIASDQL  220 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~~------~------------~-~~~F~~~~wv~vs~~~~~~~~~~~il~~l~~~~~  220 (385)
                      ...+.++|+.|+||||+|+.+....      .            + ...+.-++.+..+....+.+ .++|+........
T Consensus        35 ~ha~Lf~Gp~G~GKTT~ArilAk~LnC~~~~~~~pCg~C~~C~~i~~~~~~Dv~eidaas~~~vdd-IR~Iie~~~~~P~  113 (491)
T PRK14964         35 PQSILLVGASGVGKTTCARIISLCLNCSNGPTSDPCGTCHNCISIKNSNHPDVIEIDAASNTSVDD-IKVILENSCYLPI  113 (491)
T ss_pred             CceEEEECCCCccHHHHHHHHHHHHcCcCCCCCCCccccHHHHHHhccCCCCEEEEecccCCCHHH-HHHHHHHHHhccc
Confidence            3578899999999999998876410      0            0 01122345566554444444 4455555432221


Q ss_pred             C------CccchHHhhchhhHhhHhhhccCCCCCcEEEEEc-CChhHHhhcC-CCCcccCCCCChhhHHhhhhccccCCC
Q 038448          221 V------DDHDLNLLQKYNDWTNRSRLFEAGAPGSKIVFTT-RNLGVAEKMG-PLPAYPLKELSNDDCLSVFSPHSLGEK  292 (385)
Q Consensus       221 ~------~~~~~~~l~~~~~w~~l~~~l~~~~~gs~IivTT-R~~~va~~~~-~~~~~~l~~L~~~~a~~Lf~~~a~~~~  292 (385)
                      .      ..++.+.+ .....+.+...+....+.+++|++| ....+...+. ....+.+.+++.++....+.+.+....
T Consensus       114 ~~~~KVvIIDEah~L-s~~A~NaLLK~LEePp~~v~fIlatte~~Kl~~tI~SRc~~~~f~~l~~~el~~~L~~ia~~Eg  192 (491)
T PRK14964        114 SSKFKVYIIDEVHML-SNSAFNALLKTLEEPAPHVKFILATTEVKKIPVTIISRCQRFDLQKIPTDKLVEHLVDIAKKEN  192 (491)
T ss_pred             cCCceEEEEeChHhC-CHHHHHHHHHHHhCCCCCeEEEEEeCChHHHHHHHHHhheeeecccccHHHHHHHHHHHHHHcC
Confidence            0      01111111 3345666777776555666666555 4445544332 236689999999998887776653221


Q ss_pred             CCCCCccHHHHHHHHHHHcCCChHHH
Q 038448          293 DFSTHPSLKEIGEKIVKKCNGLPLVA  318 (385)
Q Consensus       293 ~~~~~~~l~~~~~~i~~~c~glPLAi  318 (385)
                      . .   --.+....|++.++|.+--+
T Consensus       193 i-~---i~~eAL~lIa~~s~GslR~a  214 (491)
T PRK14964        193 I-E---HDEESLKLIAENSSGSMRNA  214 (491)
T ss_pred             C-C---CCHHHHHHHHHHcCCCHHHH
Confidence            1 1   11345677889998877543

>PRK07764 DNA polymerase III subunits gamma and tau; Validated

Probab=97.04  E-value=0.011  Score=62.10  Aligned_cols=167  Identities=10%  Similarity=0.033  Sum_probs=88.5

Q ss_pred             hHHHHHHHHhcCCCCCCCCceEEEEEcCCCCcHHHHHHHHhcccccc----------------------ccccceEEEEe
Q 038448          141 EKEETVKLLLRDDLRTDDGLSVIPIIGTGRIGKTTLAQLAYSDVRVH----------------------NHFDLKAWTCV  198 (385)
Q Consensus       141 ~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~----------------------~~F~~~~wv~v  198 (385)
                      -++.|.+++....     -...+.++|..|+||||+|+.+.+...-.                      .+++ ++++..
T Consensus        23 v~~~L~~~i~~~r-----i~Ha~Lf~Gp~G~GKTt~A~~lAr~L~C~~~~~~~pCg~C~sC~~~~~g~~~~~d-v~eida   96 (824)
T PRK07764         23 VTEPLSTALDSGR-----INHAYLFSGPRGCGKTSSARILARSLNCVEGPTSTPCGECDSCVALAPGGPGSLD-VTEIDA   96 (824)
T ss_pred             HHHHHHHHHHhCC-----CCceEEEECCCCCCHHHHHHHHHHHhCcccCCCCCCCcccHHHHHHHcCCCCCCc-EEEecc
Confidence            3445556654322     23567899999999999998886542110                      1111 234433


Q ss_pred             cCCCCHHHHHHHHHHHhhcCCCC---CccchHHhh--chhhHhhHhhhccCCCCCcEEEEEc-CChhHHhhcC-CCCccc
Q 038448          199 SEDFDIIRVTKSILKSIASDQLV---DDHDLNLLQ--KYNDWTNRSRLFEAGAPGSKIVFTT-RNLGVAEKMG-PLPAYP  271 (385)
Q Consensus       199 s~~~~~~~~~~~il~~l~~~~~~---~~~~~~~l~--~~~~w~~l~~~l~~~~~gs~IivTT-R~~~va~~~~-~~~~~~  271 (385)
                      .....+.++ +++...+......   ....+++..  ....++.|+..+..-...+.+|++| ....+...+. ....|.
T Consensus        97 as~~~Vd~i-R~l~~~~~~~p~~~~~KV~IIDEad~lt~~a~NaLLK~LEEpP~~~~fIl~tt~~~kLl~TIrSRc~~v~  175 (824)
T PRK07764         97 ASHGGVDDA-RELRERAFFAPAESRYKIFIIDEAHMVTPQGFNALLKIVEEPPEHLKFIFATTEPDKVIGTIRSRTHHYP  175 (824)
T ss_pred             cccCCHHHH-HHHHHHHHhchhcCCceEEEEechhhcCHHHHHHHHHHHhCCCCCeEEEEEeCChhhhhHHHHhheeEEE
Confidence            222233332 3444333221110   111122222  4456777777776655666666555 4444444333 236789


Q ss_pred             CCCCChhhHHhhhhccccCCCCCCCCccHHHHHHHHHHHcCCChHHH
Q 038448          272 LKELSNDDCLSVFSPHSLGEKDFSTHPSLKEIGEKIVKKCNGLPLVA  318 (385)
Q Consensus       272 l~~L~~~~a~~Lf~~~a~~~~~~~~~~~l~~~~~~i~~~c~glPLAi  318 (385)
                      +..++.++....+.+.+ ......   --......|++.++|.+..+
T Consensus       176 F~~l~~~~l~~~L~~il-~~EGv~---id~eal~lLa~~sgGdlR~A  218 (824)
T PRK07764        176 FRLVPPEVMRGYLERIC-AQEGVP---VEPGVLPLVIRAGGGSVRDS  218 (824)
T ss_pred             eeCCCHHHHHHHHHHHH-HHcCCC---CCHHHHHHHHHHcCCCHHHH
Confidence            99999988877776543 111111   11345567888899977433

>PRK00149 dnaA chromosomal replication initiation protein; Reviewed

Probab=97.03  E-value=0.0047  Score=60.87  Aligned_cols=147  Identities=14%  Similarity=0.116  Sum_probs=78.2

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhcccccccccc--ceEEEEecCCCCHHHHHHHHHHHhh------------cCCCCCccc
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFD--LKAWTCVSEDFDIIRVTKSILKSIA------------SDQLVDDHD  225 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~--~~~wv~vs~~~~~~~~~~~il~~l~------------~~~~~~~~~  225 (385)
                      ..-+.|+|.+|+|||+|++.+.+.  +...+.  .+++++...      +...+...+.            ..+.-..++
T Consensus       148 ~~~l~l~G~~G~GKThL~~ai~~~--~~~~~~~~~v~yi~~~~------~~~~~~~~~~~~~~~~~~~~~~~~dlLiiDD  219 (450)
T PRK00149        148 YNPLFIYGGVGLGKTHLLHAIGNY--ILEKNPNAKVVYVTSEK------FTNDFVNALRNNTMEEFKEKYRSVDVLLIDD  219 (450)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHH--HHHhCCCCeEEEEEHHH------HHHHHHHHHHcCcHHHHHHHHhcCCEEEEeh
Confidence            456889999999999999999986  444432  344565332      2222222221            111101222


Q ss_pred             hHHhhchhhHh-hHhhhccC-CCCCcEEEEEcCChh---------HHhhcCCCCcccCCCCChhhHHhhhhccccCCCCC
Q 038448          226 LNLLQKYNDWT-NRSRLFEA-GAPGSKIVFTTRNLG---------VAEKMGPLPAYPLKELSNDDCLSVFSPHSLGEKDF  294 (385)
Q Consensus       226 ~~~l~~~~~w~-~l~~~l~~-~~~gs~IivTTR~~~---------va~~~~~~~~~~l~~L~~~~a~~Lf~~~a~~~~~~  294 (385)
                      ++.+...+.+. .+...+.. ...|..||+||....         +...+.....+.+.+++.++-..++.+.+-.. ..
T Consensus       220 i~~l~~~~~~~~~l~~~~n~l~~~~~~iiits~~~p~~l~~l~~~l~SRl~~gl~v~i~~pd~~~r~~il~~~~~~~-~~  298 (450)
T PRK00149        220 IQFLAGKERTQEEFFHTFNALHEAGKQIVLTSDRPPKELPGLEERLRSRFEWGLTVDIEPPDLETRIAILKKKAEEE-GI  298 (450)
T ss_pred             hhhhcCCHHHHHHHHHHHHHHHHCCCcEEEECCCCHHHHHHHHHHHHhHhcCCeeEEecCCCHHHHHHHHHHHHHHc-CC
Confidence            33222222222 22222211 123456888876431         22233334568899999999999998876321 11


Q ss_pred             CCCccHHHHHHHHHHHcCCChHHH
Q 038448          295 STHPSLKEIGEKIVKKCNGLPLVA  318 (385)
Q Consensus       295 ~~~~~l~~~~~~i~~~c~glPLAi  318 (385)
                      ..+   .++..-|++.+.|..-.+
T Consensus       299 ~l~---~e~l~~ia~~~~~~~R~l  319 (450)
T PRK00149        299 DLP---DEVLEFIAKNITSNVREL  319 (450)
T ss_pred             CCC---HHHHHHHHcCcCCCHHHH
Confidence            112   345666777777665443

>PRK14088 dnaA chromosomal replication initiation protein; Provisional

Probab=97.00  E-value=0.0071  Score=59.27  Aligned_cols=143  Identities=13%  Similarity=0.075  Sum_probs=74.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhccccccccc-c-ceEEEEecCCCCHHHHHHHHHHHhhcCC-----------C--CCcc
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSDVRVHNHF-D-LKAWTCVSEDFDIIRVTKSILKSIASDQ-----------L--VDDH  224 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F-~-~~~wv~vs~~~~~~~~~~~il~~l~~~~-----------~--~~~~  224 (385)
                      ..-+.|+|.+|+|||+|++.+.+.  +.... . .++|++..      +++..+...+....           .  --.+
T Consensus       130 ~n~l~lyG~~G~GKTHLl~ai~~~--l~~~~~~~~v~yi~~~------~f~~~~~~~~~~~~~~~f~~~~~~~~dvLlID  201 (440)
T PRK14088        130 YNPLFIYGGVGLGKTHLLQSIGNY--VVQNEPDLRVMYITSE------KFLNDLVDSMKEGKLNEFREKYRKKVDVLLID  201 (440)
T ss_pred             CCeEEEEcCCCCcHHHHHHHHHHH--HHHhCCCCeEEEEEHH------HHHHHHHHHHhcccHHHHHHHHHhcCCEEEEe
Confidence            345899999999999999999985  33332 2 34566532      33444433332110           1  0112


Q ss_pred             chHHhhchhhHh-hHhhhccC-CCCCcEEEEEcC-ChhHHh--------hcCCCCcccCCCCChhhHHhhhhccccCCCC
Q 038448          225 DLNLLQKYNDWT-NRSRLFEA-GAPGSKIVFTTR-NLGVAE--------KMGPLPAYPLKELSNDDCLSVFSPHSLGEKD  293 (385)
Q Consensus       225 ~~~~l~~~~~w~-~l~~~l~~-~~~gs~IivTTR-~~~va~--------~~~~~~~~~l~~L~~~~a~~Lf~~~a~~~~~  293 (385)
                      +++.+.+...+. .+...+.. ...|..||+||. .+.-..        .+.....+.+++.+.+.-..++.+.+-.. .
T Consensus       202 Di~~l~~~~~~q~elf~~~n~l~~~~k~iIitsd~~p~~l~~l~~rL~SR~~~gl~v~i~~pd~e~r~~IL~~~~~~~-~  280 (440)
T PRK14088        202 DVQFLIGKTGVQTELFHTFNELHDSGKQIVICSDREPQKLSEFQDRLVSRFQMGLVAKLEPPDEETRKKIARKMLEIE-H  280 (440)
T ss_pred             chhhhcCcHHHHHHHHHHHHHHHHcCCeEEEECCCCHHHHHHHHHHHhhHHhcCceEeeCCCCHHHHHHHHHHHHHhc-C
Confidence            222221222121 22222211 123456888874 332221        22333467899999998888888775321 1


Q ss_pred             CCCCccHHHHHHHHHHHcCCC
Q 038448          294 FSTHPSLKEIGEKIVKKCNGL  314 (385)
Q Consensus       294 ~~~~~~l~~~~~~i~~~c~gl  314 (385)
                      ...+   .++..-|++.+.|.
T Consensus       281 ~~l~---~ev~~~Ia~~~~~~  298 (440)
T PRK14088        281 GELP---EEVLNFVAENVDDN  298 (440)
T ss_pred             CCCC---HHHHHHHHhccccC
Confidence            1111   34566666666654

>PRK12422 chromosomal replication initiation protein; Provisional

Probab=96.98  E-value=0.0038  Score=61.09  Aligned_cols=121  Identities=18%  Similarity=0.163  Sum_probs=64.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecCCCCHHHHHHHHHHHhhcCC---------CCCccchHHhh
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDFDIIRVTKSILKSIASDQ---------LVDDHDLNLLQ  230 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~il~~l~~~~---------~~~~~~~~~l~  230 (385)
                      ..-+.|+|++|+|||+|++.+.+.  +...-..+++++.      ..+...+...+....         ..+.--+++++
T Consensus       141 ~npl~L~G~~G~GKTHLl~Ai~~~--l~~~~~~v~yi~~------~~f~~~~~~~l~~~~~~~f~~~~~~~dvLiIDDiq  212 (445)
T PRK12422        141 FNPIYLFGPEGSGKTHLMQAAVHA--LRESGGKILYVRS------ELFTEHLVSAIRSGEMQRFRQFYRNVDALFIEDIE  212 (445)
T ss_pred             CceEEEEcCCCCCHHHHHHHHHHH--HHHcCCCEEEeeH------HHHHHHHHHHHhcchHHHHHHHcccCCEEEEcchh
Confidence            456789999999999999999985  3222233455543      223333333322110         00111122222


Q ss_pred             ---chhhHh-hHhhhccC-CCCCcEEEEEcCCh---------hHHhhcCCCCcccCCCCChhhHHhhhhccc
Q 038448          231 ---KYNDWT-NRSRLFEA-GAPGSKIVFTTRNL---------GVAEKMGPLPAYPLKELSNDDCLSVFSPHS  288 (385)
Q Consensus       231 ---~~~~w~-~l~~~l~~-~~~gs~IivTTR~~---------~va~~~~~~~~~~l~~L~~~~a~~Lf~~~a  288 (385)
                         ....+. .+...+.. ...|..||+||...         .+...+.....+.+.+++.++-..++.+++
T Consensus       213 ~l~~k~~~qeelf~l~N~l~~~~k~IIlts~~~p~~l~~l~~rL~SR~~~Gl~~~l~~pd~e~r~~iL~~k~  284 (445)
T PRK12422        213 VFSGKGATQEEFFHTFNSLHTEGKLIVISSTCAPQDLKAMEERLISRFEWGIAIPLHPLTKEGLRSFLERKA  284 (445)
T ss_pred             hhcCChhhHHHHHHHHHHHHHCCCcEEEecCCCHHHHhhhHHHHHhhhcCCeEEecCCCCHHHHHHHHHHHH
Confidence               211221 22222221 12355788888542         222233334578899999999988888766

>PRK14959 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.96  E-value=0.03  Score=56.67  Aligned_cols=161  Identities=13%  Similarity=0.069  Sum_probs=85.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhcccccccc-----c--------------cceEEEEecCCCCHHHHHHHHHHHhhcCCC
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSDVRVHNH-----F--------------DLKAWTCVSEDFDIIRVTKSILKSIASDQL  220 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~-----F--------------~~~~wv~vs~~~~~~~~~~~il~~l~~~~~  220 (385)
                      ...+.++|+.|+||||+|+.+.+..--...     +              .-.+++..+....+.. .+.|.+.+.....
T Consensus        38 ~ha~Lf~GPpG~GKTtiArilAk~L~C~~~~~~~pCg~C~sC~~i~~g~hpDv~eId~a~~~~Id~-iR~L~~~~~~~p~  116 (624)
T PRK14959         38 APAYLFSGTRGVGKTTIARIFAKALNCETAPTGEPCNTCEQCRKVTQGMHVDVVEIDGASNRGIDD-AKRLKEAIGYAPM  116 (624)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHhccccCCCCCCCCcccHHHHHHhcCCCCceEEEecccccCHHH-HHHHHHHHHhhhh
Confidence            467889999999999999888764211100     0              1133443322222322 3334333322111


Q ss_pred             ---CCccchHHhh--chhhHhhHhhhccCCCCCcEEEEEcCC-hhHHhhcC-CCCcccCCCCChhhHHhhhhccccCCCC
Q 038448          221 ---VDDHDLNLLQ--KYNDWTNRSRLFEAGAPGSKIVFTTRN-LGVAEKMG-PLPAYPLKELSNDDCLSVFSPHSLGEKD  293 (385)
Q Consensus       221 ---~~~~~~~~l~--~~~~w~~l~~~l~~~~~gs~IivTTR~-~~va~~~~-~~~~~~l~~L~~~~a~~Lf~~~a~~~~~  293 (385)
                         ...-.+++.+  ....++.+...+........+|++|.+ ..+...+. ....+++.+++.++....+...+.... 
T Consensus       117 ~g~~kVIIIDEad~Lt~~a~naLLk~LEEP~~~~ifILaTt~~~kll~TI~SRcq~i~F~pLs~~eL~~~L~~il~~eg-  195 (624)
T PRK14959        117 EGRYKVFIIDEAHMLTREAFNALLKTLEEPPARVTFVLATTEPHKFPVTIVSRCQHFTFTRLSEAGLEAHLTKVLGREG-  195 (624)
T ss_pred             cCCceEEEEEChHhCCHHHHHHHHHHhhccCCCEEEEEecCChhhhhHHHHhhhhccccCCCCHHHHHHHHHHHHHHcC-
Confidence               0111122222  334456666666543345556665544 44443322 225689999999998887776543221 


Q ss_pred             CCCCccHHHHHHHHHHHcCCC-hHHHHHHHHHh
Q 038448          294 FSTHPSLKEIGEKIVKKCNGL-PLVAKSLGGLL  325 (385)
Q Consensus       294 ~~~~~~l~~~~~~i~~~c~gl-PLAi~~~~~~L  325 (385)
                      ...   -.+.+..|++.++|. -.|+..+..++
T Consensus       196 i~i---d~eal~lIA~~s~GdlR~Al~lLeqll  225 (624)
T PRK14959        196 VDY---DPAAVRLIARRAAGSVRDSMSLLGQVL  225 (624)
T ss_pred             CCC---CHHHHHHHHHHcCCCHHHHHHHHHHHH
Confidence            111   135677788899985 46777766544

>PRK08691 DNA polymerase III subunits gamma and tau; Validated

Probab=96.93  E-value=0.018  Score=58.65  Aligned_cols=170  Identities=11%  Similarity=0.063  Sum_probs=87.9

Q ss_pred             hHHHHHHHHhcCCCCCCCCceEEEEEcCCCCcHHHHHHHHhcccccc-------------------ccccceEEEEecCC
Q 038448          141 EKEETVKLLLRDDLRTDDGLSVIPIIGTGRIGKTTLAQLAYSDVRVH-------------------NHFDLKAWTCVSED  201 (385)
Q Consensus       141 ~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~-------------------~~F~~~~wv~vs~~  201 (385)
                      -+..|.+++..+.     -...+.++|..|+||||+|+.+.....-.                   ..|...+.+..+..
T Consensus        24 vv~~L~~ai~~~r-----l~Ha~Lf~GP~GvGKTTlAriLAk~LnC~~~~~~~pCg~C~sCr~i~~g~~~DvlEidaAs~   98 (709)
T PRK08691         24 VVKALQNALDEGR-----LHHAYLLTGTRGVGKTTIARILAKSLNCENAQHGEPCGVCQSCTQIDAGRYVDLLEIDAASN   98 (709)
T ss_pred             HHHHHHHHHHcCC-----CCeEEEEECCCCCcHHHHHHHHHHHhcccCCCCCCCCcccHHHHHHhccCccceEEEecccc
Confidence            3445556654322     23578999999999999998876531110                   11212234443333


Q ss_pred             CCHHHHHHHHHHHhhcCCC---CCccchHHhh--chhhHhhHhhhccCCCCCcEEEEEcCCh-hHHhhc-CCCCcccCCC
Q 038448          202 FDIIRVTKSILKSIASDQL---VDDHDLNLLQ--KYNDWTNRSRLFEAGAPGSKIVFTTRNL-GVAEKM-GPLPAYPLKE  274 (385)
Q Consensus       202 ~~~~~~~~~il~~l~~~~~---~~~~~~~~l~--~~~~w~~l~~~l~~~~~gs~IivTTR~~-~va~~~-~~~~~~~l~~  274 (385)
                      ..+ +.+++++........   ...-.+++..  .....+.+...+......+++|++|.+. .+...+ +....+.+.+
T Consensus        99 ~gV-d~IRelle~a~~~P~~gk~KVIIIDEad~Ls~~A~NALLKtLEEPp~~v~fILaTtd~~kL~~TIrSRC~~f~f~~  177 (709)
T PRK08691         99 TGI-DNIREVLENAQYAPTAGKYKVYIIDEVHMLSKSAFNAMLKTLEEPPEHVKFILATTDPHKVPVTVLSRCLQFVLRN  177 (709)
T ss_pred             CCH-HHHHHHHHHHHhhhhhCCcEEEEEECccccCHHHHHHHHHHHHhCCCCcEEEEEeCCccccchHHHHHHhhhhcCC
Confidence            333 334555554321110   0011111111  2233445555554434456677666543 222221 1224578889


Q ss_pred             CChhhHHhhhhccccCCCCCCCCccHHHHHHHHHHHcCCChHHHHH
Q 038448          275 LSNDDCLSVFSPHSLGEKDFSTHPSLKEIGEKIVKKCNGLPLVAKS  320 (385)
Q Consensus       275 L~~~~a~~Lf~~~a~~~~~~~~~~~l~~~~~~i~~~c~glPLAi~~  320 (385)
                      ++.++....+.+.+-.. ...   --......|++.++|.+.-+..
T Consensus       178 Ls~eeI~~~L~~Il~kE-gi~---id~eAL~~Ia~~A~GslRdAln  219 (709)
T PRK08691        178 MTAQQVADHLAHVLDSE-KIA---YEPPALQLLGRAAAGSMRDALS  219 (709)
T ss_pred             CCHHHHHHHHHHHHHHc-CCC---cCHHHHHHHHHHhCCCHHHHHH
Confidence            99999888777654221 111   1235667899999988744433

>TIGR00362 DnaA chromosomal replication initiator protein DnaA

Probab=96.91  E-value=0.0042  Score=60.34  Aligned_cols=147  Identities=15%  Similarity=0.140  Sum_probs=77.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhccccccccc--cceEEEEecCCCCHHHHHHHHHHHhhcC------------CCCCccc
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSDVRVHNHF--DLKAWTCVSEDFDIIRVTKSILKSIASD------------QLVDDHD  225 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F--~~~~wv~vs~~~~~~~~~~~il~~l~~~------------~~~~~~~  225 (385)
                      ...+.|+|.+|+|||+|++.+++.  +....  ..+++++..      ++...+...+...            +.-..++
T Consensus       136 ~n~l~l~G~~G~GKThL~~ai~~~--l~~~~~~~~v~yi~~~------~~~~~~~~~~~~~~~~~~~~~~~~~dlLiiDD  207 (405)
T TIGR00362       136 YNPLFIYGGVGLGKTHLLHAIGNE--ILENNPNAKVVYVSSE------KFTNDFVNALRNNKMEEFKEKYRSVDLLLIDD  207 (405)
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHH--HHHhCCCCcEEEEEHH------HHHHHHHHHHHcCCHHHHHHHHHhCCEEEEeh
Confidence            356889999999999999999985  33332  234566532      2222333222211            1001222


Q ss_pred             hHHhhchhhHh-hHhhhccC-CCCCcEEEEEcCCh-hH--------HhhcCCCCcccCCCCChhhHHhhhhccccCCCCC
Q 038448          226 LNLLQKYNDWT-NRSRLFEA-GAPGSKIVFTTRNL-GV--------AEKMGPLPAYPLKELSNDDCLSVFSPHSLGEKDF  294 (385)
Q Consensus       226 ~~~l~~~~~w~-~l~~~l~~-~~~gs~IivTTR~~-~v--------a~~~~~~~~~~l~~L~~~~a~~Lf~~~a~~~~~~  294 (385)
                      ++.+...+.+. .+...+.. ...|..+|+||... .-        ...+.....+.+.+.+.++-..++.+.+-... .
T Consensus       208 i~~l~~~~~~~~~l~~~~n~~~~~~~~iiits~~~p~~l~~l~~~l~SRl~~g~~v~i~~pd~~~r~~il~~~~~~~~-~  286 (405)
T TIGR00362       208 IQFLAGKERTQEEFFHTFNALHENGKQIVLTSDRPPKELPGLEERLRSRFEWGLVVDIEPPDLETRLAILQKKAEEEG-L  286 (405)
T ss_pred             hhhhcCCHHHHHHHHHHHHHHHHCCCCEEEecCCCHHHHhhhhhhhhhhccCCeEEEeCCCCHHHHHHHHHHHHHHcC-C
Confidence            22222222222 23222221 12355688877642 21        12222234678899999998888887763321 1


Q ss_pred             CCCccHHHHHHHHHHHcCCChHHH
Q 038448          295 STHPSLKEIGEKIVKKCNGLPLVA  318 (385)
Q Consensus       295 ~~~~~l~~~~~~i~~~c~glPLAi  318 (385)
                      ..+   .++..-|++.+.|.+-.+
T Consensus       287 ~l~---~e~l~~ia~~~~~~~r~l  307 (405)
T TIGR00362       287 ELP---DEVLEFIAKNIRSNVREL  307 (405)
T ss_pred             CCC---HHHHHHHHHhcCCCHHHH
Confidence            111   456667777777765443

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).

>PRK05896 DNA polymerase III subunits gamma and tau; Validated

Probab=96.91  E-value=0.014  Score=58.76  Aligned_cols=158  Identities=15%  Similarity=0.148  Sum_probs=84.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhccccccc-------------------cccceEEEEecCCCCHHHHHHHHHHHhhcCCC
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSDVRVHN-------------------HFDLKAWTCVSEDFDIIRVTKSILKSIASDQL  220 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~-------------------~F~~~~wv~vs~~~~~~~~~~~il~~l~~~~~  220 (385)
                      .+.+.++|+.|+||||+|+.+.....-..                   .....+++..+....+.. ++.+...+.....
T Consensus        38 ~hA~Lf~GP~GvGKTTlA~~lAk~L~C~~~~~~~~Cg~C~sCr~i~~~~h~DiieIdaas~igVd~-IReIi~~~~~~P~  116 (605)
T PRK05896         38 THAYIFSGPRGIGKTSIAKIFAKAINCLNPKDGDCCNSCSVCESINTNQSVDIVELDAASNNGVDE-IRNIIDNINYLPT  116 (605)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCcccHHHHHHHcCCCCceEEeccccccCHHH-HHHHHHHHHhchh
Confidence            36788999999999999988765311000                   001234444333333333 3445444432221


Q ss_pred             C------CccchHHhhchhhHhhHhhhccCCCCCcEEEEEc-CChhHHhhc-CCCCcccCCCCChhhHHhhhhccccCCC
Q 038448          221 V------DDHDLNLLQKYNDWTNRSRLFEAGAPGSKIVFTT-RNLGVAEKM-GPLPAYPLKELSNDDCLSVFSPHSLGEK  292 (385)
Q Consensus       221 ~------~~~~~~~l~~~~~w~~l~~~l~~~~~gs~IivTT-R~~~va~~~-~~~~~~~l~~L~~~~a~~Lf~~~a~~~~  292 (385)
                      .      ..++.+.+ ....++.+...+......+.+|++| ....+...+ +....+++.+++.++....+...+-...
T Consensus       117 ~~~~KVIIIDEad~L-t~~A~NaLLKtLEEPp~~tvfIL~Tt~~~KLl~TI~SRcq~ieF~~Ls~~eL~~~L~~il~keg  195 (605)
T PRK05896        117 TFKYKVYIIDEAHML-STSAWNALLKTLEEPPKHVVFIFATTEFQKIPLTIISRCQRYNFKKLNNSELQELLKSIAKKEK  195 (605)
T ss_pred             hCCcEEEEEechHhC-CHHHHHHHHHHHHhCCCcEEEEEECCChHhhhHHHHhhhhhcccCCCCHHHHHHHHHHHHHHcC
Confidence            0      01111111 3445667777665544455555544 433443322 2235789999999998877776542211


Q ss_pred             CCCCCccHHHHHHHHHHHcCCCh-HHHHHHHH
Q 038448          293 DFSTHPSLKEIGEKIVKKCNGLP-LVAKSLGG  323 (385)
Q Consensus       293 ~~~~~~~l~~~~~~i~~~c~glP-LAi~~~~~  323 (385)
                       ...+   .+.+..+++.++|.| .|+..+-.
T Consensus       196 -i~Is---~eal~~La~lS~GdlR~AlnlLek  223 (605)
T PRK05896        196 -IKIE---DNAIDKIADLADGSLRDGLSILDQ  223 (605)
T ss_pred             -CCCC---HHHHHHHHHHcCCcHHHHHHHHHH
Confidence             1111   345678899999965 45544444

>PRK05707 DNA polymerase III subunit delta'; Validated

Probab=96.90  E-value=0.018  Score=54.10  Aligned_cols=154  Identities=11%  Similarity=0.070  Sum_probs=86.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcccccc-------------------ccccceEEEEec---CCCCHHHHHHHHHHHhh
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSDVRVH-------------------NHFDLKAWTCVS---EDFDIIRVTKSILKSIA  216 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~-------------------~~F~~~~wv~vs---~~~~~~~~~~~il~~l~  216 (385)
                      -...+.++|+.|+||||+|..+...---.                   ...+-..|+.-.   +...+ +-.+++.+.+.
T Consensus        21 ~~ha~Lf~G~~G~GK~~~A~~~A~~llC~~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~~~~~~~~i~i-d~iR~l~~~~~   99 (328)
T PRK05707         21 HPHAYLLHGPAGIGKRALAERLAAALLCEAPQGGGACGSCKGCQLLRAGSHPDNFVLEPEEADKTIKV-DQVRELVSFVV   99 (328)
T ss_pred             cceeeeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHhcCCCCCEEEEeccCCCCCCCH-HHHHHHHHHHh
Confidence            34678899999999999997765432100                   011223444321   12233 33344555554


Q ss_pred             cCCCCC---ccchHHhh--chhhHhhHhhhccCCCCCcEEEEEcCCh-hHHhhcC-CCCcccCCCCChhhHHhhhhcccc
Q 038448          217 SDQLVD---DHDLNLLQ--KYNDWTNRSRLFEAGAPGSKIVFTTRNL-GVAEKMG-PLPAYPLKELSNDDCLSVFSPHSL  289 (385)
Q Consensus       217 ~~~~~~---~~~~~~l~--~~~~w~~l~~~l~~~~~gs~IivTTR~~-~va~~~~-~~~~~~l~~L~~~~a~~Lf~~~a~  289 (385)
                      ......   .--++...  +.+..+.+...+-.-..++.+|+||.+. .+...+. ....+.+.+++.+++...+.... 
T Consensus       100 ~~~~~~~~kv~iI~~a~~m~~~aaNaLLK~LEEPp~~~~fiL~t~~~~~ll~TI~SRc~~~~~~~~~~~~~~~~L~~~~-  178 (328)
T PRK05707        100 QTAQLGGRKVVLIEPAEAMNRNAANALLKSLEEPSGDTVLLLISHQPSRLLPTIKSRCQQQACPLPSNEESLQWLQQAL-  178 (328)
T ss_pred             hccccCCCeEEEECChhhCCHHHHHHHHHHHhCCCCCeEEEEEECChhhCcHHHHhhceeeeCCCcCHHHHHHHHHHhc-
Confidence            433211   01112111  4556666776665545577777777765 3333322 23568999999999988886542 


Q ss_pred             CCCCCCCCccHHHHHHHHHHHcCCChHHHHHH
Q 038448          290 GEKDFSTHPSLKEIGEKIVKKCNGLPLVAKSL  321 (385)
Q Consensus       290 ~~~~~~~~~~l~~~~~~i~~~c~glPLAi~~~  321 (385)
                      ...       ..+.+..++..++|.|+....+
T Consensus       179 ~~~-------~~~~~~~~l~la~Gsp~~A~~l  203 (328)
T PRK05707        179 PES-------DERERIELLTLAGGSPLRALQL  203 (328)
T ss_pred             ccC-------ChHHHHHHHHHcCCCHHHHHHH
Confidence            111       1233567789999999755443

>PRK09111 DNA polymerase III subunits gamma and tau; Validated

Probab=96.83  E-value=0.022  Score=57.76  Aligned_cols=173  Identities=14%  Similarity=0.093  Sum_probs=93.4

Q ss_pred             hhhHHHHHHHHhcCCCCCCCCceEEEEEcCCCCcHHHHHHHHhcccccccc------------------------ccceE
Q 038448          139 DKEKEETVKLLLRDDLRTDDGLSVIPIIGTGRIGKTTLAQLAYSDVRVHNH------------------------FDLKA  194 (385)
Q Consensus       139 ~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~------------------------F~~~~  194 (385)
                      +.-++.|.+++..+.     -..-+.++|+.|+||||+|+.+.+.......                        ..-++
T Consensus        30 ~~~v~~L~~~~~~gr-----i~ha~L~~Gp~GvGKTt~Ar~lAk~L~c~~~~~~~~~~~~~cg~c~~C~~i~~g~h~Dv~  104 (598)
T PRK09111         30 EAMVRTLTNAFETGR-----IAQAFMLTGVRGVGKTTTARILARALNYEGPDGDGGPTIDLCGVGEHCQAIMEGRHVDVL  104 (598)
T ss_pred             HHHHHHHHHHHHcCC-----CCceEEEECCCCCCHHHHHHHHHHhhCcCCccccCCCccccCcccHHHHHHhcCCCCceE
Confidence            444555666664332     2457889999999999999888653211100                        01123


Q ss_pred             EEEecCCCCHHHHHHHHHHHhhcCCCC------CccchHHhhchhhHhhHhhhccCCCCCcEEEEEc-CChhHHhhcC-C
Q 038448          195 WTCVSEDFDIIRVTKSILKSIASDQLV------DDHDLNLLQKYNDWTNRSRLFEAGAPGSKIVFTT-RNLGVAEKMG-P  266 (385)
Q Consensus       195 wv~vs~~~~~~~~~~~il~~l~~~~~~------~~~~~~~l~~~~~w~~l~~~l~~~~~gs~IivTT-R~~~va~~~~-~  266 (385)
                      ++.......+.+ +++|+..+......      ..+..+.+ +....+.+...+..-...+.+|++| ....+...+. .
T Consensus       105 e~~a~s~~gvd~-IReIie~~~~~P~~a~~KVvIIDEad~L-s~~a~naLLKtLEePp~~~~fIl~tte~~kll~tI~SR  182 (598)
T PRK09111        105 EMDAASHTGVDD-IREIIESVRYRPVSARYKVYIIDEVHML-STAAFNALLKTLEEPPPHVKFIFATTEIRKVPVTVLSR  182 (598)
T ss_pred             EecccccCCHHH-HHHHHHHHHhchhcCCcEEEEEEChHhC-CHHHHHHHHHHHHhCCCCeEEEEEeCChhhhhHHHHhh
Confidence            443333333333 44565554322210      01111111 3344566666665545566766544 4444443332 2


Q ss_pred             CCcccCCCCChhhHHhhhhccccCCCCCCCCccHHHHHHHHHHHcCCChHHHHHHH
Q 038448          267 LPAYPLKELSNDDCLSVFSPHSLGEKDFSTHPSLKEIGEKIVKKCNGLPLVAKSLG  322 (385)
Q Consensus       267 ~~~~~l~~L~~~~a~~Lf~~~a~~~~~~~~~~~l~~~~~~i~~~c~glPLAi~~~~  322 (385)
                      ...+.+.+++.++....+.+.+-.. ....   -.+....|++.++|.+.-+....
T Consensus       183 cq~~~f~~l~~~el~~~L~~i~~ke-gi~i---~~eAl~lIa~~a~Gdlr~al~~L  234 (598)
T PRK09111        183 CQRFDLRRIEADVLAAHLSRIAAKE-GVEV---EDEALALIARAAEGSVRDGLSLL  234 (598)
T ss_pred             eeEEEecCCCHHHHHHHHHHHHHHc-CCCC---CHHHHHHHHHHcCCCHHHHHHHH
Confidence            2568899999999888777654221 1111   13566788999999886555443

>PRK07471 DNA polymerase III subunit delta'; Validated

Probab=96.83  E-value=0.028  Score=53.59  Aligned_cols=83  Identities=12%  Similarity=0.139  Sum_probs=52.3

Q ss_pred             chhhHhhHhhhccCCCCCcEEEEEcCChh-HHhhcC-CCCcccCCCCChhhHHhhhhccccCCCCCCCCccHHHHHHHHH
Q 038448          231 KYNDWTNRSRLFEAGAPGSKIVFTTRNLG-VAEKMG-PLPAYPLKELSNDDCLSVFSPHSLGEKDFSTHPSLKEIGEKIV  308 (385)
Q Consensus       231 ~~~~w~~l~~~l~~~~~gs~IivTTR~~~-va~~~~-~~~~~~l~~L~~~~a~~Lf~~~a~~~~~~~~~~~l~~~~~~i~  308 (385)
                      +....+.+...+..-..++.+|++|.+.. +...+. ....+.+.+++.++..+++......     . +  ......++
T Consensus       154 ~~~aanaLLK~LEepp~~~~~IL~t~~~~~llpti~SRc~~i~l~~l~~~~i~~~L~~~~~~-----~-~--~~~~~~l~  225 (365)
T PRK07471        154 NANAANALLKVLEEPPARSLFLLVSHAPARLLPTIRSRCRKLRLRPLAPEDVIDALAAAGPD-----L-P--DDPRAALA  225 (365)
T ss_pred             CHHHHHHHHHHHhcCCCCeEEEEEECCchhchHHhhccceEEECCCCCHHHHHHHHHHhccc-----C-C--HHHHHHHH
Confidence            44555666666655445666777776653 332222 2357899999999999988765311     0 1  12226789


Q ss_pred             HHcCCChHHHHHH
Q 038448          309 KKCNGLPLVAKSL  321 (385)
Q Consensus       309 ~~c~glPLAi~~~  321 (385)
                      ..++|.|+....+
T Consensus       226 ~~s~Gsp~~Al~l  238 (365)
T PRK07471        226 ALAEGSVGRALRL  238 (365)
T ss_pred             HHcCCCHHHHHHH
Confidence            9999999865444

>PRK14969 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.83  E-value=0.02  Score=57.39  Aligned_cols=170  Identities=11%  Similarity=0.067  Sum_probs=87.5

Q ss_pred             HHHHHHHHhcCCCCCCCCceEEEEEcCCCCcHHHHHHHHhcccccc-------------------ccccceEEEEecCCC
Q 038448          142 KEETVKLLLRDDLRTDDGLSVIPIIGTGRIGKTTLAQLAYSDVRVH-------------------NHFDLKAWTCVSEDF  202 (385)
Q Consensus       142 ~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~-------------------~~F~~~~wv~vs~~~  202 (385)
                      ++.+.+++..+.     -...+.++|++|+||||+|+.+.....-.                   ..|.-.+++..+...
T Consensus        25 ~~~L~~~i~~~~-----~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pcg~C~~C~~i~~~~~~d~~ei~~~~~~   99 (527)
T PRK14969         25 VRALTNALEQQR-----LHHAYLFTGTRGVGKTTLARILAKSLNCETGVTATPCGVCSACLEIDSGRFVDLIEVDAASNT   99 (527)
T ss_pred             HHHHHHHHHcCC-----CCEEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHHHHhcCCCCceeEeeccccC
Confidence            344555554322     23567899999999999998886432110                   112233445433333


Q ss_pred             CHHHHHHHHHHHhhcCCCC---CccchHHhh--chhhHhhHhhhccCCCCCcEEEEEcCC-hhHHhhcC-CCCcccCCCC
Q 038448          203 DIIRVTKSILKSIASDQLV---DDHDLNLLQ--KYNDWTNRSRLFEAGAPGSKIVFTTRN-LGVAEKMG-PLPAYPLKEL  275 (385)
Q Consensus       203 ~~~~~~~~il~~l~~~~~~---~~~~~~~l~--~~~~w~~l~~~l~~~~~gs~IivTTR~-~~va~~~~-~~~~~~l~~L  275 (385)
                      .+ +.+++++..+......   ..--+++..  .....+.+...+......+.+|++|.+ ..+...+. ....+++.++
T Consensus       100 ~v-d~ir~l~~~~~~~p~~~~~kVvIIDEad~ls~~a~naLLK~LEepp~~~~fIL~t~d~~kil~tI~SRc~~~~f~~l  178 (527)
T PRK14969        100 QV-DAMRELLDNAQYAPTRGRFKVYIIDEVHMLSKSAFNAMLKTLEEPPEHVKFILATTDPQKIPVTVLSRCLQFNLKQM  178 (527)
T ss_pred             CH-HHHHHHHHHHhhCcccCCceEEEEcCcccCCHHHHHHHHHHHhCCCCCEEEEEEeCChhhCchhHHHHHHHHhcCCC
Confidence            33 3345555544322210   011112111  233455666666554456666655543 33322111 1256889999


Q ss_pred             ChhhHHhhhhccccCCCCCCCCccHHHHHHHHHHHcCCChH-HHHHH
Q 038448          276 SNDDCLSVFSPHSLGEKDFSTHPSLKEIGEKIVKKCNGLPL-VAKSL  321 (385)
Q Consensus       276 ~~~~a~~Lf~~~a~~~~~~~~~~~l~~~~~~i~~~c~glPL-Ai~~~  321 (385)
                      +.++....+.+.+-. ....   .-......|++.++|.+- |+..+
T Consensus       179 ~~~~i~~~L~~il~~-egi~---~~~~al~~la~~s~Gslr~al~ll  221 (527)
T PRK14969        179 PPPLIVSHLQHILEQ-ENIP---FDATALQLLARAAAGSMRDALSLL  221 (527)
T ss_pred             CHHHHHHHHHHHHHH-cCCC---CCHHHHHHHHHHcCCCHHHHHHHH
Confidence            999887766654321 1111   113456778889999774 44443

>PRK09112 DNA polymerase III subunit delta'; Validated

Probab=96.80  E-value=0.034  Score=52.74  Aligned_cols=85  Identities=16%  Similarity=0.144  Sum_probs=50.0

Q ss_pred             chhhHhhHhhhccCCCCCcEEEEEc-CChhHHhhcC-CCCcccCCCCChhhHHhhhhccccCCCCCCCCccHHHHHHHHH
Q 038448          231 KYNDWTNRSRLFEAGAPGSKIVFTT-RNLGVAEKMG-PLPAYPLKELSNDDCLSVFSPHSLGEKDFSTHPSLKEIGEKIV  308 (385)
Q Consensus       231 ~~~~w~~l~~~l~~~~~gs~IivTT-R~~~va~~~~-~~~~~~l~~L~~~~a~~Lf~~~a~~~~~~~~~~~l~~~~~~i~  308 (385)
                      +....+.+...+........+|++| +...+...+. ....+++.+++.++...++..... ..+     -..+....|+
T Consensus       154 ~~~aanaLLk~LEEpp~~~~fiLit~~~~~llptIrSRc~~i~l~pl~~~~~~~~L~~~~~-~~~-----~~~~~~~~i~  227 (351)
T PRK09112        154 NRNAANAILKTLEEPPARALFILISHSSGRLLPTIRSRCQPISLKPLDDDELKKALSHLGS-SQG-----SDGEITEALL  227 (351)
T ss_pred             CHHHHHHHHHHHhcCCCCceEEEEECChhhccHHHHhhccEEEecCCCHHHHHHHHHHhhc-ccC-----CCHHHHHHHH
Confidence            3344455655554433445544444 4333332222 225789999999999998876321 111     1134467899


Q ss_pred             HHcCCChHHHHHH
Q 038448          309 KKCNGLPLVAKSL  321 (385)
Q Consensus       309 ~~c~glPLAi~~~  321 (385)
                      +.++|.|.....+
T Consensus       228 ~~s~G~pr~Al~l  240 (351)
T PRK09112        228 QRSKGSVRKALLL  240 (351)
T ss_pred             HHcCCCHHHHHHH
Confidence            9999999866544

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=96.78  E-value=0.012  Score=62.26  Aligned_cols=143  Identities=11%  Similarity=0.091  Sum_probs=75.6

Q ss_pred             hhhhhHHHHHHHHhcCCCCCCCCceEEEEEcCCCCcHHHHHHHHhcccc---cccc-ccceEE-EEecC-------CCCH
Q 038448          137 EKDKEKEETVKLLLRDDLRTDDGLSVIPIIGTGRIGKTTLAQLAYSDVR---VHNH-FDLKAW-TCVSE-------DFDI  204 (385)
Q Consensus       137 ~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~---~~~~-F~~~~w-v~vs~-------~~~~  204 (385)
                      +++.+...++..|.....      .-+.++|.+|+||||+|..+.....   +... ....+| +.++.       .-..
T Consensus       191 Gr~~ei~~~i~~l~r~~~------~n~lLvG~pGvGKTal~~~La~~i~~~~v~~~l~~~~i~~l~l~~l~ag~~~~ge~  264 (852)
T TIGR03345       191 GRDDEIRQMIDILLRRRQ------NNPILTGEAGVGKTAVVEGLALRIAAGDVPPALRNVRLLSLDLGLLQAGASVKGEF  264 (852)
T ss_pred             CCHHHHHHHHHHHhcCCc------CceeEECCCCCCHHHHHHHHHHHHhhCCCCccccCCeEEEeehhhhhcccccchHH
Confidence            347778888888865432      3456999999999999998886421   1111 223444 32221       1234


Q ss_pred             HHHHHHHHHHhhcCCCCC---ccchHHhh------chhhH-hhHhhhccCCCCCcEEEEEcCChhHHhhcC-------CC
Q 038448          205 IRVTKSILKSIASDQLVD---DHDLNLLQ------KYNDW-TNRSRLFEAGAPGSKIVFTTRNLGVAEKMG-------PL  267 (385)
Q Consensus       205 ~~~~~~il~~l~~~~~~~---~~~~~~l~------~~~~w-~~l~~~l~~~~~gs~IivTTR~~~va~~~~-------~~  267 (385)
                      ..-++.++..+.......   .+.+..+-      ...+- +-+++.+..  ..-++|-||...+....+.       ..
T Consensus       265 e~~lk~ii~e~~~~~~~~ILfIDEih~l~~~g~~~~~~d~~n~Lkp~l~~--G~l~~IgaTT~~e~~~~~~~d~AL~rRf  342 (852)
T TIGR03345       265 ENRLKSVIDEVKASPQPIILFIDEAHTLIGAGGQAGQGDAANLLKPALAR--GELRTIAATTWAEYKKYFEKDPALTRRF  342 (852)
T ss_pred             HHHHHHHHHHHHhcCCCeEEEEeChHHhccCCCccccccHHHHhhHHhhC--CCeEEEEecCHHHHhhhhhccHHHHHhC
Confidence            456667777664322111   12222221      01111 123333321  2245666665433322111       22


Q ss_pred             CcccCCCCChhhHHhhhhcc
Q 038448          268 PAYPLKELSNDDCLSVFSPH  287 (385)
Q Consensus       268 ~~~~l~~L~~~~a~~Lf~~~  287 (385)
                      ..+.+.+++.++...++...
T Consensus       343 ~~i~v~eps~~~~~~iL~~~  362 (852)
T TIGR03345       343 QVVKVEEPDEETAIRMLRGL  362 (852)
T ss_pred             eEEEeCCCCHHHHHHHHHHH
Confidence            57899999999999987543

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.

>PRK06696 uridine kinase; Validated

Probab=96.77  E-value=0.0021  Score=56.95  Aligned_cols=38  Identities=24%  Similarity=0.170  Sum_probs=28.2

Q ss_pred             HHHHHHHhcCCCCCCCCceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          143 EETVKLLLRDDLRTDDGLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       143 ~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ++|.+.+....   .+...+|+|.|.+|+||||||+.+...
T Consensus         8 ~~la~~~~~~~---~~~~~iI~I~G~sgsGKSTlA~~L~~~   45 (223)
T PRK06696          8 KELAEHILTLN---LTRPLRVAIDGITASGKTTFADELAEE   45 (223)
T ss_pred             HHHHHHHHHhC---CCCceEEEEECCCCCCHHHHHHHHHHH
Confidence            34444444322   246789999999999999999999874

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

Probab=96.68  E-value=0.0096  Score=57.94  Aligned_cols=125  Identities=12%  Similarity=0.169  Sum_probs=63.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecC---CC--CHHHHHHHHHHHhhcCCCC--CccchHHhh-
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSE---DF--DIIRVTKSILKSIASDQLV--DDHDLNLLQ-  230 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~---~~--~~~~~~~~il~~l~~~~~~--~~~~~~~l~-  230 (385)
                      ..+-+.++|++|.|||+||+.+++.  ....|   +.+..+.   .+  .....++.++.........  ..++++.+- 
T Consensus       216 ~p~gVLL~GPPGTGKT~LAraIA~e--l~~~f---i~V~~seL~~k~~Ge~~~~vr~lF~~A~~~~P~ILfIDEID~l~~  290 (438)
T PTZ00361        216 PPKGVILYGPPGTGKTLLAKAVANE--TSATF---LRVVGSELIQKYLGDGPKLVRELFRVAEENAPSIVFIDEIDAIGT  290 (438)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHh--hCCCE---EEEecchhhhhhcchHHHHHHHHHHHHHhCCCcEEeHHHHHHHhc
Confidence            3456889999999999999999985  33344   1122111   11  1223344444433222210  112222221 


Q ss_pred             --------chhh----HhhHhhhccC--CCCCcEEEEEcCChhHHhhc--CC---CCcccCCCCChhhHHhhhhccc
Q 038448          231 --------KYND----WTNRSRLFEA--GAPGSKIVFTTRNLGVAEKM--GP---LPAYPLKELSNDDCLSVFSPHS  288 (385)
Q Consensus       231 --------~~~~----w~~l~~~l~~--~~~gs~IivTTR~~~va~~~--~~---~~~~~l~~L~~~~a~~Lf~~~a  288 (385)
                              ....    ...+...+..  ...+..||.||...+.....  .+   ...+.+...+.++..++|..+.
T Consensus       291 kR~~~~sgg~~e~qr~ll~LL~~Ldg~~~~~~V~VI~ATNr~d~LDpaLlRpGRfd~~I~~~~Pd~~~R~~Il~~~~  367 (438)
T PTZ00361        291 KRYDATSGGEKEIQRTMLELLNQLDGFDSRGDVKVIMATNRIESLDPALIRPGRIDRKIEFPNPDEKTKRRIFEIHT  367 (438)
T ss_pred             cCCCCCCcccHHHHHHHHHHHHHHhhhcccCCeEEEEecCChHHhhHHhccCCeeEEEEEeCCCCHHHHHHHHHHHH
Confidence                    0001    1112222211  13356788888765544321  11   2457888888888888888654

>smart00763 AAA_PrkA PrkA AAA domain

Probab=96.66  E-value=0.0022  Score=60.25  Aligned_cols=46  Identities=13%  Similarity=0.200  Sum_probs=30.9

Q ss_pred             hhhHHHHHHHHhcCCCCCCCCceEEEEEcCCCCcHHHHHHHHhccc
Q 038448          139 DKEKEETVKLLLRDDLRTDDGLSVIPIIGTGRIGKTTLAQLAYSDV  184 (385)
Q Consensus       139 ~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  184 (385)
                      ++.++++++++...........+++.++|++|+||||||..+.+..
T Consensus        57 ~~~i~~lv~~l~~~a~g~~~~r~il~L~GPPGsGKStla~~La~~l  102 (361)
T smart00763       57 EEAIERFVNYFKSAAQGLEERKQILYLLGPVGGGKSSLVECLKRGL  102 (361)
T ss_pred             HHHHHHHHHHHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            3344555555543221123356899999999999999999998753

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

>PRK14950 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.65  E-value=0.041  Score=56.04  Aligned_cols=159  Identities=12%  Similarity=0.066  Sum_probs=83.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhccccccc---cc-----------------cceEEEEecCCCCHHHHHHHHHHHhhcCC
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSDVRVHN---HF-----------------DLKAWTCVSEDFDIIRVTKSILKSIASDQ  219 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~---~F-----------------~~~~wv~vs~~~~~~~~~~~il~~l~~~~  219 (385)
                      ...+.++|..|+||||+|+.+........   .+                 ...+.+..+...... .+++|...+....
T Consensus        38 ~~a~Lf~Gp~G~GKTtlA~~lA~~l~c~~~~~~~~~c~~c~~c~~i~~~~~~d~~~i~~~~~~~vd-~ir~ii~~~~~~p  116 (585)
T PRK14950         38 AHAYLFTGPRGVGKTSTARILAKAVNCTTNDPKGRPCGTCEMCRAIAEGSAVDVIEMDAASHTSVD-DAREIIERVQFRP  116 (585)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCccCHHHHHHhcCCCCeEEEEeccccCCHH-HHHHHHHHHhhCc
Confidence            35678999999999999998875321100   00                 012223322222333 3455555443222


Q ss_pred             CC---CccchHHhh--chhhHhhHhhhccCCCCCcEEEEEcCC-hhHHhhcC-CCCcccCCCCChhhHHhhhhccccCCC
Q 038448          220 LV---DDHDLNLLQ--KYNDWTNRSRLFEAGAPGSKIVFTTRN-LGVAEKMG-PLPAYPLKELSNDDCLSVFSPHSLGEK  292 (385)
Q Consensus       220 ~~---~~~~~~~l~--~~~~w~~l~~~l~~~~~gs~IivTTR~-~~va~~~~-~~~~~~l~~L~~~~a~~Lf~~~a~~~~  292 (385)
                      ..   ..--+++.+  ..+..+.+...+......+.+|++|.+ ..+...+. ....+.+..++.++....+...+....
T Consensus       117 ~~~~~kVvIIDEa~~L~~~a~naLLk~LEepp~~tv~Il~t~~~~kll~tI~SR~~~i~f~~l~~~el~~~L~~~a~~eg  196 (585)
T PRK14950        117 ALARYKVYIIDEVHMLSTAAFNALLKTLEEPPPHAIFILATTEVHKVPATILSRCQRFDFHRHSVADMAAHLRKIAAAEG  196 (585)
T ss_pred             ccCCeEEEEEeChHhCCHHHHHHHHHHHhcCCCCeEEEEEeCChhhhhHHHHhccceeeCCCCCHHHHHHHHHHHHHHcC
Confidence            10   001112222  334455666666554456666665543 33333222 224678888988888777766542211


Q ss_pred             CCCCCccHHHHHHHHHHHcCCChHHHHHHHH
Q 038448          293 DFSTHPSLKEIGEKIVKKCNGLPLVAKSLGG  323 (385)
Q Consensus       293 ~~~~~~~l~~~~~~i~~~c~glPLAi~~~~~  323 (385)
                       ...   -.+.+..|++.++|.+..+...-.
T Consensus       197 -l~i---~~eal~~La~~s~Gdlr~al~~Le  223 (585)
T PRK14950        197 -INL---EPGALEAIARAATGSMRDAENLLQ  223 (585)
T ss_pred             -CCC---CHHHHHHHHHHcCCCHHHHHHHHH
Confidence             111   135677899999998865544433

>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=96.64  E-value=0.035  Score=54.04  Aligned_cols=24  Identities=25%  Similarity=0.332  Sum_probs=20.2

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      -+++.++|++|+||||++..+...
T Consensus       221 ~~~i~~vGptGvGKTTt~~kLA~~  244 (424)
T PRK05703        221 GGVVALVGPTGVGKTTTLAKLAAR  244 (424)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHH
Confidence            369999999999999988777553

>PRK08181 transposase; Validated

Probab=96.63  E-value=0.0014  Score=59.61  Aligned_cols=36  Identities=17%  Similarity=0.018  Sum_probs=26.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEe
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCV  198 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v  198 (385)
                      .-+.++|++|+|||.||..+.+.  .......+.|+++
T Consensus       107 ~nlll~Gp~GtGKTHLa~Aia~~--a~~~g~~v~f~~~  142 (269)
T PRK08181        107 ANLLLFGPPGGGKSHLAAAIGLA--LIENGWRVLFTRT  142 (269)
T ss_pred             ceEEEEecCCCcHHHHHHHHHHH--HHHcCCceeeeeH
Confidence            34899999999999999999874  3233334566654

>PRK03992 proteasome-activating nucleotidase; Provisional

Probab=96.61  E-value=0.0096  Score=57.43  Aligned_cols=146  Identities=13%  Similarity=0.140  Sum_probs=73.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecCC---C--CHHHHHHHHHHHhhcCCCC--CccchHHhh-
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSED---F--DIIRVTKSILKSIASDQLV--DDHDLNLLQ-  230 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~---~--~~~~~~~~il~~l~~~~~~--~~~~~~~l~-  230 (385)
                      .++-|.++|++|+|||++|+.+++.  ....|   +.+..+.-   +  ......+.++.......+.  -.++++.+. 
T Consensus       164 ~p~gvLL~GppGtGKT~lAkaia~~--~~~~~---i~v~~~~l~~~~~g~~~~~i~~~f~~a~~~~p~IlfiDEiD~l~~  238 (389)
T PRK03992        164 PPKGVLLYGPPGTGKTLLAKAVAHE--TNATF---IRVVGSELVQKFIGEGARLVRELFELAREKAPSIIFIDEIDAIAA  238 (389)
T ss_pred             CCCceEEECCCCCChHHHHHHHHHH--hCCCE---EEeehHHHhHhhccchHHHHHHHHHHHHhcCCeEEEEechhhhhc
Confidence            4567899999999999999999885  22222   11211110   0  1223444444443322211  223333332 


Q ss_pred             ---------chhhHhhHhhhc---cC--CCCCcEEEEEcCChhHHhh-c-C---CCCcccCCCCChhhHHhhhhccccCC
Q 038448          231 ---------KYNDWTNRSRLF---EA--GAPGSKIVFTTRNLGVAEK-M-G---PLPAYPLKELSNDDCLSVFSPHSLGE  291 (385)
Q Consensus       231 ---------~~~~w~~l~~~l---~~--~~~gs~IivTTR~~~va~~-~-~---~~~~~~l~~L~~~~a~~Lf~~~a~~~  291 (385)
                               ..+.+..+...+   ..  ...+..||.||........ + .   -...+.+.+.+.++-.++|..+....
T Consensus       239 ~r~~~~~~~~~~~~~~l~~lL~~ld~~~~~~~v~VI~aTn~~~~ld~allRpgRfd~~I~v~~P~~~~R~~Il~~~~~~~  318 (389)
T PRK03992        239 KRTDSGTSGDREVQRTLMQLLAEMDGFDPRGNVKIIAATNRIDILDPAILRPGRFDRIIEVPLPDEEGRLEILKIHTRKM  318 (389)
T ss_pred             ccccCCCCccHHHHHHHHHHHHhccccCCCCCEEEEEecCChhhCCHHHcCCccCceEEEECCCCHHHHHHHHHHHhccC
Confidence                     011122222222   11  1235567777765433221 1 1   12468889999999999988765322


Q ss_pred             CCCCCCccHHHHHHHHHHHcCCC
Q 038448          292 KDFSTHPSLKEIGEKIVKKCNGL  314 (385)
Q Consensus       292 ~~~~~~~~l~~~~~~i~~~c~gl  314 (385)
                      . ....-+    ...+++.+.|.
T Consensus       319 ~-~~~~~~----~~~la~~t~g~  336 (389)
T PRK03992        319 N-LADDVD----LEELAELTEGA  336 (389)
T ss_pred             C-CCCcCC----HHHHHHHcCCC
Confidence            1 111112    34566666664

>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=96.57  E-value=0.0017  Score=51.82  Aligned_cols=21  Identities=38%  Similarity=0.341  Sum_probs=19.2

Q ss_pred             EEEEcCCCCcHHHHHHHHhcc
Q 038448          163 IPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       163 i~I~G~gGiGKTtLA~~v~~~  183 (385)
                      |.|.|.+|+||||+|+.+...
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            689999999999999999875

...

>KOG0741 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=96.57  E-value=0.055  Score=52.78  Aligned_cols=145  Identities=20%  Similarity=0.198  Sum_probs=80.8

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecCC--CCH---HHHHHHHHHHhhcCCCC--CccchHHhh
Q 038448          158 DGLSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSED--FDI---IRVTKSILKSIASDQLV--DDHDLNLLQ  230 (385)
Q Consensus       158 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~--~~~---~~~~~~il~~l~~~~~~--~~~~~~~l~  230 (385)
                      ..+..+.+.|++|+|||+||..+...    ..|+.+=-++-...  ++.   -.-++.+.+...+....  ..++++.|-
T Consensus       536 s~lvSvLl~Gp~~sGKTaLAA~iA~~----S~FPFvKiiSpe~miG~sEsaKc~~i~k~F~DAYkS~lsiivvDdiErLi  611 (744)
T KOG0741|consen  536 SPLVSVLLEGPPGSGKTALAAKIALS----SDFPFVKIISPEDMIGLSESAKCAHIKKIFEDAYKSPLSIIVVDDIERLL  611 (744)
T ss_pred             CcceEEEEecCCCCChHHHHHHHHhh----cCCCeEEEeChHHccCccHHHHHHHHHHHHHHhhcCcceEEEEcchhhhh
Confidence            46777889999999999999999764    66875444432111  111   11233444444433321  123333332


Q ss_pred             ---------chhhHhhHhhhccCC-CCCcE--EEEEcCChhHHhhcCCC----CcccCCCCCh-hhHHhhhhccccCCCC
Q 038448          231 ---------KYNDWTNRSRLFEAG-APGSK--IVFTTRNLGVAEKMGPL----PAYPLKELSN-DDCLSVFSPHSLGEKD  293 (385)
Q Consensus       231 ---------~~~~w~~l~~~l~~~-~~gs~--IivTTR~~~va~~~~~~----~~~~l~~L~~-~~a~~Lf~~~a~~~~~  293 (385)
                               ..-....+...+... ..|-|  |+-||....+...|+-.    ..|++..++. ++..+.++..-     
T Consensus       612 D~vpIGPRfSN~vlQaL~VllK~~ppkg~kLli~~TTS~~~vL~~m~i~~~F~~~i~Vpnl~~~~~~~~vl~~~n-----  686 (744)
T KOG0741|consen  612 DYVPIGPRFSNLVLQALLVLLKKQPPKGRKLLIFGTTSRREVLQEMGILDCFSSTIHVPNLTTGEQLLEVLEELN-----  686 (744)
T ss_pred             cccccCchhhHHHHHHHHHHhccCCCCCceEEEEecccHHHHHHHcCHHHhhhheeecCccCchHHHHHHHHHcc-----
Confidence                     112223333344332 23444  45577778888887632    5688888887 66666665432     


Q ss_pred             CCCCccHHHHHHHHHHHc
Q 038448          294 FSTHPSLKEIGEKIVKKC  311 (385)
Q Consensus       294 ~~~~~~l~~~~~~i~~~c  311 (385)
                      ...+.+...++.+.+.+|
T Consensus       687 ~fsd~~~~~~~~~~~~~~  704 (744)
T KOG0741|consen  687 IFSDDEVRAIAEQLLSKK  704 (744)
T ss_pred             CCCcchhHHHHHHHhccc
Confidence            122344566777777777

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

Probab=96.56  E-value=0.0076  Score=60.62  Aligned_cols=50  Identities=22%  Similarity=0.333  Sum_probs=36.7

Q ss_pred             hhhHHHHHHHHhcCCCCCCCCceEEEEEcCCCCcHHHHHHHHhccccccccc
Q 038448          139 DKEKEETVKLLLRDDLRTDDGLSVIPIIGTGRIGKTTLAQLAYSDVRVHNHF  190 (385)
Q Consensus       139 ~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F  190 (385)
                      ++-++.|++.|.-......-.=.++++||+||+|||+|++.+..-  ....|
T Consensus       329 ekVKeRIlEyLAV~~l~~~~kGpILcLVGPPGVGKTSLgkSIA~a--l~Rkf  378 (782)
T COG0466         329 EKVKERILEYLAVQKLTKKLKGPILCLVGPPGVGKTSLGKSIAKA--LGRKF  378 (782)
T ss_pred             hhHHHHHHHHHHHHHHhccCCCcEEEEECCCCCCchhHHHHHHHH--hCCCE
Confidence            677888998885422212233479999999999999999999874  44445

>PHA02544 44 clamp loader, small subunit; Provisional

Probab=96.55  E-value=0.0088  Score=55.98  Aligned_cols=134  Identities=12%  Similarity=0.095  Sum_probs=65.2

Q ss_pred             hhhHHHHHHHHhcCCCCCCCCceEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecCCCCHHHHHHHH----HHH
Q 038448          139 DKEKEETVKLLLRDDLRTDDGLSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDFDIIRVTKSI----LKS  214 (385)
Q Consensus       139 ~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i----l~~  214 (385)
                      +..++.+..++..+     .-..++.++|++|+||||+|+.+++.  ....   ...++.+. ... ..+++.    ...
T Consensus        27 ~~~~~~l~~~~~~~-----~~~~~lll~G~~G~GKT~la~~l~~~--~~~~---~~~i~~~~-~~~-~~i~~~l~~~~~~   94 (316)
T PHA02544         27 AADKETFKSIVKKG-----RIPNMLLHSPSPGTGKTTVAKALCNE--VGAE---VLFVNGSD-CRI-DFVRNRLTRFAST   94 (316)
T ss_pred             HHHHHHHHHHHhcC-----CCCeEEEeeCcCCCCHHHHHHHHHHH--hCcc---ceEeccCc-ccH-HHHHHHHHHHHHh
Confidence            44455566666432     23467778999999999999999875  2211   23444443 222 222222    222


Q ss_pred             hhcCCCC---CccchHHhhchhhHhhHhhhccCCCCCcEEEEEcCChhH-Hhhc-CCCCcccCCCCChhhHHhhh
Q 038448          215 IASDQLV---DDHDLNLLQKYNDWTNRSRLFEAGAPGSKIVFTTRNLGV-AEKM-GPLPAYPLKELSNDDCLSVF  284 (385)
Q Consensus       215 l~~~~~~---~~~~~~~l~~~~~w~~l~~~l~~~~~gs~IivTTR~~~v-a~~~-~~~~~~~l~~L~~~~a~~Lf  284 (385)
                      .......   ..++.+.+...+....+...+.....++++|+||..... ...+ +....+.+...+.++...++
T Consensus        95 ~~~~~~~~vliiDe~d~l~~~~~~~~L~~~le~~~~~~~~Ilt~n~~~~l~~~l~sR~~~i~~~~p~~~~~~~il  169 (316)
T PHA02544         95 VSLTGGGKVIIIDEFDRLGLADAQRHLRSFMEAYSKNCSFIITANNKNGIIEPLRSRCRVIDFGVPTKEEQIEMM  169 (316)
T ss_pred             hcccCCCeEEEEECcccccCHHHHHHHHHHHHhcCCCceEEEEcCChhhchHHHHhhceEEEeCCCCHHHHHHHH
Confidence            1110000   112222221222233344444444567788888865321 1111 11134566666666655443

>cd01878 HflX HflX subfamily

Probab=96.55  E-value=0.0086  Score=52.13  Aligned_cols=57  Identities=18%  Similarity=0.321  Sum_probs=39.5

Q ss_pred             HHHHHHHHHHHHHHHHhhhhhhHHHHHHHHhcCCCCCCCCceEEEEEcCCCCcHHHHHHHHhccc
Q 038448          120 HMMAAKIEDRTIRLQEIEKDKEKEETVKLLLRDDLRTDDGLSVIPIIGTGRIGKTTLAQLAYSDV  184 (385)
Q Consensus       120 ~~~~~~i~~~~~~l~~i~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  184 (385)
                      +.+.+++..++..++.+.++.....   ++-     ..+....|+|+|.+|+|||||...+.+..
T Consensus         9 ~~~~~~~~~~~~~~~~~~~~~~~~~---~~~-----~~~~~~~I~iiG~~g~GKStLl~~l~~~~   65 (204)
T cd01878           9 RLIRERIAKLRRELEKVKKQRELQR---RRR-----KRSGIPTVALVGYTNAGKSTLFNALTGAD   65 (204)
T ss_pred             HHHHHHHHHHHHHHHHHHHhHHHHH---Hhh-----hhcCCCeEEEECCCCCCHHHHHHHHhcch
Confidence            4567777778777777655432222   221     12355789999999999999999988763

A distinct conserved domain with a glycine-rich segment N-terminal of the GTPase domain characterizes the HflX subfamily. The E. coli HflX has been implicated in the control of the lambda cII repressor proteolysis, but the actual biological functions of these GTPases remain unclear. HflX is widespread, but not universally represented in all three superkingdoms.

>PRK07667 uridine kinase; Provisional

Probab=96.54  E-value=0.0036  Score=54.13  Aligned_cols=37  Identities=22%  Similarity=0.346  Sum_probs=28.5

Q ss_pred             HHHHHHHhcCCCCCCCCceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          143 EETVKLLLRDDLRTDDGLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       143 ~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      +.|.+.+....    +...+|+|.|.+|+||||+|..+...
T Consensus         4 ~~~~~~~~~~~----~~~~iIgI~G~~gsGKStla~~L~~~   40 (193)
T PRK07667          4 NELINIMKKHK----ENRFILGIDGLSRSGKTTFVANLKEN   40 (193)
T ss_pred             HHHHHHHHhcC----CCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            45666664432    35589999999999999999998874

>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=96.53  E-value=0.0018  Score=53.14  Aligned_cols=24  Identities=33%  Similarity=0.267  Sum_probs=21.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ..-|.|.|++|+|||||++.+.+.
T Consensus         5 ~mki~ITG~PGvGKtTl~~ki~e~   28 (179)
T COG1618           5 AMKIFITGRPGVGKTTLVLKIAEK   28 (179)
T ss_pred             ceEEEEeCCCCccHHHHHHHHHHH
Confidence            356899999999999999999865

>PRK14954 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.52  E-value=0.033  Score=56.67  Aligned_cols=84  Identities=14%  Similarity=0.157  Sum_probs=48.6

Q ss_pred             hhHhhHhhhccCCCCCcEEEE-EcCChhHHhhc-CCCCcccCCCCChhhHHhhhhccccCCCCCCCCccHHHHHHHHHHH
Q 038448          233 NDWTNRSRLFEAGAPGSKIVF-TTRNLGVAEKM-GPLPAYPLKELSNDDCLSVFSPHSLGEKDFSTHPSLKEIGEKIVKK  310 (385)
Q Consensus       233 ~~w~~l~~~l~~~~~gs~Iiv-TTR~~~va~~~-~~~~~~~l~~L~~~~a~~Lf~~~a~~~~~~~~~~~l~~~~~~i~~~  310 (385)
                      ...+.+...+..-...+.+|+ |++...+...+ .....+++.+++.++....+.+.+-... ...   -.+.+..|+..
T Consensus       142 ~a~naLLK~LEePp~~tv~IL~t~~~~kLl~TI~SRc~~vef~~l~~~ei~~~L~~i~~~eg-i~I---~~eal~~La~~  217 (620)
T PRK14954        142 AAFNAFLKTLEEPPPHAIFIFATTELHKIPATIASRCQRFNFKRIPLDEIQSQLQMICRAEG-IQI---DADALQLIARK  217 (620)
T ss_pred             HHHHHHHHHHhCCCCCeEEEEEeCChhhhhHHHHhhceEEecCCCCHHHHHHHHHHHHHHcC-CCC---CHHHHHHHHHH
Confidence            445667777665444555554 44444444332 2336789999999887766665432111 111   14567788999


Q ss_pred             cCCChH-HHHH
Q 038448          311 CNGLPL-VAKS  320 (385)
Q Consensus       311 c~glPL-Ai~~  320 (385)
                      ++|.+- |+..
T Consensus       218 s~Gdlr~al~e  228 (620)
T PRK14954        218 AQGSMRDAQSI  228 (620)
T ss_pred             hCCCHHHHHHH
Confidence            999554 4443

>PRK14970 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.51  E-value=0.037  Score=53.03  Aligned_cols=167  Identities=10%  Similarity=0.131  Sum_probs=83.2

Q ss_pred             HHHHHHHHhcCCCCCCCCceEEEEEcCCCCcHHHHHHHHhccccc------cccccceE-EEEecCCCCHHHHHHHHHHH
Q 038448          142 KEETVKLLLRDDLRTDDGLSVIPIIGTGRIGKTTLAQLAYSDVRV------HNHFDLKA-WTCVSEDFDIIRVTKSILKS  214 (385)
Q Consensus       142 ~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~------~~~F~~~~-wv~vs~~~~~~~~~~~il~~  214 (385)
                      .+.+.+++...     .-.+.+.++|++|+||||+|..+.+...-      ...|...+ -+......+. +-..+++..
T Consensus        26 ~~~l~~~i~~~-----~~~~~~L~~G~~G~GKt~~a~~la~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~i~~l~~~   99 (367)
T PRK14970         26 TNTLLNAIENN-----HLAQALLFCGPRGVGKTTCARILARKINQPGYDDPNEDFSFNIFELDAASNNSV-DDIRNLIDQ   99 (367)
T ss_pred             HHHHHHHHHcC-----CCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCcceEEeccccCCCH-HHHHHHHHH
Confidence            44555555332     23468889999999999999988664211      01222111 1221111122 233344444


Q ss_pred             hhcCCCC---CccchHHhh--chhhHhhHhhhccCCCCCcEEEEEc-CChhHHhhc-CCCCcccCCCCChhhHHhhhhcc
Q 038448          215 IASDQLV---DDHDLNLLQ--KYNDWTNRSRLFEAGAPGSKIVFTT-RNLGVAEKM-GPLPAYPLKELSNDDCLSVFSPH  287 (385)
Q Consensus       215 l~~~~~~---~~~~~~~l~--~~~~w~~l~~~l~~~~~gs~IivTT-R~~~va~~~-~~~~~~~l~~L~~~~a~~Lf~~~  287 (385)
                      +......   ..--+++.+  ....++.+...+......+.+|++| ....+...+ +....+++.+++.++....+...
T Consensus       100 ~~~~p~~~~~kiviIDE~~~l~~~~~~~ll~~le~~~~~~~~Il~~~~~~kl~~~l~sr~~~v~~~~~~~~~l~~~l~~~  179 (367)
T PRK14970        100 VRIPPQTGKYKIYIIDEVHMLSSAAFNAFLKTLEEPPAHAIFILATTEKHKIIPTILSRCQIFDFKRITIKDIKEHLAGI  179 (367)
T ss_pred             HhhccccCCcEEEEEeChhhcCHHHHHHHHHHHhCCCCceEEEEEeCCcccCCHHHHhcceeEecCCccHHHHHHHHHHH
Confidence            3221110   011112111  2234556655554433445555555 333332221 22256889999999888777765


Q ss_pred             ccCCCCCCCCccHHHHHHHHHHHcCCChHHH
Q 038448          288 SLGEKDFSTHPSLKEIGEKIVKKCNGLPLVA  318 (385)
Q Consensus       288 a~~~~~~~~~~~l~~~~~~i~~~c~glPLAi  318 (385)
                      +...+ ...+   .+....|+..++|.+-.+
T Consensus       180 ~~~~g-~~i~---~~al~~l~~~~~gdlr~~  206 (367)
T PRK14970        180 AVKEG-IKFE---DDALHIIAQKADGALRDA  206 (367)
T ss_pred             HHHcC-CCCC---HHHHHHHHHhCCCCHHHH
Confidence            53211 1111   356777888888865433

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

Probab=96.48  E-value=0.0021  Score=55.68  Aligned_cols=22  Identities=41%  Similarity=0.403  Sum_probs=20.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcc
Q 038448          162 VIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ||+|.|.+|+||||+|+.+...
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            7999999999999999998764

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 ....

>PRK08233 hypothetical protein; Provisional

Probab=96.48  E-value=0.0024  Score=54.47  Aligned_cols=24  Identities=29%  Similarity=0.289  Sum_probs=21.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ..+|+|.|.+|+||||||..+...
T Consensus         3 ~~iI~I~G~~GsGKtTla~~L~~~   26 (182)
T PRK08233          3 TKIITIAAVSGGGKTTLTERLTHK   26 (182)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhh
Confidence            379999999999999999999864

>PRK14953 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.46  E-value=0.053  Score=53.79  Aligned_cols=158  Identities=11%  Similarity=0.064  Sum_probs=80.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhcccc-----c--------------cccccceEEEEecCCCCHHHHHHHHHHHhhcCCC
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSDVR-----V--------------HNHFDLKAWTCVSEDFDIIRVTKSILKSIASDQL  220 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~~~-----~--------------~~~F~~~~wv~vs~~~~~~~~~~~il~~l~~~~~  220 (385)
                      ...+.++|+.|+||||+|+.+.....     .              ...|....++..+...... ..+.|...+.....
T Consensus        38 ~hayLf~Gp~G~GKTtlAr~lAk~L~c~~~~~~~pc~~c~nc~~i~~g~~~d~~eidaas~~gvd-~ir~I~~~~~~~P~  116 (486)
T PRK14953         38 SHAYIFAGPRGTGKTTIARILAKVLNCLNPQEGEPCGKCENCVEIDKGSFPDLIEIDAASNRGID-DIRALRDAVSYTPI  116 (486)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhcCcCCCCCCCCCccHHHHHHhcCCCCcEEEEeCccCCCHH-HHHHHHHHHHhCcc
Confidence            35677899999999999988765311     0              0112223444433322222 22344443322211


Q ss_pred             C---CccchHHhh--chhhHhhHhhhccCCCCCcEEEEEc-CChhHHhhc-CCCCcccCCCCChhhHHhhhhccccCCCC
Q 038448          221 V---DDHDLNLLQ--KYNDWTNRSRLFEAGAPGSKIVFTT-RNLGVAEKM-GPLPAYPLKELSNDDCLSVFSPHSLGEKD  293 (385)
Q Consensus       221 ~---~~~~~~~l~--~~~~w~~l~~~l~~~~~gs~IivTT-R~~~va~~~-~~~~~~~l~~L~~~~a~~Lf~~~a~~~~~  293 (385)
                      .   ..--+++..  .....+.+...+....+...+|++| +...+...+ .....+.+.+++.++....+...+-... 
T Consensus       117 ~~~~KVvIIDEad~Lt~~a~naLLk~LEepp~~~v~Il~tt~~~kl~~tI~SRc~~i~f~~ls~~el~~~L~~i~k~eg-  195 (486)
T PRK14953        117 KGKYKVYIIDEAHMLTKEAFNALLKTLEEPPPRTIFILCTTEYDKIPPTILSRCQRFIFSKPTKEQIKEYLKRICNEEK-  195 (486)
T ss_pred             cCCeeEEEEEChhhcCHHHHHHHHHHHhcCCCCeEEEEEECCHHHHHHHHHHhceEEEcCCCCHHHHHHHHHHHHHHcC-
Confidence            0   011111111  2334555666665444455555544 433333222 2225688999999888777766542211 


Q ss_pred             CCCCccHHHHHHHHHHHcCCChHHHHHHH
Q 038448          294 FSTHPSLKEIGEKIVKKCNGLPLVAKSLG  322 (385)
Q Consensus       294 ~~~~~~l~~~~~~i~~~c~glPLAi~~~~  322 (385)
                      ..   --.+.+..|+..++|.+-.+....
T Consensus       196 i~---id~~al~~La~~s~G~lr~al~~L  221 (486)
T PRK14953        196 IE---YEEKALDLLAQASEGGMRDAASLL  221 (486)
T ss_pred             CC---CCHHHHHHHHHHcCCCHHHHHHHH
Confidence            11   113456778889999765554444

>PRK05480 uridine/cytidine kinase; Provisional

Probab=96.44  E-value=0.0027  Score=55.69  Aligned_cols=25  Identities=36%  Similarity=0.460  Sum_probs=22.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ...+|+|.|.+|+|||||+..++..
T Consensus         5 ~~~iI~I~G~sGsGKTTl~~~l~~~   29 (209)
T PRK05480          5 KPIIIGIAGGSGSGKTTVASTIYEE   29 (209)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHH
Confidence            5689999999999999999999874

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

Probab=96.43  E-value=0.0068  Score=54.97  Aligned_cols=161  Identities=12%  Similarity=0.070  Sum_probs=87.1

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHhccccccccccceEE-EEecCCCCHH----H--HHHHHHHHhhcCC----CC-Cccc
Q 038448          158 DGLSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAW-TCVSEDFDII----R--VTKSILKSIASDQ----LV-DDHD  225 (385)
Q Consensus       158 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~w-v~vs~~~~~~----~--~~~~il~~l~~~~----~~-~~~~  225 (385)
                      ........+|++|.|||+-|..+....--.+.|++++. .++|..-...    +  -+..+........    .. ....
T Consensus        55 ~~lp~~LFyGPpGTGKTStalafar~L~~~~~~~~rvl~lnaSderGisvvr~Kik~fakl~~~~~~~~~~~~~~fKiiI  134 (346)
T KOG0989|consen   55 RILPHYLFYGPPGTGKTSTALAFARALNCEQLFPCRVLELNASDERGISVVREKIKNFAKLTVLLKRSDGYPCPPFKIII  134 (346)
T ss_pred             cCCceEEeeCCCCCcHhHHHHHHHHHhcCccccccchhhhcccccccccchhhhhcCHHHHhhccccccCCCCCcceEEE
Confidence            35688999999999999988776653222355665543 3444432211    0  0111111110000    00 0111


Q ss_pred             hHHhh--chhhHhhHhhhccCCCCCcEEEE-EcCChhHHhhcCCC-CcccCCCCChhhHHhhhhccccCCCCCCCCccHH
Q 038448          226 LNLLQ--KYNDWTNRSRLFEAGAPGSKIVF-TTRNLGVAEKMGPL-PAYPLKELSNDDCLSVFSPHSLGEKDFSTHPSLK  301 (385)
Q Consensus       226 ~~~l~--~~~~w~~l~~~l~~~~~gs~Iiv-TTR~~~va~~~~~~-~~~~l~~L~~~~a~~Lf~~~a~~~~~~~~~~~l~  301 (385)
                      +++-.  ..+.|..+...+......++.|+ |+--..+...+.+. .-|..++|.+++...-+...+-..+ ...   -.
T Consensus       135 lDEcdsmtsdaq~aLrr~mE~~s~~trFiLIcnylsrii~pi~SRC~KfrFk~L~d~~iv~rL~~Ia~~E~-v~~---d~  210 (346)
T KOG0989|consen  135 LDECDSMTSDAQAALRRTMEDFSRTTRFILICNYLSRIIRPLVSRCQKFRFKKLKDEDIVDRLEKIASKEG-VDI---DD  210 (346)
T ss_pred             EechhhhhHHHHHHHHHHHhccccceEEEEEcCChhhCChHHHhhHHHhcCCCcchHHHHHHHHHHHHHhC-CCC---CH
Confidence            22222  56789999888877666777554 44333332222221 4588899999888877776653222 111   24


Q ss_pred             HHHHHHHHHcCCC-hHHHHHHH
Q 038448          302 EIGEKIVKKCNGL-PLVAKSLG  322 (385)
Q Consensus       302 ~~~~~i~~~c~gl-PLAi~~~~  322 (385)
                      +..+.|++.++|- --|+.++-
T Consensus       211 ~al~~I~~~S~GdLR~Ait~Lq  232 (346)
T KOG0989|consen  211 DALKLIAKISDGDLRRAITTLQ  232 (346)
T ss_pred             HHHHHHHHHcCCcHHHHHHHHH
Confidence            5667789999884 44544443

>PRK14952 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.42  E-value=0.062  Score=54.32  Aligned_cols=172  Identities=12%  Similarity=0.039  Sum_probs=88.6

Q ss_pred             hHHHHHHHHhcCCCCCCCCceEEEEEcCCCCcHHHHHHHHhcccccc----------------------ccccceEEEEe
Q 038448          141 EKEETVKLLLRDDLRTDDGLSVIPIIGTGRIGKTTLAQLAYSDVRVH----------------------NHFDLKAWTCV  198 (385)
Q Consensus       141 ~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~----------------------~~F~~~~wv~v  198 (385)
                      -++.|.+++..+     .-...+.++|+.|+||||+|+.+.....-.                      .++ -++.+..
T Consensus        21 i~~~L~~~i~~~-----r~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pCg~C~~C~~i~~~~~~~~-dvieida   94 (584)
T PRK14952         21 VTEPLSSALDAG-----RINHAYLFSGPRGCGKTSSARILARSLNCAQGPTATPCGVCESCVALAPNGPGSI-DVVELDA   94 (584)
T ss_pred             HHHHHHHHHHcC-----CCCeEEEEECCCCCCHHHHHHHHHHHhccccCCCCCcccccHHHHHhhcccCCCc-eEEEecc
Confidence            344556666432     223567899999999999998876532100                      011 1233333


Q ss_pred             cCCCCHHHHHHHHHHHhhcCCCC---CccchHHhh--chhhHhhHhhhccCCCCCcEEEE-EcCChhHHhhcC-CCCccc
Q 038448          199 SEDFDIIRVTKSILKSIASDQLV---DDHDLNLLQ--KYNDWTNRSRLFEAGAPGSKIVF-TTRNLGVAEKMG-PLPAYP  271 (385)
Q Consensus       199 s~~~~~~~~~~~il~~l~~~~~~---~~~~~~~l~--~~~~w~~l~~~l~~~~~gs~Iiv-TTR~~~va~~~~-~~~~~~  271 (385)
                      +....+ +-.++|...+......   ..-.+++..  .....+.+...+........+|+ ||....+...+. ....+.
T Consensus        95 as~~gv-d~iRel~~~~~~~P~~~~~KVvIIDEah~Lt~~A~NALLK~LEEpp~~~~fIL~tte~~kll~TI~SRc~~~~  173 (584)
T PRK14952         95 ASHGGV-DDTRELRDRAFYAPAQSRYRIFIVDEAHMVTTAGFNALLKIVEEPPEHLIFIFATTEPEKVLPTIRSRTHHYP  173 (584)
T ss_pred             ccccCH-HHHHHHHHHHHhhhhcCCceEEEEECCCcCCHHHHHHHHHHHhcCCCCeEEEEEeCChHhhHHHHHHhceEEE
Confidence            222223 2334444443221110   001111111  34456667777765555666554 544444443332 236789


Q ss_pred             CCCCChhhHHhhhhccccCCCCCCCCccHHHHHHHHHHHcCCChH-HHHHHHH
Q 038448          272 LKELSNDDCLSVFSPHSLGEKDFSTHPSLKEIGEKIVKKCNGLPL-VAKSLGG  323 (385)
Q Consensus       272 l~~L~~~~a~~Lf~~~a~~~~~~~~~~~l~~~~~~i~~~c~glPL-Ai~~~~~  323 (385)
                      +.+++.++....+...+-... ...   -......|++.++|.+- |+..+-.
T Consensus       174 F~~l~~~~i~~~L~~i~~~eg-i~i---~~~al~~Ia~~s~GdlR~aln~Ldq  222 (584)
T PRK14952        174 FRLLPPRTMRALIARICEQEG-VVV---DDAVYPLVIRAGGGSPRDTLSVLDQ  222 (584)
T ss_pred             eeCCCHHHHHHHHHHHHHHcC-CCC---CHHHHHHHHHHcCCCHHHHHHHHHH
Confidence            999999888777765432211 111   13455668888888763 4444433

>PRK05541 adenylylsulfate kinase; Provisional

Probab=96.39  E-value=0.0041  Score=52.85  Aligned_cols=36  Identities=28%  Similarity=0.303  Sum_probs=28.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhccccccccccceEEE
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWT  196 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv  196 (385)
                      ...+|.+.|++|+||||+|+.++..  ....+...+++
T Consensus         6 ~~~~I~i~G~~GsGKst~a~~l~~~--l~~~~~~~~~~   41 (176)
T PRK05541          6 NGYVIWITGLAGSGKTTIAKALYER--LKLKYSNVIYL   41 (176)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHH--HHHcCCcEEEE
Confidence            4569999999999999999999875  44455555555

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

Probab=96.38  E-value=0.0029  Score=51.58  Aligned_cols=22  Identities=32%  Similarity=0.351  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcc
Q 038448          162 VIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      +|.++|++|+||||+|+.+...
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            6889999999999999999753

...

>PTZ00301 uridine kinase; Provisional

Probab=96.38  E-value=0.0041  Score=54.47  Aligned_cols=24  Identities=33%  Similarity=0.427  Sum_probs=21.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ..+|+|.|.+|+||||||+.+...
T Consensus         3 ~~iIgIaG~SgSGKTTla~~l~~~   26 (210)
T PTZ00301          3 CTVIGISGASGSGKSSLSTNIVSE   26 (210)
T ss_pred             CEEEEEECCCcCCHHHHHHHHHHH
Confidence            479999999999999999988753

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

Probab=96.34  E-value=0.04  Score=51.17  Aligned_cols=156  Identities=12%  Similarity=0.167  Sum_probs=80.9

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecCC-----C--CHHHHHHHHHHHhhcCCCC--CccchHH
Q 038448          158 DGLSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSED-----F--DIIRVTKSILKSIASDQLV--DDHDLNL  228 (385)
Q Consensus       158 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~-----~--~~~~~~~~il~~l~~~~~~--~~~~~~~  228 (385)
                      ..++=|.++|++|.|||-||++|.+.  ....|     +.|..+     |  .-.++.++++.-.....+.  ..+.++.
T Consensus       183 ~PPKGVLLYGPPGTGKTLLAkAVA~~--T~AtF-----IrvvgSElVqKYiGEGaRlVRelF~lArekaPsIIFiDEIDA  255 (406)
T COG1222         183 DPPKGVLLYGPPGTGKTLLAKAVANQ--TDATF-----IRVVGSELVQKYIGEGARLVRELFELAREKAPSIIFIDEIDA  255 (406)
T ss_pred             CCCCceEeeCCCCCcHHHHHHHHHhc--cCceE-----EEeccHHHHHHHhccchHHHHHHHHHHhhcCCeEEEEechhh
Confidence            45677889999999999999999996  44334     433322     1  2235556665555444331  1122222


Q ss_pred             hh---------chhhH----hhHhhhccCC--CCCcEEEEEcCChhHHhh--cCC---CCcccCCCCChhhHHhhhhccc
Q 038448          229 LQ---------KYNDW----TNRSRLFEAG--APGSKIVFTTRNLGVAEK--MGP---LPAYPLKELSNDDCLSVFSPHS  288 (385)
Q Consensus       229 l~---------~~~~w----~~l~~~l~~~--~~gs~IivTTR~~~va~~--~~~---~~~~~l~~L~~~~a~~Lf~~~a  288 (385)
                      +-         .+.+.    -++...+..+  ...-|||..|...++...  +.+   +..+++..-+.+.-.++|.-++
T Consensus       256 Ig~kR~d~~t~gDrEVQRTmleLL~qlDGFD~~~nvKVI~ATNR~D~LDPALLRPGR~DRkIEfplPd~~gR~~Il~IHt  335 (406)
T COG1222         256 IGAKRFDSGTSGDREVQRTMLELLNQLDGFDPRGNVKVIMATNRPDILDPALLRPGRFDRKIEFPLPDEEGRAEILKIHT  335 (406)
T ss_pred             hhcccccCCCCchHHHHHHHHHHHHhccCCCCCCCeEEEEecCCccccChhhcCCCcccceeecCCCCHHHHHHHHHHHh
Confidence            22         11111    1222223222  335689988876665432  122   2456666445555567776654


Q ss_pred             cCCCCCCCCccHHHHHHHHHHHcCCCh----HHHHHHHHHh
Q 038448          289 LGEKDFSTHPSLKEIGEKIVKKCNGLP----LVAKSLGGLL  325 (385)
Q Consensus       289 ~~~~~~~~~~~l~~~~~~i~~~c~glP----LAi~~~~~~L  325 (385)
                      -. -+....-++    +.+++.|.|+-    .|+.+=|+++
T Consensus       336 rk-M~l~~dvd~----e~la~~~~g~sGAdlkaictEAGm~  371 (406)
T COG1222         336 RK-MNLADDVDL----ELLARLTEGFSGADLKAICTEAGMF  371 (406)
T ss_pred             hh-ccCccCcCH----HHHHHhcCCCchHHHHHHHHHHhHH
Confidence            22 122222233    44666777764    3444445544

>PRK14971 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.33  E-value=0.079  Score=54.11  Aligned_cols=166  Identities=10%  Similarity=0.083  Sum_probs=88.8

Q ss_pred             HHHHHHHHhcCCCCCCCCceEEEEEcCCCCcHHHHHHHHhcccc---------------------ccccccceEEEEecC
Q 038448          142 KEETVKLLLRDDLRTDDGLSVIPIIGTGRIGKTTLAQLAYSDVR---------------------VHNHFDLKAWTCVSE  200 (385)
Q Consensus       142 ~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~---------------------~~~~F~~~~wv~vs~  200 (385)
                      ++.+.+++..+     .-...+.++|+.|+||||+|+.+.....                     ...+|+ ...+..+.
T Consensus        26 ~~~L~~~i~~~-----~l~hayLf~Gp~G~GKtt~A~~lAk~l~c~~~~~~~~~Cg~C~sC~~~~~~~~~n-~~~ld~~~   99 (614)
T PRK14971         26 TTTLKNAIATN-----KLAHAYLFCGPRGVGKTTCARIFAKTINCQNLTADGEACNECESCVAFNEQRSYN-IHELDAAS   99 (614)
T ss_pred             HHHHHHHHHcC-----CCCeeEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCCCcchHHHHHhcCCCCc-eEEecccc
Confidence            44555555332     2346688999999999999977654311                     112343 22333333


Q ss_pred             CCCHHHHHHHHHHHhhcCCCCC---ccchHHhh--chhhHhhHhhhccCCCCCcEEEE-EcCChhHHhhcC-CCCcccCC
Q 038448          201 DFDIIRVTKSILKSIASDQLVD---DHDLNLLQ--KYNDWTNRSRLFEAGAPGSKIVF-TTRNLGVAEKMG-PLPAYPLK  273 (385)
Q Consensus       201 ~~~~~~~~~~il~~l~~~~~~~---~~~~~~l~--~~~~w~~l~~~l~~~~~gs~Iiv-TTR~~~va~~~~-~~~~~~l~  273 (385)
                      .... +-+++++.++.......   .--+++..  ....++.+...+..-...+.+|+ ||....+...+. ....+++.
T Consensus       100 ~~~v-d~Ir~li~~~~~~P~~~~~KVvIIdea~~Ls~~a~naLLK~LEepp~~tifIL~tt~~~kIl~tI~SRc~iv~f~  178 (614)
T PRK14971        100 NNSV-DDIRNLIEQVRIPPQIGKYKIYIIDEVHMLSQAAFNAFLKTLEEPPSYAIFILATTEKHKILPTILSRCQIFDFN  178 (614)
T ss_pred             cCCH-HHHHHHHHHHhhCcccCCcEEEEEECcccCCHHHHHHHHHHHhCCCCCeEEEEEeCCchhchHHHHhhhheeecC
Confidence            2223 33444554443222100   00011111  34556777777765555666655 445445544332 23678999


Q ss_pred             CCChhhHHhhhhccccCCCCCCCCccHHHHHHHHHHHcCCChHHH
Q 038448          274 ELSNDDCLSVFSPHSLGEKDFSTHPSLKEIGEKIVKKCNGLPLVA  318 (385)
Q Consensus       274 ~L~~~~a~~Lf~~~a~~~~~~~~~~~l~~~~~~i~~~c~glPLAi  318 (385)
                      +++.++....+...+-... ...   -.+.+..|+..++|-+--+
T Consensus       179 ~ls~~ei~~~L~~ia~~eg-i~i---~~~al~~La~~s~gdlr~a  219 (614)
T PRK14971        179 RIQVADIVNHLQYVASKEG-ITA---EPEALNVIAQKADGGMRDA  219 (614)
T ss_pred             CCCHHHHHHHHHHHHHHcC-CCC---CHHHHHHHHHHcCCCHHHH
Confidence            9999998877765442211 111   1345677888999866433

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=96.33  E-value=0.0051  Score=49.27  Aligned_cols=37  Identities=27%  Similarity=0.172  Sum_probs=26.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEec
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVS  199 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs  199 (385)
                      ..+.|+|++|+||||+++.+....  .......++++.+
T Consensus         3 ~~~~l~G~~G~GKTtl~~~l~~~~--~~~~~~~~~~~~~   39 (148)
T smart00382        3 EVILIVGPPGSGKTTLARALAREL--GPPGGGVIYIDGE   39 (148)
T ss_pred             CEEEEECCCCCcHHHHHHHHHhcc--CCCCCCEEEECCE
Confidence            578999999999999999998753  2222235555544

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.

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

Probab=96.32  E-value=0.14  Score=48.91  Aligned_cols=54  Identities=19%  Similarity=0.207  Sum_probs=43.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcccccccccc-c-eEEEEecCCCCHHHHHHHHHHHhhc
Q 038448          162 VIPIIGTGRIGKTTLAQLAYSDVRVHNHFD-L-KAWTCVSEDFDIIRVTKSILKSIAS  217 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~-~-~~wv~vs~~~~~~~~~~~il~~l~~  217 (385)
                      -+.|+|.+|.|||+.++.+...  ++.... . .++|+.-...+...++..|+.+++.
T Consensus        44 n~~iyG~~GTGKT~~~~~v~~~--l~~~~~~~~~~yINc~~~~t~~~i~~~i~~~~~~   99 (366)
T COG1474          44 NIIIYGPTGTGKTATVKFVMEE--LEESSANVEVVYINCLELRTPYQVLSKILNKLGK   99 (366)
T ss_pred             cEEEECCCCCCHhHHHHHHHHH--HHhhhccCceEEEeeeeCCCHHHHHHHHHHHcCC
Confidence            3889999999999999999985  333321 1 6788888888899999999998863

>TIGR00235 udk uridine kinase

Probab=96.29  E-value=0.0036  Score=54.83  Aligned_cols=25  Identities=36%  Similarity=0.365  Sum_probs=22.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .-.+|+|+|++|+|||||++.+...
T Consensus         5 ~g~vi~I~G~sGsGKSTl~~~l~~~   29 (207)
T TIGR00235         5 KGIIIGIGGGSGSGKTTVARKIYEQ   29 (207)
T ss_pred             CeEEEEEECCCCCCHHHHHHHHHHH
Confidence            4479999999999999999999864

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

>cd01123 Rad51_DMC1_radA Rad51_DMC1_radA,B

Probab=96.29  E-value=0.013  Score=52.24  Aligned_cols=55  Identities=20%  Similarity=0.130  Sum_probs=38.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcccccccc----ccceEEEEecCCCCHHHHHHHHHHH
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSDVRVHNH----FDLKAWTCVSEDFDIIRVTKSILKS  214 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~----F~~~~wv~vs~~~~~~~~~~~il~~  214 (385)
                      .-.++.|+|.+|+|||+|+.++.-.......    -..++|++....++..++ .+++..
T Consensus        18 ~g~i~~i~G~~GsGKT~l~~~l~~~~~~~~~~~g~~~~viyi~~e~~~~~~rl-~~~~~~   76 (235)
T cd01123          18 TGSITEIFGEFGSGKTQLCHQLAVTVQLPIELGGLEGKAVYIDTEGTFRPERL-VQIAER   76 (235)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHeeCccccCCCCccEEEEeCCCCcCHHHH-HHHHHH
Confidence            4488999999999999999988643222221    357899998877765444 334443

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 .

>PRK06762 hypothetical protein; Provisional

Probab=96.28  E-value=0.0034  Score=52.77  Aligned_cols=23  Identities=35%  Similarity=0.406  Sum_probs=21.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .+|.|+|++|+||||+|+.+...
T Consensus         3 ~li~i~G~~GsGKST~A~~L~~~   25 (166)
T PRK06762          3 TLIIIRGNSGSGKTTIAKQLQER   25 (166)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            68999999999999999999864

>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=96.28  E-value=0.0033  Score=44.47  Aligned_cols=22  Identities=32%  Similarity=0.441  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcc
Q 038448          162 VIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      +|.|.|.+|+||||+++.+.+.
T Consensus         1 ~i~i~G~~gsGKst~~~~l~~~   22 (69)
T cd02019           1 IIAITGGSGSGKSTVAKKLAEQ   22 (69)
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            4789999999999999988774

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.

>TIGR02237 recomb_radB DNA repair and recombination protein RadB

Probab=96.26  E-value=0.0081  Score=52.56  Aligned_cols=48  Identities=13%  Similarity=0.109  Sum_probs=35.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecCCCCHHHHHH
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDFDIIRVTK  209 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~  209 (385)
                      .-.++.|+|.+|+|||+++.++...  ....-..++|++... ++...+.+
T Consensus        11 ~g~i~~i~G~~GsGKT~l~~~~~~~--~~~~g~~v~yi~~e~-~~~~rl~~   58 (209)
T TIGR02237        11 RGTITQIYGPPGSGKTNICMILAVN--AARQGKKVVYIDTEG-LSPERFKQ   58 (209)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHH--HHhCCCeEEEEECCC-CCHHHHHH
Confidence            4589999999999999999988764  333346788998865 55555443

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

>TIGR00763 lon ATP-dependent protease La

Probab=96.25  E-value=0.024  Score=59.71  Aligned_cols=45  Identities=24%  Similarity=0.327  Sum_probs=30.4

Q ss_pred             hhhHHHHHHHHhcCCCCCCCCceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          139 DKEKEETVKLLLRDDLRTDDGLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       139 ~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      +.-++.|.+++..........-.++.++|++|+|||++|+.+.+.
T Consensus       326 ~~~k~~i~~~~~~~~~~~~~~~~~lll~GppG~GKT~lAk~iA~~  370 (775)
T TIGR00763       326 KKVKERILEYLAVQKLRGKMKGPILCLVGPPGVGKTSLGKSIAKA  370 (775)
T ss_pred             HHHHHHHHHHHHHHHhhcCCCCceEEEECCCCCCHHHHHHHHHHH
Confidence            555666666553221101223358999999999999999999875

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.

>PRK06547 hypothetical protein; Provisional

Probab=96.24  E-value=0.0066  Score=51.40  Aligned_cols=26  Identities=35%  Similarity=0.374  Sum_probs=23.1

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          158 DGLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       158 ~~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ....+|+|.|.+|+||||+|..+...
T Consensus        13 ~~~~~i~i~G~~GsGKTt~a~~l~~~   38 (172)
T PRK06547         13 GGMITVLIDGRSGSGKTTLAGALAAR   38 (172)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            45689999999999999999999764

>PRK08769 DNA polymerase III subunit delta'; Validated

Probab=96.24  E-value=0.051  Score=50.71  Aligned_cols=152  Identities=11%  Similarity=0.092  Sum_probs=81.4

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhccc-----ccc-----------ccccceEEEEecCC-C-------CHHHHHHHHHHHh
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSDV-----RVH-----------NHFDLKAWTCVSED-F-------DIIRVTKSILKSI  215 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~~-----~~~-----------~~F~~~~wv~vs~~-~-------~~~~~~~~il~~l  215 (385)
                      ...+.++|+.|+||+++|..+....     ...           ...+-..|+..... .       -..+-.+++...+
T Consensus        26 ~HA~Lf~Gp~G~GK~~lA~~lA~~LlC~~~~~~~~c~~c~~~~~g~HPD~~~i~~~p~~~~~k~~~~I~idqIR~l~~~~  105 (319)
T PRK08769         26 GHGLLICGPEGLGKRAVALALAEHVLASGPDPAAAQRTRQLIAAGTHPDLQLVSFIPNRTGDKLRTEIVIEQVREISQKL  105 (319)
T ss_pred             ceeEeeECCCCCCHHHHHHHHHHHHhCCCCCCCCcchHHHHHhcCCCCCEEEEecCCCcccccccccccHHHHHHHHHHH
Confidence            4578899999999999997665321     000           01112334421110 0       0123344555544


Q ss_pred             hcCCCCCc---cchHHhh--chhhHhhHhhhccCCCCCcEEEEEcCC-hhHHhhcCC-CCcccCCCCChhhHHhhhhccc
Q 038448          216 ASDQLVDD---HDLNLLQ--KYNDWTNRSRLFEAGAPGSKIVFTTRN-LGVAEKMGP-LPAYPLKELSNDDCLSVFSPHS  288 (385)
Q Consensus       216 ~~~~~~~~---~~~~~l~--~~~~w~~l~~~l~~~~~gs~IivTTR~-~~va~~~~~-~~~~~l~~L~~~~a~~Lf~~~a  288 (385)
                      ........   -.++...  +...-+.+...+-.-..++.+|++|.+ ..+...+.+ ...+.+.+++.+++...+....
T Consensus       106 ~~~p~~g~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~~~fiL~~~~~~~lLpTIrSRCq~i~~~~~~~~~~~~~L~~~~  185 (319)
T PRK08769        106 ALTPQYGIAQVVIVDPADAINRAACNALLKTLEEPSPGRYLWLISAQPARLPATIRSRCQRLEFKLPPAHEALAWLLAQG  185 (319)
T ss_pred             hhCcccCCcEEEEeccHhhhCHHHHHHHHHHhhCCCCCCeEEEEECChhhCchHHHhhheEeeCCCcCHHHHHHHHHHcC
Confidence            43332110   0011111  334445566566554557777776664 344433332 2568899999999887776431


Q ss_pred             cCCCCCCCCccHHHHHHHHHHHcCCChHHHHHH
Q 038448          289 LGEKDFSTHPSLKEIGEKIVKKCNGLPLVAKSL  321 (385)
Q Consensus       289 ~~~~~~~~~~~l~~~~~~i~~~c~glPLAi~~~  321 (385)
                         .    +   ...+..++..++|.|+.+..+
T Consensus       186 ---~----~---~~~a~~~~~l~~G~p~~A~~~  208 (319)
T PRK08769        186 ---V----S---ERAAQEALDAARGHPGLAAQW  208 (319)
T ss_pred             ---C----C---hHHHHHHHHHcCCCHHHHHHH
Confidence               1    0   223567899999999866543

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

Probab=96.22  E-value=0.0035  Score=50.10  Aligned_cols=51  Identities=24%  Similarity=0.048  Sum_probs=32.7

Q ss_pred             EEEEcCCCCcHHHHHHHHhccccccccccceEEEEecCC-----CCHHHHHHHHHHHhhcC
Q 038448          163 IPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSED-----FDIIRVTKSILKSIASD  218 (385)
Q Consensus       163 i~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~-----~~~~~~~~~il~~l~~~  218 (385)
                      |.|+|++|+||||+|+.+.+..  ..+   .+.++.+.-     .+....+..++.+....
T Consensus         1 ill~G~~G~GKT~l~~~la~~l--~~~---~~~i~~~~~~~~~~~~~~~~i~~~~~~~~~~   56 (132)
T PF00004_consen    1 ILLHGPPGTGKTTLARALAQYL--GFP---FIEIDGSELISSYAGDSEQKIRDFFKKAKKS   56 (132)
T ss_dssp             EEEESSTTSSHHHHHHHHHHHT--TSE---EEEEETTHHHTSSTTHHHHHHHHHHHHHHHT
T ss_pred             CEEECcCCCCeeHHHHHHHhhc--ccc---ccccccccccccccccccccccccccccccc
Confidence            5789999999999999999863  222   244443321     23455666666665443

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

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

Probab=96.22  E-value=0.03  Score=56.46  Aligned_cols=45  Identities=20%  Similarity=0.313  Sum_probs=33.4

Q ss_pred             hhhHHHHHHHHhcCCCCCCCCceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          139 DKEKEETVKLLLRDDLRTDDGLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       139 ~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ++-++.|++++.-....++-+=++++.+|++|+|||.+|+.+..-
T Consensus       417 ~dVKeRILEfiAV~kLrgs~qGkIlCf~GPPGVGKTSI~kSIA~A  461 (906)
T KOG2004|consen  417 EDVKERILEFIAVGKLRGSVQGKILCFVGPPGVGKTSIAKSIARA  461 (906)
T ss_pred             HHHHHHHHHHHHHHhhcccCCCcEEEEeCCCCCCcccHHHHHHHH
Confidence            555677777775432213345589999999999999999999874

>PRK09270 nucleoside triphosphate hydrolase domain-containing protein; Reviewed

Probab=96.19  E-value=0.0058  Score=54.40  Aligned_cols=26  Identities=27%  Similarity=0.353  Sum_probs=23.2

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          158 DGLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       158 ~~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      +...+|+|.|.+|.|||||++.+..-
T Consensus        31 ~~~~iigi~G~~GsGKTTl~~~L~~~   56 (229)
T PRK09270         31 QRRTIVGIAGPPGAGKSTLAEFLEAL   56 (229)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            46799999999999999999988864

>PRK08116 hypothetical protein; Validated

Probab=96.18  E-value=0.0033  Score=57.36  Aligned_cols=36  Identities=17%  Similarity=0.060  Sum_probs=26.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEe
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCV  198 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v  198 (385)
                      .-+.++|.+|+|||.||..+++.  +...-..++++++
T Consensus       115 ~gl~l~G~~GtGKThLa~aia~~--l~~~~~~v~~~~~  150 (268)
T PRK08116        115 VGLLLWGSVGTGKTYLAACIANE--LIEKGVPVIFVNF  150 (268)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHH--HHHcCCeEEEEEH
Confidence            35789999999999999999996  3333334566653

>PHA00729 NTP-binding motif containing protein

Probab=96.16  E-value=0.0069  Score=53.24  Aligned_cols=25  Identities=36%  Similarity=0.372  Sum_probs=21.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      +...|.|+|.+|+||||||..+.+.
T Consensus        16 ~f~nIlItG~pGvGKT~LA~aLa~~   40 (226)
T PHA00729         16 GFVSAVIFGKQGSGKTTYALKVARD   40 (226)
T ss_pred             CeEEEEEECCCCCCHHHHHHHHHHH
Confidence            4467899999999999999998774

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

Probab=96.16  E-value=0.039  Score=57.77  Aligned_cols=141  Identities=13%  Similarity=0.179  Sum_probs=75.0

Q ss_pred             hhhhHHHHHHHHhcCCCCCCCCceEEEEEcCCCCcHHHHHHHHhccc---cccccc-cceEEE-EecC-----C--CCHH
Q 038448          138 KDKEKEETVKLLLRDDLRTDDGLSVIPIIGTGRIGKTTLAQLAYSDV---RVHNHF-DLKAWT-CVSE-----D--FDII  205 (385)
Q Consensus       138 ~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~---~~~~~F-~~~~wv-~vs~-----~--~~~~  205 (385)
                      ++.+.+.+++.|....      ..-+.++|++|+|||++|+.+....   .+...+ +..+|. +.+.     .  -...
T Consensus       187 r~~ei~~~~~~L~~~~------~~n~lL~G~pG~GKT~l~~~la~~~~~~~~p~~l~~~~~~~~~~~~l~a~~~~~g~~e  260 (731)
T TIGR02639       187 REDELERTIQVLCRRK------KNNPLLVGEPGVGKTAIAEGLALRIAEGKVPENLKNAKIYSLDMGSLLAGTKYRGDFE  260 (731)
T ss_pred             cHHHHHHHHHHHhcCC------CCceEEECCCCCCHHHHHHHHHHHHHhCCCchhhcCCeEEEecHHHHhhhccccchHH
Confidence            4777888888885542      2345799999999999999887642   122222 344443 2111     1  1344


Q ss_pred             HHHHHHHHHhhcCCCC--CccchHHhhc--------hhhHhhHhhhccCCCCC-cEEEEEcCChhHHhhc-------CCC
Q 038448          206 RVTKSILKSIASDQLV--DDHDLNLLQK--------YNDWTNRSRLFEAGAPG-SKIVFTTRNLGVAEKM-------GPL  267 (385)
Q Consensus       206 ~~~~~il~~l~~~~~~--~~~~~~~l~~--------~~~w~~l~~~l~~~~~g-s~IivTTR~~~va~~~-------~~~  267 (385)
                      .-++.++..+......  ..++++.+-.        .+.-+.++..+.   .| -++|-+|...+....+       ...
T Consensus       261 ~~l~~i~~~~~~~~~~ILfiDEih~l~~~g~~~~~~~~~~~~L~~~l~---~g~i~~IgaTt~~e~~~~~~~d~al~rRf  337 (731)
T TIGR02639       261 ERLKAVVSEIEKEPNAILFIDEIHTIVGAGATSGGSMDASNLLKPALS---SGKLRCIGSTTYEEYKNHFEKDRALSRRF  337 (731)
T ss_pred             HHHHHHHHHHhccCCeEEEEecHHHHhccCCCCCccHHHHHHHHHHHh---CCCeEEEEecCHHHHHHHhhhhHHHHHhC
Confidence            5667777766432210  1223333221        111223444332   23 2445444432221111       112


Q ss_pred             CcccCCCCChhhHHhhhhcc
Q 038448          268 PAYPLKELSNDDCLSVFSPH  287 (385)
Q Consensus       268 ~~~~l~~L~~~~a~~Lf~~~  287 (385)
                      ..+.+.+++.++...++...
T Consensus       338 ~~i~v~~p~~~~~~~il~~~  357 (731)
T TIGR02639       338 QKIDVGEPSIEETVKILKGL  357 (731)
T ss_pred             ceEEeCCCCHHHHHHHHHHH
Confidence            46889999999999988854

>PRK12377 putative replication protein; Provisional

Probab=96.14  E-value=0.0046  Score=55.55  Aligned_cols=37  Identities=16%  Similarity=0.028  Sum_probs=28.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEec
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVS  199 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs  199 (385)
                      ..+.++|.+|+|||+||..+.+.  +......++++++.
T Consensus       102 ~~l~l~G~~GtGKThLa~AIa~~--l~~~g~~v~~i~~~  138 (248)
T PRK12377        102 TNFVFSGKPGTGKNHLAAAIGNR--LLAKGRSVIVVTVP  138 (248)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH--HHHcCCCeEEEEHH
Confidence            57899999999999999999986  33444456777654

>PF14516 AAA_35: AAA-like domain

Probab=96.12  E-value=0.2  Score=47.21  Aligned_cols=51  Identities=16%  Similarity=0.193  Sum_probs=40.4

Q ss_pred             CcccCCCCChhhHHhhhhccccCCCCCCCCccHHHHHHHHHHHcCCChHHHHHHHHHhh
Q 038448          268 PAYPLKELSNDDCLSVFSPHSLGEKDFSTHPSLKEIGEKIVKKCNGLPLVAKSLGGLLR  326 (385)
Q Consensus       268 ~~~~l~~L~~~~a~~Lf~~~a~~~~~~~~~~~l~~~~~~i~~~c~glPLAi~~~~~~L~  326 (385)
                      ..+.|.+++.+|...|+...-..     ..   ....+.|...+||+|.-+..++..+.
T Consensus       194 ~~i~L~~Ft~~ev~~L~~~~~~~-----~~---~~~~~~l~~~tgGhP~Lv~~~~~~l~  244 (331)
T PF14516_consen  194 QPIELPDFTPEEVQELAQRYGLE-----FS---QEQLEQLMDWTGGHPYLVQKACYLLV  244 (331)
T ss_pred             cceeCCCCCHHHHHHHHHhhhcc-----CC---HHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            46889999999999998876321     11   22388899999999999999999886

>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily

Probab=96.09  E-value=0.005  Score=52.77  Aligned_cols=25  Identities=24%  Similarity=0.235  Sum_probs=22.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      +..+|.|+|++|+||||+|+.+...
T Consensus         2 ~~~ii~i~G~~GsGKsTl~~~l~~~   26 (188)
T TIGR01360         2 KCKIIFIVGGPGSGKGTQCEKIVEK   26 (188)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHH
Confidence            4579999999999999999999753

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.

>PRK08451 DNA polymerase III subunits gamma and tau; Validated

Probab=96.08  E-value=0.093  Score=52.38  Aligned_cols=157  Identities=11%  Similarity=0.046  Sum_probs=81.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhcccc---ccc---------------ccc-ceEEEEecCCCCHHHHHHHHHHHhhcCCC
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSDVR---VHN---------------HFD-LKAWTCVSEDFDIIRVTKSILKSIASDQL  220 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~~~---~~~---------------~F~-~~~wv~vs~~~~~~~~~~~il~~l~~~~~  220 (385)
                      ...+.++|+.|+||||+|+.+.+..-   -..               .+. ..+++..+...... -+++++........
T Consensus        36 ~hayLf~Gp~G~GKTt~Ar~LAk~L~c~~~~~~~pC~~C~~C~~~~~~~h~dv~eldaas~~gId-~IRelie~~~~~P~  114 (535)
T PRK08451         36 AHAYLFSGLRGSGKTSSARIFARALVCEQGPSSTPCDTCIQCQSALENRHIDIIEMDAASNRGID-DIRELIEQTKYKPS  114 (535)
T ss_pred             CeeEEEECCCCCcHHHHHHHHHHHhcCCCCCCCCCCcccHHHHHHhhcCCCeEEEeccccccCHH-HHHHHHHHHhhCcc
Confidence            45678999999999999987654310   000               011 12233322222233 33444444321111


Q ss_pred             C---CccchHHhh--chhhHhhHhhhccCCCCCcEEEEEcCCh-hHHhhcC-CCCcccCCCCChhhHHhhhhccccCCCC
Q 038448          221 V---DDHDLNLLQ--KYNDWTNRSRLFEAGAPGSKIVFTTRNL-GVAEKMG-PLPAYPLKELSNDDCLSVFSPHSLGEKD  293 (385)
Q Consensus       221 ~---~~~~~~~l~--~~~~w~~l~~~l~~~~~gs~IivTTR~~-~va~~~~-~~~~~~l~~L~~~~a~~Lf~~~a~~~~~  293 (385)
                      .   ..--+++.+  ..+..+.+...+......+.+|++|.+. .+...+. ....+++.+++.++....+...+-..+ 
T Consensus       115 ~~~~KVvIIDEad~Lt~~A~NALLK~LEEpp~~t~FIL~ttd~~kL~~tI~SRc~~~~F~~Ls~~ei~~~L~~Il~~EG-  193 (535)
T PRK08451        115 MARFKIFIIDEVHMLTKEAFNALLKTLEEPPSYVKFILATTDPLKLPATILSRTQHFRFKQIPQNSIISHLKTILEKEG-  193 (535)
T ss_pred             cCCeEEEEEECcccCCHHHHHHHHHHHhhcCCceEEEEEECChhhCchHHHhhceeEEcCCCCHHHHHHHHHHHHHHcC-
Confidence            0   000111111  3445556666665545567777666553 2222221 225789999999988777765442211 


Q ss_pred             CCCCccHHHHHHHHHHHcCCChHHHHHH
Q 038448          294 FSTHPSLKEIGEKIVKKCNGLPLVAKSL  321 (385)
Q Consensus       294 ~~~~~~l~~~~~~i~~~c~glPLAi~~~  321 (385)
                      ..   --.+.+..|++.++|.+--+...
T Consensus       194 i~---i~~~Al~~Ia~~s~GdlR~alnl  218 (535)
T PRK08451        194 VS---YEPEALEILARSGNGSLRDTLTL  218 (535)
T ss_pred             CC---CCHHHHHHHHHHcCCcHHHHHHH
Confidence            11   11456778999999988544443

>PRK03839 putative kinase; Provisional

Probab=96.07  E-value=0.0046  Score=52.76  Aligned_cols=22  Identities=41%  Similarity=0.620  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcc
Q 038448          162 VIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .|.|+|++|+||||+++.+.+.
T Consensus         2 ~I~l~G~pGsGKsT~~~~La~~   23 (180)
T PRK03839          2 IIAITGTPGVGKTTVSKLLAEK   23 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            4889999999999999999875

>PRK14965 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.05  E-value=0.12  Score=52.55  Aligned_cols=156  Identities=12%  Similarity=0.098  Sum_probs=79.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhccccccc--------------------cccceEEEEecCCCCHHHHHHHHHHHhhcCC
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSDVRVHN--------------------HFDLKAWTCVSEDFDIIRVTKSILKSIASDQ  219 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~--------------------~F~~~~wv~vs~~~~~~~~~~~il~~l~~~~  219 (385)
                      ...+.++|+.|+||||+|+.+.+...-..                    +++ .+.+.......+.+ .++|...+....
T Consensus        38 ~hayLf~Gp~G~GKtt~A~~lak~l~c~~~~~~~~c~~c~~c~~i~~g~~~d-~~eid~~s~~~v~~-ir~l~~~~~~~p  115 (576)
T PRK14965         38 AHAFLFTGARGVGKTSTARILAKALNCEQGLTAEPCNVCPPCVEITEGRSVD-VFEIDGASNTGVDD-IRELRENVKYLP  115 (576)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHhhcCCCCCCCCCCCccHHHHHHhcCCCCC-eeeeeccCccCHHH-HHHHHHHHHhcc
Confidence            35678999999999999988765421000                    111 12222222223333 345555443222


Q ss_pred             CC---CccchHHhh--chhhHhhHhhhccCCCCCcEEEE-EcCChhHHhhcC-CCCcccCCCCChhhHHhhhhccccCCC
Q 038448          220 LV---DDHDLNLLQ--KYNDWTNRSRLFEAGAPGSKIVF-TTRNLGVAEKMG-PLPAYPLKELSNDDCLSVFSPHSLGEK  292 (385)
Q Consensus       220 ~~---~~~~~~~l~--~~~~w~~l~~~l~~~~~gs~Iiv-TTR~~~va~~~~-~~~~~~l~~L~~~~a~~Lf~~~a~~~~  292 (385)
                      ..   ..--+++..  .....+.+...+......+.+|+ ||....+...+. ....+.+.+++.++....+...+-.. 
T Consensus       116 ~~~~~KVvIIdev~~Lt~~a~naLLk~LEepp~~~~fIl~t~~~~kl~~tI~SRc~~~~f~~l~~~~i~~~L~~i~~~e-  194 (576)
T PRK14965        116 SRSRYKIFIIDEVHMLSTNAFNALLKTLEEPPPHVKFIFATTEPHKVPITILSRCQRFDFRRIPLQKIVDRLRYIADQE-  194 (576)
T ss_pred             ccCCceEEEEEChhhCCHHHHHHHHHHHHcCCCCeEEEEEeCChhhhhHHHHHhhhhhhcCCCCHHHHHHHHHHHHHHh-
Confidence            10   000111111  33445566666655445666665 444444544332 22568888999888776665443111 


Q ss_pred             CCCCCccHHHHHHHHHHHcCCCh-HHHHHH
Q 038448          293 DFSTHPSLKEIGEKIVKKCNGLP-LVAKSL  321 (385)
Q Consensus       293 ~~~~~~~l~~~~~~i~~~c~glP-LAi~~~  321 (385)
                      ....   -.+....|++.++|.. .|+..+
T Consensus       195 gi~i---~~~al~~la~~a~G~lr~al~~L  221 (576)
T PRK14965        195 GISI---SDAALALVARKGDGSMRDSLSTL  221 (576)
T ss_pred             CCCC---CHHHHHHHHHHcCCCHHHHHHHH
Confidence            1111   1345667888888855 444443

>PRK06526 transposase; Provisional

Probab=96.04  E-value=0.0024  Score=57.65  Aligned_cols=23  Identities=26%  Similarity=0.167  Sum_probs=20.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .-+.++|++|+|||+||..+.+.
T Consensus        99 ~nlll~Gp~GtGKThLa~al~~~  121 (254)
T PRK06526         99 ENVVFLGPPGTGKTHLAIGLGIR  121 (254)
T ss_pred             ceEEEEeCCCCchHHHHHHHHHH
Confidence            45899999999999999998764

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

Probab=96.02  E-value=0.02  Score=52.07  Aligned_cols=50  Identities=18%  Similarity=0.088  Sum_probs=38.6

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecCCCCHHHHHHHH
Q 038448          158 DGLSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDFDIIRVTKSI  211 (385)
Q Consensus       158 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i  211 (385)
                      +.-+++.|.|.+|+|||+++.++...  .......++||+..+.  ...+.+..
T Consensus        21 p~g~~~lI~G~pGsGKT~f~~qfl~~--~~~~ge~vlyvs~~e~--~~~l~~~~   70 (260)
T COG0467          21 PRGSVVLITGPPGTGKTIFALQFLYE--GAREGEPVLYVSTEES--PEELLENA   70 (260)
T ss_pred             cCCcEEEEEcCCCCcHHHHHHHHHHH--HHhcCCcEEEEEecCC--HHHHHHHH
Confidence            45589999999999999999888775  4455888999998874  44444443

>COG0572 Udk Uridine kinase [Nucleotide transport and metabolism]

Probab=95.99  E-value=0.006  Score=53.06  Aligned_cols=26  Identities=31%  Similarity=0.374  Sum_probs=23.5

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          158 DGLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       158 ~~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ..+.+|+|.|.+|+||||+|+.++..
T Consensus         6 ~~~iiIgIaG~SgSGKTTva~~l~~~   31 (218)
T COG0572           6 EKVIIIGIAGGSGSGKTTVAKELSEQ   31 (218)
T ss_pred             CceEEEEEeCCCCCCHHHHHHHHHHH
Confidence            45689999999999999999999875

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

Probab=95.94  E-value=0.24  Score=51.88  Aligned_cols=143  Identities=15%  Similarity=0.183  Sum_probs=74.3

Q ss_pred             hhhhHHHHHHHHhcCCCCCCCCceEEEEEcCCCCcHHHHHHHHhccc---ccccc-ccceEEEE-ecC-----C--CCHH
Q 038448          138 KDKEKEETVKLLLRDDLRTDDGLSVIPIIGTGRIGKTTLAQLAYSDV---RVHNH-FDLKAWTC-VSE-----D--FDII  205 (385)
Q Consensus       138 ~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~---~~~~~-F~~~~wv~-vs~-----~--~~~~  205 (385)
                      ++.+.+.+++.|.....      .-+.++|.+|+|||++|+.+....   .+... .++.+|.. .+.     .  -+..
T Consensus       191 R~~ei~~~i~iL~r~~~------~n~LLvGppGvGKT~lae~la~~i~~~~vP~~l~~~~~~~l~~~~llaG~~~~Ge~e  264 (758)
T PRK11034        191 REKELERAIQVLCRRRK------NNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSLLAGTKYRGDFE  264 (758)
T ss_pred             CCHHHHHHHHHHhccCC------CCeEEECCCCCCHHHHHHHHHHHHHhcCCCchhcCCeEEeccHHHHhcccchhhhHH
Confidence            38888999998876322      334689999999999999987642   11111 24555532 111     1  1234


Q ss_pred             HHHHHHHHHhhcCCCC--CccchHHhh-------chhhHhhHhhhccCCCCCcEEEEEcCChhHHhhcC-------CCCc
Q 038448          206 RVTKSILKSIASDQLV--DDHDLNLLQ-------KYNDWTNRSRLFEAGAPGSKIVFTTRNLGVAEKMG-------PLPA  269 (385)
Q Consensus       206 ~~~~~il~~l~~~~~~--~~~~~~~l~-------~~~~w~~l~~~l~~~~~gs~IivTTR~~~va~~~~-------~~~~  269 (385)
                      .-++.++..+......  ..++++.+-       ...+...+..++.. ...-++|-+|..++....+.       ....
T Consensus       265 ~rl~~l~~~l~~~~~~ILfIDEIh~L~g~g~~~~g~~d~~nlLkp~L~-~g~i~vIgATt~~E~~~~~~~D~AL~rRFq~  343 (758)
T PRK11034        265 KRFKALLKQLEQDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLS-SGKIRVIGSTTYQEFSNIFEKDRALARRFQK  343 (758)
T ss_pred             HHHHHHHHHHHhcCCCEEEeccHHHHhccCCCCCcHHHHHHHHHHHHh-CCCeEEEecCChHHHHHHhhccHHHHhhCcE
Confidence            4455666555432211  123333331       11122222222222 12234555554444322111       1246


Q ss_pred             ccCCCCChhhHHhhhhcc
Q 038448          270 YPLKELSNDDCLSVFSPH  287 (385)
Q Consensus       270 ~~l~~L~~~~a~~Lf~~~  287 (385)
                      +.+.+++.++...++...
T Consensus       344 I~v~ePs~~~~~~IL~~~  361 (758)
T PRK11034        344 IDITEPSIEETVQIINGL  361 (758)
T ss_pred             EEeCCCCHHHHHHHHHHH
Confidence            888899999988888754

>PRK04040 adenylate kinase; Provisional

Probab=95.94  E-value=0.0062  Score=52.42  Aligned_cols=23  Identities=30%  Similarity=0.458  Sum_probs=21.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .+|.|+|++|+||||+++.+...
T Consensus         3 ~~i~v~G~pG~GKtt~~~~l~~~   25 (188)
T PRK04040          3 KVVVVTGVPGVGKTTVLNKALEK   25 (188)
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHH
Confidence            68999999999999999999774

>TIGR00554 panK_bact pantothenate kinase, bacterial type

Probab=95.92  E-value=0.013  Score=53.89  Aligned_cols=25  Identities=28%  Similarity=0.364  Sum_probs=21.6

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHhc
Q 038448          158 DGLSVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       158 ~~~~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      ..+.+|+|.|..|+||||+|+.+..
T Consensus        60 ~~p~IIGIaG~~GSGKSTlar~L~~   84 (290)
T TIGR00554        60 KIPYIISIAGSVAVGKSTTARILQA   84 (290)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHH
Confidence            4678999999999999999977644

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.

>PRK14948 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.92  E-value=0.12  Score=52.86  Aligned_cols=155  Identities=11%  Similarity=0.069  Sum_probs=79.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhccccccccc---------------------cceEEEEecCCCCHHHHHHHHHHHhhcCC
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSDVRVHNHF---------------------DLKAWTCVSEDFDIIRVTKSILKSIASDQ  219 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F---------------------~~~~wv~vs~~~~~~~~~~~il~~l~~~~  219 (385)
                      ..+.++|..|+||||+|+.+....--....                     ...+.+....... .+-+++++..+....
T Consensus        39 ~a~Lf~Gp~G~GKttlA~~lAk~L~c~~~~~~~~~~Cg~C~~C~~i~~g~h~D~~ei~~~~~~~-vd~IReii~~a~~~p  117 (620)
T PRK14948         39 PAYLFTGPRGTGKTSSARILAKSLNCLNSDKPTPEPCGKCELCRAIAAGNALDVIEIDAASNTG-VDNIRELIERAQFAP  117 (620)
T ss_pred             ceEEEECCCCCChHHHHHHHHHHhcCCCcCCCCCCCCcccHHHHHHhcCCCccEEEEeccccCC-HHHHHHHHHHHhhCh
Confidence            567899999999999998886642110000                     0112232222222 234455555543221


Q ss_pred             CC---CccchHHhh--chhhHhhHhhhccCCCCCcEEEEEcCC-hhHHhhcC-CCCcccCCCCChhhHHhhhhccccCCC
Q 038448          220 LV---DDHDLNLLQ--KYNDWTNRSRLFEAGAPGSKIVFTTRN-LGVAEKMG-PLPAYPLKELSNDDCLSVFSPHSLGEK  292 (385)
Q Consensus       220 ~~---~~~~~~~l~--~~~~w~~l~~~l~~~~~gs~IivTTR~-~~va~~~~-~~~~~~l~~L~~~~a~~Lf~~~a~~~~  292 (385)
                      ..   ..--+++..  ....++.+...+..-...+.+|++|.+ ..+...+. ....+.+..++.++....+...+-...
T Consensus       118 ~~~~~KViIIDEad~Lt~~a~naLLK~LEePp~~tvfIL~t~~~~~llpTIrSRc~~~~f~~l~~~ei~~~L~~ia~keg  197 (620)
T PRK14948        118 VQARWKVYVIDECHMLSTAAFNALLKTLEEPPPRVVFVLATTDPQRVLPTIISRCQRFDFRRIPLEAMVQHLSEIAEKES  197 (620)
T ss_pred             hcCCceEEEEECccccCHHHHHHHHHHHhcCCcCeEEEEEeCChhhhhHHHHhheeEEEecCCCHHHHHHHHHHHHHHhC
Confidence            10   001111111  344566677666654445555554443 33333222 225577888888887766665432211


Q ss_pred             CCCCCccHHHHHHHHHHHcCCChHHHHH
Q 038448          293 DFSTHPSLKEIGEKIVKKCNGLPLVAKS  320 (385)
Q Consensus       293 ~~~~~~~l~~~~~~i~~~c~glPLAi~~  320 (385)
                       ....   .+.+..|++.++|.+..+..
T Consensus       198 -i~is---~~al~~La~~s~G~lr~A~~  221 (620)
T PRK14948        198 -IEIE---PEALTLVAQRSQGGLRDAES  221 (620)
T ss_pred             -CCCC---HHHHHHHHHHcCCCHHHHHH
Confidence             1111   34577889999997754443

>PRK07133 DNA polymerase III subunits gamma and tau; Validated

Probab=95.91  E-value=0.13  Score=53.08  Aligned_cols=155  Identities=12%  Similarity=0.099  Sum_probs=80.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhccccccc-----------------cccceEEEEecCCCCHHHHHHHHHHHhhcCCCC-
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSDVRVHN-----------------HFDLKAWTCVSEDFDIIRVTKSILKSIASDQLV-  221 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~-----------------~F~~~~wv~vs~~~~~~~~~~~il~~l~~~~~~-  221 (385)
                      ...+.++|+.|+||||+|+.+....--..                 +++ ++++........ +-++++...+...... 
T Consensus        40 ~HAYLF~GP~GtGKTt~AriLAk~LnC~~~~~~~~pC~~C~~~~~~~~D-vieidaasn~~v-d~IReLie~~~~~P~~g  117 (725)
T PRK07133         40 SHAYLFSGPRGTGKTSVAKIFANALNCSHKTDLLEPCQECIENVNNSLD-IIEMDAASNNGV-DEIRELIENVKNLPTQS  117 (725)
T ss_pred             CeEEEEECCCCCcHHHHHHHHHHHhcccccCCCCCchhHHHHhhcCCCc-EEEEeccccCCH-HHHHHHHHHHHhchhcC
Confidence            46678999999999999988764310000                 111 122322211222 2244555544322210 


Q ss_pred             -----CccchHHhhchhhHhhHhhhccCCCCCcEEE-EEcCChhHHhhcC-CCCcccCCCCChhhHHhhhhccccCCCCC
Q 038448          222 -----DDHDLNLLQKYNDWTNRSRLFEAGAPGSKIV-FTTRNLGVAEKMG-PLPAYPLKELSNDDCLSVFSPHSLGEKDF  294 (385)
Q Consensus       222 -----~~~~~~~l~~~~~w~~l~~~l~~~~~gs~Ii-vTTR~~~va~~~~-~~~~~~l~~L~~~~a~~Lf~~~a~~~~~~  294 (385)
                           ..+..+.+ ....+..+...+-.....+.+| +||....+...+. ....+.+.+++.++....+...+-... .
T Consensus       118 ~~KV~IIDEa~~L-T~~A~NALLKtLEEPP~~tifILaTte~~KLl~TI~SRcq~ieF~~L~~eeI~~~L~~il~keg-I  195 (725)
T PRK07133        118 KYKIYIIDEVHML-SKSAFNALLKTLEEPPKHVIFILATTEVHKIPLTILSRVQRFNFRRISEDEIVSRLEFILEKEN-I  195 (725)
T ss_pred             CCEEEEEEChhhC-CHHHHHHHHHHhhcCCCceEEEEEcCChhhhhHHHHhhceeEEccCCCHHHHHHHHHHHHHHcC-C
Confidence                 01111111 3345666766665444455544 5555445543322 235789999999998777765432111 1


Q ss_pred             CCCccHHHHHHHHHHHcCCChH-HHHHH
Q 038448          295 STHPSLKEIGEKIVKKCNGLPL-VAKSL  321 (385)
Q Consensus       295 ~~~~~l~~~~~~i~~~c~glPL-Ai~~~  321 (385)
                      .   --...+..|++.++|.+- |+..+
T Consensus       196 ~---id~eAl~~LA~lS~GslR~AlslL  220 (725)
T PRK07133        196 S---YEKNALKLIAKLSSGSLRDALSIA  220 (725)
T ss_pred             C---CCHHHHHHHHHHcCCCHHHHHHHH
Confidence            1   113456778899988664 44433

>cd02023 UMPK Uridine monophosphate kinase (UMPK, EC 2

Probab=95.90  E-value=0.0052  Score=53.34  Aligned_cols=22  Identities=36%  Similarity=0.445  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcc
Q 038448          162 VIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      +|+|.|.+|+|||||++.+..-
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.

>PF00448 SRP54: SRP54-type protein, GTPase domain; InterPro: IPR000897 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]

Probab=95.89  E-value=0.017  Score=49.97  Aligned_cols=57  Identities=16%  Similarity=0.146  Sum_probs=35.2

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecC-CCCHHHHHHHHHHHhhcC
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSE-DFDIIRVTKSILKSIASD  218 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~-~~~~~~~~~~il~~l~~~  218 (385)
                      ++||.++|+.|+||||.+-++....  +..-..+..++... .....+-++...+.++..
T Consensus         1 p~vi~lvGptGvGKTTt~aKLAa~~--~~~~~~v~lis~D~~R~ga~eQL~~~a~~l~vp   58 (196)
T PF00448_consen    1 PKVIALVGPTGVGKTTTIAKLAARL--KLKGKKVALISADTYRIGAVEQLKTYAEILGVP   58 (196)
T ss_dssp             SEEEEEEESTTSSHHHHHHHHHHHH--HHTT--EEEEEESTSSTHHHHHHHHHHHHHTEE
T ss_pred             CEEEEEECCCCCchHhHHHHHHHHH--hhccccceeecCCCCCccHHHHHHHHHHHhccc
Confidence            4799999999999998777666542  22233455666442 234455566666666543

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 ....

>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=95.88  E-value=0.015  Score=47.15  Aligned_cols=42  Identities=21%  Similarity=0.121  Sum_probs=28.8

Q ss_pred             EEEEcCCCCcHHHHHHHHhccccccccccceEEEEecCCCCHHHHHH
Q 038448          163 IPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDFDIIRVTK  209 (385)
Q Consensus       163 i~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~  209 (385)
                      |.++|.+|+|||+||+.++..  ...   ...-+.++...+..+++.
T Consensus         2 vlL~G~~G~GKt~l~~~la~~--~~~---~~~~i~~~~~~~~~dl~g   43 (139)
T PF07728_consen    2 VLLVGPPGTGKTTLARELAAL--LGR---PVIRINCSSDTTEEDLIG   43 (139)
T ss_dssp             EEEEESSSSSHHHHHHHHHHH--HTC---EEEEEE-TTTSTHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHHH--hhc---ceEEEEecccccccccee
Confidence            679999999999999999874  211   122356666667666543

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.

>PRK06090 DNA polymerase III subunit delta'; Validated

Probab=95.87  E-value=0.38  Score=44.89  Aligned_cols=150  Identities=9%  Similarity=0.068  Sum_probs=84.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcc-----cccc-------------ccccceEEEEec---CCCCHHHHHHHHHHHhhc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSD-----VRVH-------------NHFDLKAWTCVS---EDFDIIRVTKSILKSIAS  217 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~-----~~~~-------------~~F~~~~wv~vs---~~~~~~~~~~~il~~l~~  217 (385)
                      -...+-+.|+.|+||+++|..+..-     ....             ...+-..|+.-.   +...+..+ +++...+..
T Consensus        24 l~hA~L~~G~~G~Gk~~lA~~~a~~llC~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~p~~~~~~I~vdqi-R~l~~~~~~  102 (319)
T PRK06090         24 IPGALLLQSDEGLGVESLVELFSRALLCQNYQSEACGFCHSCELMQSGNHPDLHVIKPEKEGKSITVEQI-RQCNRLAQE  102 (319)
T ss_pred             cceeEeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCHHHHHHHcCCCCCEEEEecCcCCCcCCHHHH-HHHHHHHhh
Confidence            3468899999999999999776432     1000             011123344321   22333333 445444433


Q ss_pred             CCCCC---ccchHHhh--chhhHhhHhhhccCCCCCcEEEEEcCCh-hHHhhcCC-CCcccCCCCChhhHHhhhhccccC
Q 038448          218 DQLVD---DHDLNLLQ--KYNDWTNRSRLFEAGAPGSKIVFTTRNL-GVAEKMGP-LPAYPLKELSNDDCLSVFSPHSLG  290 (385)
Q Consensus       218 ~~~~~---~~~~~~l~--~~~~w~~l~~~l~~~~~gs~IivTTR~~-~va~~~~~-~~~~~l~~L~~~~a~~Lf~~~a~~  290 (385)
                      .....   .-.++...  +....+.+...+-.-..++.+|++|.+. .+...+.+ -..+.+.+++.++..+.+....  
T Consensus       103 ~~~~~~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~lLpTI~SRCq~~~~~~~~~~~~~~~L~~~~--  180 (319)
T PRK06090        103 SSQLNGYRLFVIEPADAMNESASNALLKTLEEPAPNCLFLLVTHNQKRLLPTIVSRCQQWVVTPPSTAQAMQWLKGQG--  180 (319)
T ss_pred             CcccCCceEEEecchhhhCHHHHHHHHHHhcCCCCCeEEEEEECChhhChHHHHhcceeEeCCCCCHHHHHHHHHHcC--
Confidence            22110   00111111  5566777777776656667777666554 44444433 3578999999999988776431  


Q ss_pred             CCCCCCCccHHHHHHHHHHHcCCChHHHHHH
Q 038448          291 EKDFSTHPSLKEIGEKIVKKCNGLPLVAKSL  321 (385)
Q Consensus       291 ~~~~~~~~~l~~~~~~i~~~c~glPLAi~~~  321 (385)
                       .     .    ....++..++|.|+....+
T Consensus       181 -~-----~----~~~~~l~l~~G~p~~A~~~  201 (319)
T PRK06090        181 -I-----T----VPAYALKLNMGSPLKTLAM  201 (319)
T ss_pred             -C-----c----hHHHHHHHcCCCHHHHHHH
Confidence             0     1    1346788999999876554

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=95.86  E-value=0.1  Score=55.57  Aligned_cols=41  Identities=24%  Similarity=0.334  Sum_probs=31.1

Q ss_pred             hhhhhHHHHHHHHhcCCCCCCCCceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          137 EKDKEKEETVKLLLRDDLRTDDGLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       137 ~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      +++.+...++..|....      ..-+.++|.+|+|||++|..+...
T Consensus       177 gr~~ei~~~~~~l~r~~------~~n~lL~G~pGvGKT~l~~~la~~  217 (852)
T TIGR03346       177 GRDEEIRRTIQVLSRRT------KNNPVLIGEPGVGKTAIVEGLAQR  217 (852)
T ss_pred             CcHHHHHHHHHHHhcCC------CCceEEEcCCCCCHHHHHHHHHHH
Confidence            34777888888886532      234558999999999999988764

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.

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

Probab=95.84  E-value=0.0069  Score=51.58  Aligned_cols=23  Identities=30%  Similarity=0.456  Sum_probs=20.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .++.|+|++|+|||||++.+...
T Consensus         2 ~~~~i~G~sGsGKttl~~~l~~~   24 (179)
T TIGR02322         2 RLIYVVGPSGAGKDTLLDYARAR   24 (179)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHH
Confidence            47899999999999999998764

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.

>PRK06305 DNA polymerase III subunits gamma and tau; Validated

Probab=95.83  E-value=0.18  Score=49.59  Aligned_cols=155  Identities=13%  Similarity=0.088  Sum_probs=78.4

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhccccc---------------------cccccceEEEEecCCCCHHHHHHHHHHHhhcC
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSDVRV---------------------HNHFDLKAWTCVSEDFDIIRVTKSILKSIASD  218 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~~~~---------------------~~~F~~~~wv~vs~~~~~~~~~~~il~~l~~~  218 (385)
                      ...+.++|++|+||||+|..+.+..--                     ..+++ .+++......... -.+++...+...
T Consensus        39 ~ha~Lf~Gp~G~GKtt~A~~lAk~l~c~~~~~~~~~c~~c~~C~~i~~~~~~d-~~~i~g~~~~gid-~ir~i~~~l~~~  116 (451)
T PRK06305         39 AHAYLFSGIRGTGKTTLARIFAKALNCQNPTEDQEPCNQCASCKEISSGTSLD-VLEIDGASHRGIE-DIRQINETVLFT  116 (451)
T ss_pred             ceEEEEEcCCCCCHHHHHHHHHHHhcCCCcccCCCCCcccHHHHHHhcCCCCc-eEEeeccccCCHH-HHHHHHHHHHhh
Confidence            366889999999999999877543110                     01122 2222211122222 233344333221


Q ss_pred             CC---C---CccchHHhhchhhHhhHhhhccCCCCCcEEEEEcCC-hhHHhhcC-CCCcccCCCCChhhHHhhhhccccC
Q 038448          219 QL---V---DDHDLNLLQKYNDWTNRSRLFEAGAPGSKIVFTTRN-LGVAEKMG-PLPAYPLKELSNDDCLSVFSPHSLG  290 (385)
Q Consensus       219 ~~---~---~~~~~~~l~~~~~w~~l~~~l~~~~~gs~IivTTR~-~~va~~~~-~~~~~~l~~L~~~~a~~Lf~~~a~~  290 (385)
                      ..   .   ..++.+.+ .....+.+...+........+|++|.. ..+...+. ....+++.+++.++....+...+-.
T Consensus       117 ~~~~~~kvvIIdead~l-t~~~~n~LLk~lEep~~~~~~Il~t~~~~kl~~tI~sRc~~v~f~~l~~~el~~~L~~~~~~  195 (451)
T PRK06305        117 PSKSRYKIYIIDEVHML-TKEAFNSLLKTLEEPPQHVKFFLATTEIHKIPGTILSRCQKMHLKRIPEETIIDKLALIAKQ  195 (451)
T ss_pred             hhcCCCEEEEEecHHhh-CHHHHHHHHHHhhcCCCCceEEEEeCChHhcchHHHHhceEEeCCCCCHHHHHHHHHHHHHH
Confidence            10   0   11112222 223345566666554446666666533 33322221 2256889999999987777654321


Q ss_pred             CCCCCCCccHHHHHHHHHHHcCCCh-HHHHHH
Q 038448          291 EKDFSTHPSLKEIGEKIVKKCNGLP-LVAKSL  321 (385)
Q Consensus       291 ~~~~~~~~~l~~~~~~i~~~c~glP-LAi~~~  321 (385)
                      . +..   --.+.+..|++.++|.+ .|+..+
T Consensus       196 e-g~~---i~~~al~~L~~~s~gdlr~a~~~L  223 (451)
T PRK06305        196 E-GIE---TSREALLPIARAAQGSLRDAESLY  223 (451)
T ss_pred             c-CCC---CCHHHHHHHHHHcCCCHHHHHHHH
Confidence            1 111   11456778999999965 444443

>TIGR03689 pup_AAA proteasome ATPase

Probab=95.83  E-value=0.044  Score=54.34  Aligned_cols=25  Identities=20%  Similarity=0.197  Sum_probs=22.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .++-+.++|++|.|||++|+.+++.
T Consensus       215 ~p~GILLyGPPGTGKT~LAKAlA~e  239 (512)
T TIGR03689       215 PPKGVLLYGPPGCGKTLIAKAVANS  239 (512)
T ss_pred             CCcceEEECCCCCcHHHHHHHHHHh
Confidence            3456889999999999999999986

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.

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

Probab=95.83  E-value=0.017  Score=60.63  Aligned_cols=45  Identities=18%  Similarity=0.253  Sum_probs=32.3

Q ss_pred             hhhHHHHHHHHhcCCCCCCCCceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          139 DKEKEETVKLLLRDDLRTDDGLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       139 ~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      +.-++.|+.+|..........-.++.++|++|+||||+|+.+...
T Consensus       328 ~~vK~~i~~~l~~~~~~~~~~g~~i~l~GppG~GKTtl~~~ia~~  372 (784)
T PRK10787        328 ERVKDRILEYLAVQSRVNKIKGPILCLVGPPGVGKTSLGQSIAKA  372 (784)
T ss_pred             HHHHHHHHHHHHHHHhcccCCCceEEEECCCCCCHHHHHHHHHHH
Confidence            666777888776321102223457999999999999999999864

>TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family

Probab=95.81  E-value=0.006  Score=52.13  Aligned_cols=22  Identities=23%  Similarity=0.274  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcc
Q 038448          162 VIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      +|.|+|++|+||||+|+.+...
T Consensus         1 ~i~i~G~pGsGKst~a~~la~~   22 (183)
T TIGR01359         1 VVFVLGGPGSGKGTQCAKIVEN   22 (183)
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            5789999999999999999764

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.

>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=95.80  E-value=0.0057  Score=54.04  Aligned_cols=22  Identities=32%  Similarity=0.431  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcc
Q 038448          162 VIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      +|+|.|.+|+||||||+.+...
T Consensus         1 IigI~G~sGSGKTTla~~L~~~   22 (220)
T cd02025           1 IIGIAGSVAVGKSTTARVLQAL   22 (220)
T ss_pred             CEEeeCCCCCCHHHHHHHHHHH
Confidence            5899999999999999998864

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

>cd01394 radB RadB

Probab=95.79  E-value=0.027  Score=49.60  Aligned_cols=43  Identities=16%  Similarity=0.045  Sum_probs=31.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecCCCC
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDFD  203 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~  203 (385)
                      .-.++.|.|.+|+||||||.++...  ....=..++|++....+.
T Consensus        18 ~g~i~~i~G~~GsGKT~l~~~~a~~--~~~~g~~v~yi~~e~~~~   60 (218)
T cd01394          18 RGTVTQVYGPPGTGKTNIAIQLAVE--TAGQGKKVAYIDTEGLSS   60 (218)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHH--HHhcCCeEEEEECCCCCH
Confidence            4578999999999999999998764  222233567887655443

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

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

Probab=95.78  E-value=0.026  Score=49.92  Aligned_cols=48  Identities=17%  Similarity=0.054  Sum_probs=35.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhccccccccc------cceEEEEecCCCCHHHHH
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSDVRVHNHF------DLKAWTCVSEDFDIIRVT  208 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F------~~~~wv~vs~~~~~~~~~  208 (385)
                      .-.++.|+|.+|+|||+||..+....  ...-      ..++|++....++...+.
T Consensus        18 ~g~v~~I~G~~GsGKT~l~~~ia~~~--~~~~~~~g~~~~v~yi~~e~~~~~~rl~   71 (226)
T cd01393          18 TGRITEIFGEFGSGKTQLCLQLAVEA--QLPGELGGLEGKVVYIDTEGAFRPERLV   71 (226)
T ss_pred             CCcEEEEeCCCCCChhHHHHHHHHHh--hcccccCCCcceEEEEecCCCCCHHHHH
Confidence            45799999999999999999886542  1222      457899887777665443

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.

>PRK00131 aroK shikimate kinase; Reviewed

Probab=95.78  E-value=0.0081  Score=50.67  Aligned_cols=24  Identities=29%  Similarity=0.292  Sum_probs=21.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ...|.++|++|+||||+|+.+...
T Consensus         4 ~~~i~l~G~~GsGKstla~~La~~   27 (175)
T PRK00131          4 GPNIVLIGFMGAGKSTIGRLLAKR   27 (175)
T ss_pred             CCeEEEEcCCCCCHHHHHHHHHHH
Confidence            468999999999999999999874

>PRK06647 DNA polymerase III subunits gamma and tau; Validated

Probab=95.78  E-value=0.22  Score=50.41  Aligned_cols=169  Identities=14%  Similarity=0.082  Sum_probs=87.9

Q ss_pred             hHHHHHHHHhcCCCCCCCCceEEEEEcCCCCcHHHHHHHHhcccccc--------------------ccccceEEEEecC
Q 038448          141 EKEETVKLLLRDDLRTDDGLSVIPIIGTGRIGKTTLAQLAYSDVRVH--------------------NHFDLKAWTCVSE  200 (385)
Q Consensus       141 ~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~--------------------~~F~~~~wv~vs~  200 (385)
                      -++.+.+++..+     .-...+.++|+.|+||||+|+.+.+..--.                    .+++ .+++....
T Consensus        24 iv~~L~~~i~~~-----~i~hayLf~Gp~G~GKTt~Ar~lAk~L~c~~~~~~~pC~~C~~C~~i~~~~~~d-v~~idgas   97 (563)
T PRK06647         24 VVETLKHSIESN-----KIANAYIFSGPRGVGKTSSARAFARCLNCVNGPTPMPCGECSSCKSIDNDNSLD-VIEIDGAS   97 (563)
T ss_pred             HHHHHHHHHHcC-----CCCeEEEEECCCCCCHHHHHHHHHHhhccccCCCCCCCccchHHHHHHcCCCCC-eEEecCcc
Confidence            344556666432     234578899999999999998887642111                    1122 23333222


Q ss_pred             CCCHHHHHHHHHHHhhcCCCC---CccchHHhh--chhhHhhHhhhccCCCCCcEEEEEcCC-hhHHhhcC-CCCcccCC
Q 038448          201 DFDIIRVTKSILKSIASDQLV---DDHDLNLLQ--KYNDWTNRSRLFEAGAPGSKIVFTTRN-LGVAEKMG-PLPAYPLK  273 (385)
Q Consensus       201 ~~~~~~~~~~il~~l~~~~~~---~~~~~~~l~--~~~~w~~l~~~l~~~~~gs~IivTTR~-~~va~~~~-~~~~~~l~  273 (385)
                      ...+..+ +++...+......   ..--+++..  ....++.+...+......+.+|++|.. ..+...+. ....+++.
T Consensus        98 ~~~vddI-r~l~e~~~~~p~~~~~KVvIIDEa~~Ls~~a~naLLK~LEepp~~~vfI~~tte~~kL~~tI~SRc~~~~f~  176 (563)
T PRK06647         98 NTSVQDV-RQIKEEIMFPPASSRYRVYIIDEVHMLSNSAFNALLKTIEEPPPYIVFIFATTEVHKLPATIKSRCQHFNFR  176 (563)
T ss_pred             cCCHHHH-HHHHHHHHhchhcCCCEEEEEEChhhcCHHHHHHHHHhhccCCCCEEEEEecCChHHhHHHHHHhceEEEec
Confidence            2333333 3344332221110   011111111  334566677776654456666655543 33433222 22468889


Q ss_pred             CCChhhHHhhhhccccCCCCCCCCccHHHHHHHHHHHcCCChHHHHH
Q 038448          274 ELSNDDCLSVFSPHSLGEKDFSTHPSLKEIGEKIVKKCNGLPLVAKS  320 (385)
Q Consensus       274 ~L~~~~a~~Lf~~~a~~~~~~~~~~~l~~~~~~i~~~c~glPLAi~~  320 (385)
                      +++.++-...+...+.... ..   --.+.+..|++.++|.+-.+..
T Consensus       177 ~l~~~el~~~L~~i~~~eg-i~---id~eAl~lLa~~s~GdlR~als  219 (563)
T PRK06647        177 LLSLEKIYNMLKKVCLEDQ-IK---YEDEALKWIAYKSTGSVRDAYT  219 (563)
T ss_pred             CCCHHHHHHHHHHHHHHcC-CC---CCHHHHHHHHHHcCCCHHHHHH
Confidence            9999888777766542221 11   1135566788888887754433

>PRK08058 DNA polymerase III subunit delta'; Validated

Probab=95.76  E-value=0.18  Score=47.54  Aligned_cols=127  Identities=9%  Similarity=0.062  Sum_probs=68.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcccccc--------------------ccccceEEEEec-CCCCHHHHHHHHHHHhhc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSDVRVH--------------------NHFDLKAWTCVS-EDFDIIRVTKSILKSIAS  217 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~--------------------~~F~~~~wv~vs-~~~~~~~~~~~il~~l~~  217 (385)
                      -.....++|+.|+||||+|..+.+..--.                    .|.| ..++... ....+ +-.+++...+..
T Consensus        27 l~ha~Lf~G~~G~gk~~~a~~la~~l~c~~~~~~~~cg~C~~c~~~~~~~hpD-~~~i~~~~~~i~i-d~ir~l~~~~~~  104 (329)
T PRK08058         27 LSHAYLFEGAKGTGKKATALWLAKSLFCLERNGVEPCGTCTNCKRIDSGNHPD-VHLVAPDGQSIKK-DQIRYLKEEFSK  104 (329)
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCcCHHHHHHhcCCCCC-EEEeccccccCCH-HHHHHHHHHHhh
Confidence            35677999999999999998774431000                    0222 2223222 22223 233444444432


Q ss_pred             CCCC---CccchHHhh--chhhHhhHhhhccCCCCCcEEEEEcCCh-hHHhhcC-CCCcccCCCCChhhHHhhhhcc
Q 038448          218 DQLV---DDHDLNLLQ--KYNDWTNRSRLFEAGAPGSKIVFTTRNL-GVAEKMG-PLPAYPLKELSNDDCLSVFSPH  287 (385)
Q Consensus       218 ~~~~---~~~~~~~l~--~~~~w~~l~~~l~~~~~gs~IivTTR~~-~va~~~~-~~~~~~l~~L~~~~a~~Lf~~~  287 (385)
                      ....   ..--++...  +.+..+.+...+..-..++.+|++|.+. .+...+. ....+++.+++.++....+...
T Consensus       105 ~~~~~~~kvviI~~a~~~~~~a~NaLLK~LEEPp~~~~~Il~t~~~~~ll~TIrSRc~~i~~~~~~~~~~~~~L~~~  181 (329)
T PRK08058        105 SGVESNKKVYIIEHADKMTASAANSLLKFLEEPSGGTTAILLTENKHQILPTILSRCQVVEFRPLPPESLIQRLQEE  181 (329)
T ss_pred             CCcccCceEEEeehHhhhCHHHHHHHHHHhcCCCCCceEEEEeCChHhCcHHHHhhceeeeCCCCCHHHHHHHHHHc
Confidence            2210   011111111  3445566777776656677777777653 3333332 2367899999999987777643

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

Probab=95.76  E-value=0.025  Score=54.51  Aligned_cols=25  Identities=24%  Similarity=0.208  Sum_probs=22.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ..+-+.++|++|.|||+||+.+.+.
T Consensus       178 ~pkgvLL~GppGTGKT~LAkalA~~  202 (398)
T PTZ00454        178 PPRGVLLYGPPGTGKTMLAKAVAHH  202 (398)
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHh
Confidence            4567889999999999999999985

>PRK10751 molybdopterin-guanine dinucleotide biosynthesis protein B; Provisional

Probab=95.75  E-value=0.01  Score=50.01  Aligned_cols=25  Identities=24%  Similarity=0.252  Sum_probs=22.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ...+++|+|..|+|||||+..+...
T Consensus         5 ~~~ii~ivG~sgsGKTTLi~~li~~   29 (173)
T PRK10751          5 MIPLLAIAAWSGTGKTTLLKKLIPA   29 (173)
T ss_pred             CceEEEEECCCCChHHHHHHHHHHH
Confidence            5679999999999999999998864

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

Probab=95.74  E-value=0.012  Score=50.38  Aligned_cols=36  Identities=22%  Similarity=0.277  Sum_probs=28.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhccccccccccceEEEE
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTC  197 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~  197 (385)
                      .++|.|+|+.|+|||||+..+...  ....|...++.+
T Consensus         2 ~r~ivl~Gpsg~GK~~l~~~L~~~--~~~~~~~~v~~T   37 (183)
T PF00625_consen    2 RRPIVLVGPSGSGKSTLAKRLIQE--FPDKFGRVVSHT   37 (183)
T ss_dssp             SSEEEEESSTTSSHHHHHHHHHHH--STTTEEEEEEEE
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHh--cccccccceeec
Confidence            378999999999999999999884  556675555444

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 ....

>PRK00625 shikimate kinase; Provisional

Probab=95.74  E-value=0.0074  Score=51.15  Aligned_cols=22  Identities=23%  Similarity=0.241  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcc
Q 038448          162 VIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .|.++||+|+||||+++.+.+.
T Consensus         2 ~I~LiG~pGsGKTT~~k~La~~   23 (173)
T PRK00625          2 QIFLCGLPTVGKTSFGKALAKF   23 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            4789999999999999999764

>PRK09361 radB DNA repair and recombination protein RadB; Provisional

Probab=95.73  E-value=0.028  Score=49.84  Aligned_cols=46  Identities=13%  Similarity=0.073  Sum_probs=34.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecCCCCHHHH
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDFDIIRV  207 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~  207 (385)
                      .-.++.|+|.+|+|||+||.++...  ....-..++|++.. .++...+
T Consensus        22 ~g~i~~i~G~~GsGKT~l~~~la~~--~~~~~~~v~yi~~e-~~~~~r~   67 (225)
T PRK09361         22 RGTITQIYGPPGSGKTNICLQLAVE--AAKNGKKVIYIDTE-GLSPERF   67 (225)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHH--HHHCCCeEEEEECC-CCCHHHH
Confidence            4479999999999999999988764  22334567899876 5555443

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

Probab=95.71  E-value=0.007  Score=51.89  Aligned_cols=22  Identities=41%  Similarity=0.465  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcc
Q 038448          162 VIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      +|+|.|.+|+||||||+.+...
T Consensus         1 ii~i~G~sgsGKTtla~~l~~~   22 (187)
T cd02024           1 IVGISGVTNSGKTTLAKLLQRI   22 (187)
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            5899999999999999999874

This enzyme catalyzes the phosphorylation of nicotinamide riboside (NR) to form nicotinamide mononucleotide (NMN). It defines the NR salvage pathway of NAD+ biosynthesis in addition to the pathways through nicotinic acid mononucleotide (NaMN). This enzyme can also phosphorylate the anticancer drug tiazofurin, which is an analog of nicotinamide riboside.

>TIGR03263 guanyl_kin guanylate kinase

Probab=95.70  E-value=0.0089  Score=50.92  Aligned_cols=23  Identities=30%  Similarity=0.482  Sum_probs=21.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ++|.|+|++|+|||||++.+...
T Consensus         2 ~ii~l~G~~GsGKsTl~~~L~~~   24 (180)
T TIGR03263         2 LLIVISGPSGVGKSTLVKALLEE   24 (180)
T ss_pred             cEEEEECCCCCCHHHHHHHHHcc
Confidence            57999999999999999999874

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.

>PRK05439 pantothenate kinase; Provisional

Probab=95.68  E-value=0.039  Score=51.17  Aligned_cols=26  Identities=31%  Similarity=0.355  Sum_probs=22.9

Q ss_pred             CCCceEEEEEcCCCCcHHHHHHHHhc
Q 038448          157 DDGLSVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       157 ~~~~~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      ....-+|+|.|.+|+||||+|..+..
T Consensus        83 ~~~~~iIgIaG~~gsGKSTla~~L~~  108 (311)
T PRK05439         83 QKVPFIIGIAGSVAVGKSTTARLLQA  108 (311)
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHH
Confidence            35678999999999999999988865

>PRK00889 adenylylsulfate kinase; Provisional

Probab=95.66  E-value=0.011  Score=50.20  Aligned_cols=24  Identities=25%  Similarity=0.205  Sum_probs=21.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      -.+|.|+|++|+||||+|+.+...
T Consensus         4 g~~i~~~G~~GsGKST~a~~la~~   27 (175)
T PRK00889          4 GVTVWFTGLSGAGKTTIARALAEK   27 (175)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHH
Confidence            469999999999999999999874

>PRK06871 DNA polymerase III subunit delta'; Validated

Probab=95.65  E-value=0.36  Score=45.23  Aligned_cols=149  Identities=8%  Similarity=0.038  Sum_probs=81.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhccc-----ccccc--------------ccceEEEEe--cCCCCHHHHHHHHHHHhhcC
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSDV-----RVHNH--------------FDLKAWTCV--SEDFDIIRVTKSILKSIASD  218 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~~-----~~~~~--------------F~~~~wv~v--s~~~~~~~~~~~il~~l~~~  218 (385)
                      ...+.+.|+.|+||+++|..+..-.     .....              .+-..++.-  +....+ +-.+++.+.+...
T Consensus        24 ~HA~Lf~G~~G~GK~~lA~~~A~~llC~~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~p~~~~~I~i-d~iR~l~~~~~~~  102 (325)
T PRK06871         24 HHALLFKADSGLGTEQLIRALAQWLMCQTPQGDQPCGQCHSCHLFQAGNHPDFHILEPIDNKDIGV-DQVREINEKVSQH  102 (325)
T ss_pred             ceeEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHhcCCCCCEEEEccccCCCCCH-HHHHHHHHHHhhc
Confidence            4678899999999999998764321     10000              011222321  111222 2334555554433


Q ss_pred             CCCCc---cchHHhh--chhhHhhHhhhccCCCCCcEEEEEcCCh-hHHhhcCC-CCcccCCCCChhhHHhhhhccccCC
Q 038448          219 QLVDD---HDLNLLQ--KYNDWTNRSRLFEAGAPGSKIVFTTRNL-GVAEKMGP-LPAYPLKELSNDDCLSVFSPHSLGE  291 (385)
Q Consensus       219 ~~~~~---~~~~~l~--~~~~w~~l~~~l~~~~~gs~IivTTR~~-~va~~~~~-~~~~~l~~L~~~~a~~Lf~~~a~~~  291 (385)
                      .....   --++...  +....+.+...+-.-..++.+|++|.+. .+...+.+ -..+.+.+++.++..+.+.... ..
T Consensus       103 ~~~g~~KV~iI~~a~~m~~~AaNaLLKtLEEPp~~~~fiL~t~~~~~llpTI~SRC~~~~~~~~~~~~~~~~L~~~~-~~  181 (325)
T PRK06871        103 AQQGGNKVVYIQGAERLTEAAANALLKTLEEPRPNTYFLLQADLSAALLPTIYSRCQTWLIHPPEEQQALDWLQAQS-SA  181 (325)
T ss_pred             cccCCceEEEEechhhhCHHHHHHHHHHhcCCCCCeEEEEEECChHhCchHHHhhceEEeCCCCCHHHHHHHHHHHh-cc
Confidence            32110   0111111  4556666777776656677777777654 44433332 3678999999999988777542 10


Q ss_pred             CCCCCCccHHHHHHHHHHHcCCChHHH
Q 038448          292 KDFSTHPSLKEIGEKIVKKCNGLPLVA  318 (385)
Q Consensus       292 ~~~~~~~~l~~~~~~i~~~c~glPLAi  318 (385)
                            +  ...+...+..++|.|+.+
T Consensus       182 ------~--~~~~~~~~~l~~g~p~~A  200 (325)
T PRK06871        182 ------E--ISEILTALRINYGRPLLA  200 (325)
T ss_pred             ------C--hHHHHHHHHHcCCCHHHH
Confidence                  1  112456788899999633

>TIGR00150 HI0065_YjeE ATPase, YjeE family

Probab=95.65  E-value=0.021  Score=45.93  Aligned_cols=25  Identities=32%  Similarity=0.275  Sum_probs=22.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhccc
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSDV  184 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~~  184 (385)
                      -.+|.+.|.-|.|||||++.+....
T Consensus        22 ~~~i~l~G~lGaGKTtl~~~l~~~l   46 (133)
T TIGR00150        22 GTVVLLKGDLGAGKTTLVQGLLQGL   46 (133)
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHc
Confidence            3589999999999999999998753

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.

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

Probab=95.64  E-value=0.0069  Score=46.93  Aligned_cols=21  Identities=48%  Similarity=0.488  Sum_probs=18.2

Q ss_pred             EEEEcCCCCcHHHHHHHHhcc
Q 038448          163 IPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       163 i~I~G~gGiGKTtLA~~v~~~  183 (385)
                      |-|+|.+|+|||+||..+..+
T Consensus         1 I~i~G~~G~GKS~l~~~l~~~   21 (107)
T PF00910_consen    1 IWIYGPPGIGKSTLAKELAKD   21 (107)
T ss_pred             CEEECCCCCCHHHHHHHHHHH
Confidence            468999999999999997754

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

>PRK10865 protein disaggregation chaperone; Provisional

Probab=95.63  E-value=0.16  Score=54.08  Aligned_cols=40  Identities=25%  Similarity=0.353  Sum_probs=31.4

Q ss_pred             hhhhHHHHHHHHhcCCCCCCCCceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          138 KDKEKEETVKLLLRDDLRTDDGLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       138 ~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ++.+...+++.|....      ..-+.++|.+|+|||++|..+...
T Consensus       183 r~~ei~~~i~iL~r~~------~~n~lL~G~pGvGKT~l~~~la~~  222 (857)
T PRK10865        183 RDEEIRRTIQVLQRRT------KNNPVLIGEPGVGKTAIVEGLAQR  222 (857)
T ss_pred             CHHHHHHHHHHHhcCC------cCceEEECCCCCCHHHHHHHHHHH
Confidence            3778888888886643      244669999999999999888764

>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=95.62  E-value=0.0081  Score=51.28  Aligned_cols=22  Identities=36%  Similarity=0.451  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcc
Q 038448          162 VIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      +|+|.|.+|+||||||..+...
T Consensus         1 ii~i~G~sgsGKttla~~l~~~   22 (179)
T cd02028           1 VVGIAGPSGSGKTTFAKKLSNQ   22 (179)
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            5899999999999999998864

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

>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=95.61  E-value=0.011  Score=48.84  Aligned_cols=34  Identities=26%  Similarity=0.069  Sum_probs=25.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhccccccccccceEEE
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWT  196 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv  196 (385)
                      .||-|.|.+|.||||||+.+...  ....-..+.++
T Consensus         3 ~vIwltGlsGsGKtTlA~~L~~~--L~~~g~~~~~L   36 (156)
T PF01583_consen    3 FVIWLTGLSGSGKTTLARALERR--LFARGIKVYLL   36 (156)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHH--HHHTTS-EEEE
T ss_pred             EEEEEECCCCCCHHHHHHHHHHH--HHHcCCcEEEe
Confidence            68999999999999999999875  33333344444

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 ....

>KOG0730 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=95.60  E-value=0.098  Score=52.36  Aligned_cols=123  Identities=10%  Similarity=0.022  Sum_probs=66.1

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHhccccccccccce-------EEEEecCCCCHHHHHHHHHHHhhcCCCCCccchHHhh
Q 038448          158 DGLSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLK-------AWTCVSEDFDIIRVTKSILKSIASDQLVDDHDLNLLQ  230 (385)
Q Consensus       158 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~-------~wv~vs~~~~~~~~~~~il~~l~~~~~~~~~~~~~l~  230 (385)
                      ..++=|..+|+||.|||++|+.+.+.  ..-.|=.+       -||.     ..++.+.++.++.....+ ...-++++.
T Consensus       466 ~ppkGVLlyGPPGC~KT~lAkalAne--~~~nFlsvkgpEL~sk~vG-----eSEr~ir~iF~kAR~~aP-~IiFfDEiD  537 (693)
T KOG0730|consen  466 SPPKGVLLYGPPGCGKTLLAKALANE--AGMNFLSVKGPELFSKYVG-----ESERAIREVFRKARQVAP-CIIFFDEID  537 (693)
T ss_pred             CCCceEEEECCCCcchHHHHHHHhhh--hcCCeeeccCHHHHHHhcC-----chHHHHHHHHHHHhhcCC-eEEehhhHH
Confidence            45677899999999999999999985  44445211       2332     345667777766654443 222222222


Q ss_pred             -------------chhhHhhHhhhccCCCCCcEEEE---EcCChhHHh-hcCC---CCcccCCCCChhhHHhhhhccc
Q 038448          231 -------------KYNDWTNRSRLFEAGAPGSKIVF---TTRNLGVAE-KMGP---LPAYPLKELSNDDCLSVFSPHS  288 (385)
Q Consensus       231 -------------~~~~w~~l~~~l~~~~~gs~Iiv---TTR~~~va~-~~~~---~~~~~l~~L~~~~a~~Lf~~~a  288 (385)
                                   ......++..-+........|+|   |-|...+-. .+.+   +..+.+..-+.+--.++|+.++
T Consensus       538 si~~~R~g~~~~v~~RVlsqLLtEmDG~e~~k~V~ViAATNRpd~ID~ALlRPGRlD~iiyVplPD~~aR~~Ilk~~~  615 (693)
T KOG0730|consen  538 ALAGSRGGSSSGVTDRVLSQLLTEMDGLEALKNVLVIAATNRPDMIDPALLRPGRLDRIIYVPLPDLEARLEILKQCA  615 (693)
T ss_pred             hHhhccCCCccchHHHHHHHHHHHcccccccCcEEEEeccCChhhcCHHHcCCcccceeEeecCccHHHHHHHHHHHH
Confidence                         12233334444433333334433   333222221 1222   2455566666666688888776

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

Probab=95.60  E-value=0.0098  Score=53.01  Aligned_cols=26  Identities=31%  Similarity=0.359  Sum_probs=23.3

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          158 DGLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       158 ~~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      +.+..|.++||+|.||||..|.++.+
T Consensus        17 ~~p~~ilVvGMAGSGKTTF~QrL~~h   42 (366)
T KOG1532|consen   17 QRPVIILVVGMAGSGKTTFMQRLNSH   42 (366)
T ss_pred             cCCcEEEEEecCCCCchhHHHHHHHH
Confidence            45678899999999999999999886

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

Probab=95.55  E-value=0.0092  Score=49.17  Aligned_cols=22  Identities=23%  Similarity=0.425  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcc
Q 038448          162 VIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ++.++|++|+||||+|+.+...
T Consensus         1 li~l~G~~GsGKST~a~~l~~~   22 (150)
T cd02021           1 IIVVMGVSGSGKSTVGKALAER   22 (150)
T ss_pred             CEEEEcCCCCCHHHHHHHHHhh
Confidence            4789999999999999999774

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

>cd00227 CPT Chloramphenicol (Cm) phosphotransferase (CPT)

Probab=95.54  E-value=0.01  Score=50.39  Aligned_cols=23  Identities=26%  Similarity=0.348  Sum_probs=20.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ++|.+.|++|+||||+|+.+...
T Consensus         3 ~~i~l~G~~gsGKst~a~~l~~~   25 (175)
T cd00227           3 RIIILNGGSSAGKSSIARALQSV   25 (175)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHh
Confidence            58999999999999999999764

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

>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=95.54  E-value=0.042  Score=45.72  Aligned_cols=37  Identities=24%  Similarity=0.407  Sum_probs=30.2

Q ss_pred             hhhHHHHHHHHhcCCCCCCCCceEEEEEcCCCCcHHHHHHHHhccc
Q 038448          139 DKEKEETVKLLLRDDLRTDDGLSVIPIIGTGRIGKTTLAQLAYSDV  184 (385)
Q Consensus       139 ~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  184 (385)
                      .+..+++.++|.        + +++.++|..|+|||||...+..+.
T Consensus        23 ~~g~~~l~~~l~--------~-k~~vl~G~SGvGKSSLiN~L~~~~   59 (161)
T PF03193_consen   23 GEGIEELKELLK--------G-KTSVLLGQSGVGKSSLINALLPEA   59 (161)
T ss_dssp             TTTHHHHHHHHT--------T-SEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             CcCHHHHHHHhc--------C-CEEEEECCCCCCHHHHHHHHHhhc
Confidence            455677777772        3 799999999999999999998863

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.

>PRK06217 hypothetical protein; Validated

Probab=95.53  E-value=0.0095  Score=51.01  Aligned_cols=34  Identities=29%  Similarity=0.406  Sum_probs=25.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHhccccccccc--cceEEE
Q 038448          162 VIPIIGTGRIGKTTLAQLAYSDVRVHNHF--DLKAWT  196 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v~~~~~~~~~F--~~~~wv  196 (385)
                      .|.|.|.+|+||||||+.+...... .+|  |..+|.
T Consensus         3 ~I~i~G~~GsGKSTla~~L~~~l~~-~~~~~D~~~~~   38 (183)
T PRK06217          3 RIHITGASGSGTTTLGAALAERLDI-PHLDTDDYFWL   38 (183)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcCC-cEEEcCceeec
Confidence            5899999999999999999875322 233  445554

>PRK14738 gmk guanylate kinase; Provisional

Probab=95.53  E-value=0.012  Score=51.36  Aligned_cols=26  Identities=15%  Similarity=0.190  Sum_probs=22.8

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          158 DGLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       158 ~~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ...+.|.|+|++|+|||||+..+...
T Consensus        11 ~~~~~ivi~GpsG~GK~tl~~~L~~~   36 (206)
T PRK14738         11 AKPLLVVISGPSGVGKDAVLARMRER   36 (206)
T ss_pred             CCCeEEEEECcCCCCHHHHHHHHHhc
Confidence            46688999999999999999999753

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

Probab=95.51  E-value=0.012  Score=48.05  Aligned_cols=39  Identities=18%  Similarity=0.342  Sum_probs=26.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecC
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSE  200 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~  200 (385)
                      ++|.|+|..|+|||||++.+.+.. .+..+...+..+...
T Consensus         1 pvv~VvG~~~sGKTTl~~~Li~~l-~~~g~~v~~ik~~~~   39 (140)
T PF03205_consen    1 PVVQVVGPKNSGKTTLIRKLINEL-KRRGYRVAVIKHTDH   39 (140)
T ss_dssp             -EEEEEESTTSSHHHHHHHHHHHH-HHTT--EEEEEE-ST
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHH-hHcCCceEEEEEccC
Confidence            489999999999999999999863 234455444555443

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

Probab=95.51  E-value=0.011  Score=49.28  Aligned_cols=20  Identities=45%  Similarity=0.645  Sum_probs=18.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHh
Q 038448          162 VIPIIGTGRIGKTTLAQLAY  181 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v~  181 (385)
                      .|+|.|.||+||||++..+-
T Consensus         2 ~I~ITGTPGvGKTT~~~~L~   21 (180)
T COG1936           2 LIAITGTPGVGKTTVCKLLR   21 (180)
T ss_pred             eEEEeCCCCCchHHHHHHHH
Confidence            58999999999999998886

>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=95.48  E-value=0.012  Score=46.14  Aligned_cols=22  Identities=27%  Similarity=0.462  Sum_probs=19.8

Q ss_pred             EEEEcCCCCcHHHHHHHHhccc
Q 038448          163 IPIIGTGRIGKTTLAQLAYSDV  184 (385)
Q Consensus       163 i~I~G~gGiGKTtLA~~v~~~~  184 (385)
                      |.|+|..|+|||||.+.+....
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            7899999999999999998754

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.

>TIGR02236 recomb_radA DNA repair and recombination protein RadA

Probab=95.48  E-value=0.048  Score=50.95  Aligned_cols=56  Identities=13%  Similarity=0.162  Sum_probs=39.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcccccccc----ccceEEEEecCCCCHHHHHHHHHHHh
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSDVRVHNH----FDLKAWTCVSEDFDIIRVTKSILKSI  215 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~----F~~~~wv~vs~~~~~~~~~~~il~~l  215 (385)
                      .-.++-|+|.+|+|||||+.+++-.......    =..++||+....|+..++. +++..+
T Consensus        94 ~g~i~ei~G~~g~GKT~l~~~~~~~~~~~~~~g~~~~~~~yi~te~~f~~~rl~-~~~~~~  153 (310)
T TIGR02236        94 TQAITEVFGEFGSGKTQICHQLAVNVQLPEEKGGLGGKAVYIDTENTFRPERIM-QMAEAR  153 (310)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHhcCCcccCCCcceEEEEECCCCCCHHHHH-HHHHHc
Confidence            4588899999999999999988754222111    1268999988888877654 344443

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.

>PRK03846 adenylylsulfate kinase; Provisional

Probab=95.46  E-value=0.014  Score=50.70  Aligned_cols=26  Identities=23%  Similarity=0.133  Sum_probs=22.9

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          158 DGLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       158 ~~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      +...+|.|+|++|+||||||+.+...
T Consensus        22 ~~~~~i~i~G~~GsGKSTla~~l~~~   47 (198)
T PRK03846         22 HKGVVLWFTGLSGSGKSTVAGALEEA   47 (198)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            45689999999999999999999763

>PRK15455 PrkA family serine protein kinase; Provisional

Probab=95.44  E-value=0.013  Score=58.26  Aligned_cols=44  Identities=18%  Similarity=0.246  Sum_probs=30.8

Q ss_pred             hhhHHHHHHHHhcCCCCCCCCceEEEEEcCCCCcHHHHHHHHhc
Q 038448          139 DKEKEETVKLLLRDDLRTDDGLSVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       139 ~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      ++.++.|++.|...-..-...-+++.++|++|+||||||+.+..
T Consensus        82 ee~ieriv~~l~~Aa~gl~~~~~IL~LvGPpG~GKSsLa~~la~  125 (644)
T PRK15455         82 EEAIEQIVSYFRHAAQGLEEKKQILYLLGPVGGGKSSLAERLKS  125 (644)
T ss_pred             HHHHHHHHHHHHHHHHhcCCCCceEEEecCCCCCchHHHHHHHH
Confidence            55666777776321100123447999999999999999999876

>PRK10865 protein disaggregation chaperone; Provisional

Probab=95.44  E-value=0.7  Score=49.37  Aligned_cols=45  Identities=16%  Similarity=0.223  Sum_probs=30.3

Q ss_pred             hhhHHHHHHHHhcCC---CCCCCCceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          139 DKEKEETVKLLLRDD---LRTDDGLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       139 ~~~~~~l~~~L~~~~---~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      +...+.+.+.+....   ...+....++.++|++|+|||+||+.+.+.
T Consensus       574 ~~ai~~l~~~i~~~~~gl~~~~~p~~~~Lf~Gp~G~GKT~lA~aLa~~  621 (857)
T PRK10865        574 NEAVEAVSNAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELCKALANF  621 (857)
T ss_pred             HHHHHHHHHHHHHHHhcccCCCCCCceEEEECCCCCCHHHHHHHHHHH
Confidence            555666666664321   101223457889999999999999998763

>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=95.43  E-value=0.011  Score=48.42  Aligned_cols=22  Identities=36%  Similarity=0.496  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcc
Q 038448          162 VIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      +|.|.|.+|+||||+|+.+...
T Consensus         1 ~I~i~G~~GsGKst~a~~la~~   22 (147)
T cd02020           1 IIAIDGPAGSGKSTVAKLLAKK   22 (147)
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            5899999999999999999864

>KOG0728 consensus 26S proteasome regulatory complex, ATPase RPT6 [Posttranslational modification, protein turnover, chaperones]

Probab=95.42  E-value=0.32  Score=43.10  Aligned_cols=37  Identities=22%  Similarity=0.140  Sum_probs=28.9

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecCC
Q 038448          158 DGLSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSED  201 (385)
Q Consensus       158 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~  201 (385)
                      .+++=+.++|++|.|||-||+.|+++       .++-|+.||..
T Consensus       179 aQPKGvlLygppgtGktLlaraVahh-------t~c~firvsgs  215 (404)
T KOG0728|consen  179 AQPKGVLLYGPPGTGKTLLARAVAHH-------TDCTFIRVSGS  215 (404)
T ss_pred             CCCcceEEecCCCCchhHHHHHHHhh-------cceEEEEechH
Confidence            45677889999999999999999985       23445667653

>PRK00300 gmk guanylate kinase; Provisional

Probab=95.42  E-value=0.012  Score=51.28  Aligned_cols=24  Identities=25%  Similarity=0.289  Sum_probs=21.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      -.+|+|+|++|+|||||++.+...
T Consensus         5 g~~i~i~G~sGsGKstl~~~l~~~   28 (205)
T PRK00300          5 GLLIVLSGPSGAGKSTLVKALLER   28 (205)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhh
Confidence            368999999999999999999874

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

Probab=95.40  E-value=0.011  Score=50.24  Aligned_cols=22  Identities=36%  Similarity=0.404  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcc
Q 038448          162 VIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .|.|.|.+|.||||+|+.+.+.
T Consensus         2 riiilG~pGaGK~T~A~~La~~   23 (178)
T COG0563           2 RILILGPPGAGKSTLAKKLAKK   23 (178)
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            4789999999999999999875

>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=95.40  E-value=0.018  Score=51.24  Aligned_cols=36  Identities=28%  Similarity=0.240  Sum_probs=29.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEe
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCV  198 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v  198 (385)
                      -.++|+|..|+|||||...+..+  ....|..+++++-
T Consensus        14 fr~viIG~sGSGKT~li~~lL~~--~~~~f~~I~l~t~   49 (241)
T PF04665_consen   14 FRMVIIGKSGSGKTTLIKSLLYY--LRHKFDHIFLITP   49 (241)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHh--hcccCCEEEEEec
Confidence            46789999999999999998875  6778877777653

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

>COG0194 Gmk Guanylate kinase [Nucleotide transport and metabolism]

Probab=95.39  E-value=0.02  Score=48.39  Aligned_cols=23  Identities=30%  Similarity=0.494  Sum_probs=21.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .++.|.|++|+|||||++.++.+
T Consensus         5 ~l~vlsgPSG~GKsTl~k~L~~~   27 (191)
T COG0194           5 LLIVLSGPSGVGKSTLVKALLED   27 (191)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhh
Confidence            67899999999999999999986

>cd01120 RecA-like_NTPases RecA-like NTPases

Probab=95.39  E-value=0.014  Score=48.26  Aligned_cols=38  Identities=24%  Similarity=0.267  Sum_probs=27.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecCC
Q 038448          162 VIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSED  201 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~  201 (385)
                      ++.|+|.+|+||||++..+....  ...-..++|++....
T Consensus         1 ~~~i~G~~G~GKT~l~~~i~~~~--~~~~~~v~~~~~e~~   38 (165)
T cd01120           1 LILVFGPTGSGKTTLALQLALNI--ATKGGKVVYVDIEEE   38 (165)
T ss_pred             CeeEeCCCCCCHHHHHHHHHHHH--HhcCCEEEEEECCcc
Confidence            46899999999999999987752  223345667766544

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.

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

Probab=95.37  E-value=0.015  Score=47.98  Aligned_cols=48  Identities=21%  Similarity=0.196  Sum_probs=31.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecCCCCHHHHHHHHHHHhhcCC
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDFDIIRVTKSILKSIASDQ  219 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~il~~l~~~~  219 (385)
                      .+++.|+|.+|+||||+...+-..  .  .|...        -+...++-+++...+...
T Consensus         4 ~kvvvitGVpGvGKTTVl~~~~~~--l--~~~~i--------vNyG~~Mle~A~k~glve   51 (189)
T COG2019           4 RKVVVITGVPGVGKTTVLKIALKE--L--VKHKI--------VNYGDLMLEIAKKKGLVE   51 (189)
T ss_pred             ceEEEEEcCCCCChHHHHHHHHHH--H--hhcee--------eeHhHHHHHHHHHhCCcc
Confidence            689999999999999998877653  1  11111        145566666666665433

>PRK07993 DNA polymerase III subunit delta'; Validated

Probab=95.35  E-value=0.59  Score=44.05  Aligned_cols=150  Identities=9%  Similarity=0.002  Sum_probs=81.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcc-----cccc--------------ccccceEEEEecC---CCCHHHHHHHHHHHhh
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSD-----VRVH--------------NHFDLKAWTCVSE---DFDIIRVTKSILKSIA  216 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~-----~~~~--------------~~F~~~~wv~vs~---~~~~~~~~~~il~~l~  216 (385)
                      -..-+.+.|+.|+||+++|..+..-     +.-.              ...+-..++.-..   ...+ +-.+++.+.+.
T Consensus        23 l~HA~Lf~G~~G~Gk~~lA~~~A~~LlC~~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~p~~~~~~I~i-dqiR~l~~~~~  101 (334)
T PRK07993         23 GHHALLIQALPGMGDDALIYALSRWLMCQQPQGHKSCGHCRGCQLMQAGTHPDYYTLTPEKGKSSLGV-DAVREVTEKLY  101 (334)
T ss_pred             cceEEeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHHcCCCCCEEEEecccccccCCH-HHHHHHHHHHh
Confidence            3567889999999999999775432     1100              0011122332111   1222 23344555544


Q ss_pred             cCCCCCc---cchHHhh--chhhHhhHhhhccCCCCCcEEEEEcCCh-hHHhhcC-CCCcccCCCCChhhHHhhhhcccc
Q 038448          217 SDQLVDD---HDLNLLQ--KYNDWTNRSRLFEAGAPGSKIVFTTRNL-GVAEKMG-PLPAYPLKELSNDDCLSVFSPHSL  289 (385)
Q Consensus       217 ~~~~~~~---~~~~~l~--~~~~w~~l~~~l~~~~~gs~IivTTR~~-~va~~~~-~~~~~~l~~L~~~~a~~Lf~~~a~  289 (385)
                      .......   --++...  +....+.+...+-.-..++-+|++|.+. .+...+. ....+.+.+++.++....+.... 
T Consensus       102 ~~~~~g~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~lLpTIrSRCq~~~~~~~~~~~~~~~L~~~~-  180 (334)
T PRK07993        102 EHARLGGAKVVWLPDAALLTDAAANALLKTLEEPPENTWFFLACREPARLLATLRSRCRLHYLAPPPEQYALTWLSREV-  180 (334)
T ss_pred             hccccCCceEEEEcchHhhCHHHHHHHHHHhcCCCCCeEEEEEECChhhChHHHHhccccccCCCCCHHHHHHHHHHcc-
Confidence            3332111   0011111  4455666777776555667777666653 4544433 23568899999999887775431 


Q ss_pred             CCCCCCCCccHHHHHHHHHHHcCCChHHH
Q 038448          290 GEKDFSTHPSLKEIGEKIVKKCNGLPLVA  318 (385)
Q Consensus       290 ~~~~~~~~~~l~~~~~~i~~~c~glPLAi  318 (385)
                      +     .+   .+.+..++..++|.|...
T Consensus       181 ~-----~~---~~~a~~~~~la~G~~~~A  201 (334)
T PRK07993        181 T-----MS---QDALLAALRLSAGAPGAA  201 (334)
T ss_pred             C-----CC---HHHHHHHHHHcCCCHHHH
Confidence            1     01   233667899999999643

>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH

Probab=95.33  E-value=0.13  Score=51.48  Aligned_cols=24  Identities=25%  Similarity=0.326  Sum_probs=21.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .+-+.++|++|+|||+||+.+.+.
T Consensus        88 ~~giLL~GppGtGKT~la~alA~~  111 (495)
T TIGR01241        88 PKGVLLVGPPGTGKTLLAKAVAGE  111 (495)
T ss_pred             CCcEEEECCCCCCHHHHHHHHHHH
Confidence            345889999999999999999875

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.

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

Probab=95.32  E-value=0.025  Score=48.99  Aligned_cols=35  Identities=23%  Similarity=0.140  Sum_probs=28.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEe
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCV  198 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v  198 (385)
                      .|++|+|++|+|||||.+.+..   ....=...+||.-
T Consensus        29 evv~iiGpSGSGKSTlLRclN~---LE~~~~G~I~i~g   63 (240)
T COG1126          29 EVVVIIGPSGSGKSTLLRCLNG---LEEPDSGSITVDG   63 (240)
T ss_pred             CEEEEECCCCCCHHHHHHHHHC---CcCCCCceEEECC
Confidence            6899999999999999999976   4444456777753

>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=95.32  E-value=0.024  Score=53.97  Aligned_cols=26  Identities=27%  Similarity=0.324  Sum_probs=22.3

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          158 DGLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       158 ~~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ...++|+++|++|+||||++..+...
T Consensus       239 ~~~~vI~LVGptGvGKTTTiaKLA~~  264 (436)
T PRK11889        239 KEVQTIALIGPTGVGKTTTLAKMAWQ  264 (436)
T ss_pred             cCCcEEEEECCCCCcHHHHHHHHHHH
Confidence            34589999999999999999888753

>PRK14530 adenylate kinase; Provisional

Probab=95.29  E-value=0.013  Score=51.50  Aligned_cols=22  Identities=23%  Similarity=0.252  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcc
Q 038448          162 VIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .|.|+|++|+||||+|+.+...
T Consensus         5 ~I~i~G~pGsGKsT~~~~La~~   26 (215)
T PRK14530          5 RILLLGAPGAGKGTQSSNLAEE   26 (215)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            5889999999999999999763

>COG1428 Deoxynucleoside kinases [Nucleotide transport and metabolism]

Probab=95.29  E-value=0.013  Score=50.35  Aligned_cols=24  Identities=42%  Similarity=0.320  Sum_probs=22.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ..+|+|-||=|+||||||+.+.++
T Consensus         4 ~~~IvI~G~IG~GKSTLa~~La~~   27 (216)
T COG1428           4 AMVIVIEGMIGAGKSTLAQALAEH   27 (216)
T ss_pred             ccEEEEecccccCHHHHHHHHHHH
Confidence            478999999999999999999886

>cd00071 GMPK Guanosine monophosphate kinase (GMPK, EC 2

Probab=95.29  E-value=0.013  Score=47.56  Aligned_cols=22  Identities=27%  Similarity=0.483  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcc
Q 038448          162 VIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .|.|+|+.|+|||||++.+...
T Consensus         1 ~i~i~GpsGsGKstl~~~L~~~   22 (137)
T cd00071           1 LIVLSGPSGVGKSTLLKRLLEE   22 (137)
T ss_pred             CEEEECCCCCCHHHHHHHHHhc
Confidence            3789999999999999999874

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.

>PRK13947 shikimate kinase; Provisional

Probab=95.28  E-value=0.013  Score=49.40  Aligned_cols=22  Identities=32%  Similarity=0.333  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcc
Q 038448          162 VIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      -|.|+|++|+||||+|+.+.+.
T Consensus         3 ~I~l~G~~GsGKst~a~~La~~   24 (171)
T PRK13947          3 NIVLIGFMGTGKTTVGKRVATT   24 (171)
T ss_pred             eEEEEcCCCCCHHHHHHHHHHH
Confidence            4889999999999999999874

>PRK10078 ribose 1,5-bisphosphokinase; Provisional

Probab=95.28  E-value=0.015  Score=49.92  Aligned_cols=23  Identities=22%  Similarity=0.293  Sum_probs=20.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .++.|+|+.|+|||||++.+...
T Consensus         3 ~~i~l~G~sGsGKsTl~~~l~~~   25 (186)
T PRK10078          3 KLIWLMGPSGSGKDSLLAALRQR   25 (186)
T ss_pred             cEEEEECCCCCCHHHHHHHHhcc
Confidence            47899999999999999999774

>KOG0731 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]

Probab=95.27  E-value=0.28  Score=50.50  Aligned_cols=169  Identities=12%  Similarity=0.110  Sum_probs=85.5

Q ss_pred             hhhHHHHHHHHhcCCCC---CCCCceEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecCC-C-----CH-HHHH
Q 038448          139 DKEKEETVKLLLRDDLR---TDDGLSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSED-F-----DI-IRVT  208 (385)
Q Consensus       139 ~~~~~~l~~~L~~~~~~---~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~-~-----~~-~~~~  208 (385)
                      .+|.++++++|-.....   +-.-++=+.++|++|.|||-||++++....|.       |+++|.. |     .. ....
T Consensus       320 K~El~E~V~fLKNP~~Y~~lGAKiPkGvLL~GPPGTGKTLLAKAiAGEAgVP-------F~svSGSEFvE~~~g~~asrv  392 (774)
T KOG0731|consen  320 KEELMEFVKFLKNPEQYQELGAKIPKGVLLVGPPGTGKTLLAKAIAGEAGVP-------FFSVSGSEFVEMFVGVGASRV  392 (774)
T ss_pred             HHHHHHHHHHhcCHHHHHHcCCcCcCceEEECCCCCcHHHHHHHHhcccCCc-------eeeechHHHHHHhcccchHHH
Confidence            45667778877542110   12335668899999999999999999864332       3443332 1     00 1222


Q ss_pred             HHHHHHhhcCCCC--CccchHHhh--------------chhhHhhHhhhccCCCCCcEE--EEEcCChhHHhh--cCC--
Q 038448          209 KSILKSIASDQLV--DDHDLNLLQ--------------KYNDWTNRSRLFEAGAPGSKI--VFTTRNLGVAEK--MGP--  266 (385)
Q Consensus       209 ~~il~~l~~~~~~--~~~~~~~l~--------------~~~~w~~l~~~l~~~~~gs~I--ivTTR~~~va~~--~~~--  266 (385)
                      +++........+.  ..+.++.+-              ...-.+++..-+.....++.|  |-+|...++...  +.+  
T Consensus       393 r~lf~~ar~~aP~iifideida~~~~r~G~~~~~~~~e~e~tlnQll~emDgf~~~~~vi~~a~tnr~d~ld~allrpGR  472 (774)
T KOG0731|consen  393 RDLFPLARKNAPSIIFIDEIDAVGRKRGGKGTGGGQDEREQTLNQLLVEMDGFETSKGVIVLAATNRPDILDPALLRPGR  472 (774)
T ss_pred             HHHHHHhhccCCeEEEecccccccccccccccCCCChHHHHHHHHHHHHhcCCcCCCcEEEEeccCCccccCHHhcCCCc
Confidence            3333322222110  111122111              122233444333333333333  345655555432  222  


Q ss_pred             -CCcccCCCCChhhHHhhhhccccCCCCCCCCccHHHHHHHHHHHcCCChHHH
Q 038448          267 -LPAYPLKELSNDDCLSVFSPHSLGEKDFSTHPSLKEIGEKIVKKCNGLPLVA  318 (385)
Q Consensus       267 -~~~~~l~~L~~~~a~~Lf~~~a~~~~~~~~~~~l~~~~~~i~~~c~glPLAi  318 (385)
                       +..+.+..-+.....++|..++-....   ..+...+.+ |+...-|++=|.
T Consensus       473 fdr~i~i~~p~~~~r~~i~~~h~~~~~~---~~e~~dl~~-~a~~t~gf~gad  521 (774)
T KOG0731|consen  473 FDRQIQIDLPDVKGRASILKVHLRKKKL---DDEDVDLSK-LASLTPGFSGAD  521 (774)
T ss_pred             cccceeccCCchhhhHHHHHHHhhccCC---CcchhhHHH-HHhcCCCCcHHH
Confidence             256777777888888888877633221   133445555 777777776443

>TIGR00073 hypB hydrogenase accessory protein HypB

Probab=95.26  E-value=0.016  Score=50.74  Aligned_cols=27  Identities=30%  Similarity=0.436  Sum_probs=24.1

Q ss_pred             CCCceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          157 DDGLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       157 ~~~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ..++++|+++|..|+|||||..++...
T Consensus        19 ~~~~~~i~~~G~~gsGKTTli~~l~~~   45 (207)
T TIGR00073        19 KHGLVVLNFMSSPGSGKTTLIEKLIDN   45 (207)
T ss_pred             hcCcEEEEEECCCCCCHHHHHHHHHHH
Confidence            357899999999999999999998764

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

>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=95.23  E-value=0.014  Score=49.22  Aligned_cols=21  Identities=38%  Similarity=0.479  Sum_probs=18.1

Q ss_pred             EEEEcCCCCcHHHHHHHHhcc
Q 038448          163 IPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       163 i~I~G~gGiGKTtLA~~v~~~  183 (385)
                      |.|.|.+|+|||||++.+++.
T Consensus         2 i~iTG~pG~GKTTll~k~i~~   22 (168)
T PF03266_consen    2 IFITGPPGVGKTTLLKKVIEE   22 (168)
T ss_dssp             EEEES-TTSSHHHHHHHHHHH
T ss_pred             EEEECcCCCCHHHHHHHHHHH
Confidence            679999999999999998875

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.

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

Probab=95.20  E-value=0.11  Score=50.81  Aligned_cols=47  Identities=23%  Similarity=0.221  Sum_probs=35.0

Q ss_pred             hhhHHHHHHHHhcCCC---CCCCCceEEEEEcCCCCcHHHHHHHHhcccc
Q 038448          139 DKEKEETVKLLLRDDL---RTDDGLSVIPIIGTGRIGKTTLAQLAYSDVR  185 (385)
Q Consensus       139 ~~~~~~l~~~L~~~~~---~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~  185 (385)
                      ..|.++|+++|-+...   -+..=++=|.++|++|.|||-||+++.....
T Consensus       313 K~ELeEiVefLkdP~kftrLGGKLPKGVLLvGPPGTGKTlLARAvAGEA~  362 (752)
T KOG0734|consen  313 KQELEEIVEFLKDPTKFTRLGGKLPKGVLLVGPPGTGKTLLARAVAGEAG  362 (752)
T ss_pred             HHHHHHHHHHhcCcHHhhhccCcCCCceEEeCCCCCchhHHHHHhhcccC
Confidence            5678899999955211   0223356788999999999999999998643

>PRK13949 shikimate kinase; Provisional

Probab=95.19  E-value=0.015  Score=49.18  Aligned_cols=22  Identities=32%  Similarity=0.338  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcc
Q 038448          162 VIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      -|.|+|++|.||||+++.+...
T Consensus         3 ~I~liG~~GsGKstl~~~La~~   24 (169)
T PRK13949          3 RIFLVGYMGAGKTTLGKALARE   24 (169)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            5889999999999999999874

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

Probab=95.19  E-value=0.034  Score=49.60  Aligned_cols=63  Identities=24%  Similarity=0.150  Sum_probs=34.6

Q ss_pred             hHHHHHHHHhcCCCCCCCCceEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecCCCCHHHH
Q 038448          141 EKEETVKLLLRDDLRTDDGLSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDFDIIRV  207 (385)
Q Consensus       141 ~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~  207 (385)
                      +..++++.+...    ..+..+|+|.|+||+||+||.-.+....+-+.+=-.++-|.-|.+++--.+
T Consensus        14 ~~~~ll~~l~~~----~g~a~~iGiTG~PGaGKSTli~~l~~~~~~~g~~VaVlAVDPSSp~tGGAl   76 (266)
T PF03308_consen   14 EARELLKRLYPH----TGRAHVIGITGPPGAGKSTLIDALIRELRERGKRVAVLAVDPSSPFTGGAL   76 (266)
T ss_dssp             HHHHHHHHHGGG----TT-SEEEEEEE-TTSSHHHHHHHHHHHHHHTT--EEEEEE-GGGGCC---S
T ss_pred             HHHHHHHHHHhh----cCCceEEEeeCCCCCcHHHHHHHHHHHHhhcCCceEEEEECCCCCCCCCcc
Confidence            345566666543    235689999999999999999887664322222223344444445544333

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.

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=95.16  E-value=0.1  Score=55.49  Aligned_cols=58  Identities=22%  Similarity=0.216  Sum_probs=37.3

Q ss_pred             HHHHHHHHHHH--hhhhhhHHHHHHHHhcC---CCCCCCCceEEEEEcCCCCcHHHHHHHHhc
Q 038448          125 KIEDRTIRLQE--IEKDKEKEETVKLLLRD---DLRTDDGLSVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       125 ~i~~~~~~l~~--i~~~~~~~~l~~~L~~~---~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      ++..+...|..  ++++...+.+.+.+...   .........++.++|++|+|||.||+.+..
T Consensus       556 ~l~~l~~~L~~~v~GQ~~Av~~v~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKT~lA~~La~  618 (852)
T TIGR03345       556 AVLSLPDRLAERVIGQDHALEAIAERIRTARAGLEDPRKPLGVFLLVGPSGVGKTETALALAE  618 (852)
T ss_pred             HHHHHHHHhcCeEcChHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCCCHHHHHHHHHH
Confidence            44445444432  33467777777777542   111233456899999999999999987754

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.

>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=95.15  E-value=0.024  Score=45.79  Aligned_cols=34  Identities=18%  Similarity=0.119  Sum_probs=25.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhccccccccccceEEEE
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTC  197 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~  197 (385)
                      .+++|+|..|+|||||.+.+...   .......+++.
T Consensus        12 ~~~~i~G~nGsGKStLl~~l~g~---~~~~~G~i~~~   45 (137)
T PF00005_consen   12 EIVAIVGPNGSGKSTLLKALAGL---LPPDSGSILIN   45 (137)
T ss_dssp             SEEEEEESTTSSHHHHHHHHTTS---SHESEEEEEET
T ss_pred             CEEEEEccCCCccccceeeeccc---ccccccccccc
Confidence            58999999999999999999874   22244555543

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 ....

>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=95.15  E-value=0.011  Score=46.93  Aligned_cols=27  Identities=30%  Similarity=0.385  Sum_probs=18.0

Q ss_pred             EEEEcCCCCcHHHHHHHHhcccccccccc
Q 038448          163 IPIIGTGRIGKTTLAQLAYSDVRVHNHFD  191 (385)
Q Consensus       163 i~I~G~gGiGKTtLA~~v~~~~~~~~~F~  191 (385)
                      |.|+|.+|+||||+|+.+...  ....|.
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            578999999999999999874  445563

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.

>PRK12339 2-phosphoglycerate kinase; Provisional

Probab=95.14  E-value=0.019  Score=49.77  Aligned_cols=24  Identities=21%  Similarity=0.230  Sum_probs=21.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ..+|.|.|.+|+||||+|+.+...
T Consensus         3 ~~~i~i~G~~G~GKst~a~~l~~~   26 (197)
T PRK12339          3 STIHFIGGIPGVGKTSISGYIARH   26 (197)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHh
Confidence            468999999999999999999874

>CHL00095 clpC Clp protease ATP binding subunit

Probab=95.13  E-value=1.3  Score=47.16  Aligned_cols=60  Identities=20%  Similarity=0.236  Sum_probs=37.1

Q ss_pred             HHHHHHHHHHHHH--hhhhhhHHHHHHHHhcCC---CCCCCCceEEEEEcCCCCcHHHHHHHHhc
Q 038448          123 AAKIEDRTIRLQE--IEKDKEKEETVKLLLRDD---LRTDDGLSVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       123 ~~~i~~~~~~l~~--i~~~~~~~~l~~~L~~~~---~~~~~~~~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      ..++..+..+|..  ++++.-++.+.+.+....   ...+.....+.++|++|+|||+||+.+.+
T Consensus       497 ~~~l~~l~~~L~~~v~GQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKt~lA~~LA~  561 (821)
T CHL00095        497 SEKLLHMEETLHKRIIGQDEAVVAVSKAIRRARVGLKNPNRPIASFLFSGPTGVGKTELTKALAS  561 (821)
T ss_pred             HHHHHHHHHHhcCcCcChHHHHHHHHHHHHHHhhcccCCCCCceEEEEECCCCCcHHHHHHHHHH
Confidence            3445555555543  233666677777664321   11222345677999999999999988765

>PRK14737 gmk guanylate kinase; Provisional

Probab=95.12  E-value=0.02  Score=49.12  Aligned_cols=25  Identities=20%  Similarity=0.202  Sum_probs=22.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ...+|.|+|++|+|||||++.+...
T Consensus         3 ~~~~ivl~GpsG~GK~tl~~~l~~~   27 (186)
T PRK14737          3 SPKLFIISSVAGGGKSTIIQALLEE   27 (186)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHhc
Confidence            4578999999999999999999874

>PLN02348 phosphoribulokinase

Probab=95.12  E-value=0.023  Score=54.01  Aligned_cols=26  Identities=31%  Similarity=0.337  Sum_probs=23.2

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          158 DGLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       158 ~~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      +...+|+|.|.+|+||||+|+.+.+.
T Consensus        47 ~~p~IIGIaG~SGSGKSTfA~~L~~~   72 (395)
T PLN02348         47 DGTVVIGLAADSGCGKSTFMRRLTSV   72 (395)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            46789999999999999999998764

>PRK12723 flagellar biosynthesis regulator FlhF; Provisional

Probab=95.12  E-value=0.28  Score=47.13  Aligned_cols=25  Identities=24%  Similarity=0.219  Sum_probs=21.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ..++|.++|+.|+||||.+..+...
T Consensus       173 ~~~vi~lvGptGvGKTTT~aKLA~~  197 (388)
T PRK12723        173 KKRVFILVGPTGVGKTTTIAKLAAI  197 (388)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHH
Confidence            4679999999999999998887654

>PF14532 Sigma54_activ_2: Sigma-54 interaction domain; PDB: 3CO5_B 3N70_H

Probab=95.12  E-value=0.042  Score=44.63  Aligned_cols=23  Identities=30%  Similarity=0.265  Sum_probs=19.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .-|.|+|.+|+||+++|+.++..
T Consensus        22 ~pvli~GE~GtGK~~~A~~lh~~   44 (138)
T PF14532_consen   22 SPVLITGEPGTGKSLLARALHRY   44 (138)
T ss_dssp             S-EEEECCTTSSHHHHHHCCHHT
T ss_pred             CcEEEEcCCCCCHHHHHHHHHhh
Confidence            55789999999999999998875

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

Probab=95.11  E-value=0.015  Score=47.94  Aligned_cols=22  Identities=32%  Similarity=0.359  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcc
Q 038448          162 VIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      +|.|+|.+|+||||||+.+...
T Consensus         1 ~i~i~G~~GsGKSTla~~L~~~   22 (149)
T cd02027           1 VIWLTGLSGSGKSTIARALEEK   22 (149)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHH
Confidence            5789999999999999998764

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

>PRK07399 DNA polymerase III subunit delta'; Validated

Probab=95.11  E-value=0.35  Score=45.16  Aligned_cols=82  Identities=12%  Similarity=0.084  Sum_probs=49.1

Q ss_pred             chhhHhhHhhhccCCCCCcEEEEEcC-ChhHHhhcCC-CCcccCCCCChhhHHhhhhccccCCCCCCCCccHHHHHHHHH
Q 038448          231 KYNDWTNRSRLFEAGAPGSKIVFTTR-NLGVAEKMGP-LPAYPLKELSNDDCLSVFSPHSLGEKDFSTHPSLKEIGEKIV  308 (385)
Q Consensus       231 ~~~~w~~l~~~l~~~~~gs~IivTTR-~~~va~~~~~-~~~~~l~~L~~~~a~~Lf~~~a~~~~~~~~~~~l~~~~~~i~  308 (385)
                      +....+.+...+-.-. .+.+|++|. ...+...+.+ ...+++.+++.++..+.+.......       ........++
T Consensus       137 ~~~aaNaLLK~LEEPp-~~~fILi~~~~~~Ll~TI~SRcq~i~f~~l~~~~~~~~L~~~~~~~-------~~~~~~~~l~  208 (314)
T PRK07399        137 NEAAANALLKTLEEPG-NGTLILIAPSPESLLPTIVSRCQIIPFYRLSDEQLEQVLKRLGDEE-------ILNINFPELL  208 (314)
T ss_pred             CHHHHHHHHHHHhCCC-CCeEEEEECChHhCcHHHHhhceEEecCCCCHHHHHHHHHHhhccc-------cchhHHHHHH
Confidence            4455666666665433 445555554 3344433332 3678999999999998888653111       1011135788


Q ss_pred             HHcCCChHHHHH
Q 038448          309 KKCNGLPLVAKS  320 (385)
Q Consensus       309 ~~c~glPLAi~~  320 (385)
                      ..++|.|..+..
T Consensus       209 ~~a~Gs~~~al~  220 (314)
T PRK07399        209 ALAQGSPGAAIA  220 (314)
T ss_pred             HHcCCCHHHHHH
Confidence            999999965544

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

Probab=95.11  E-value=0.053  Score=42.95  Aligned_cols=42  Identities=14%  Similarity=0.076  Sum_probs=29.4

Q ss_pred             hhhHHHHHHHHhcCCCCCCCCceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          139 DKEKEETVKLLLRDDLRTDDGLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       139 ~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      +.-.+.|.+.+...   ....+-|++.+|.+|+|||.+++.+.++
T Consensus        35 ~~v~~ai~~~l~~~---~p~KpLVlSfHG~tGtGKn~v~~liA~~   76 (127)
T PF06309_consen   35 EVVVNAIKGHLANP---NPRKPLVLSFHGWTGTGKNFVSRLIAEH   76 (127)
T ss_pred             HHHHHHHHHHHcCC---CCCCCEEEEeecCCCCcHHHHHHHHHHH
Confidence            34445555555443   3467789999999999999977666543

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

>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=95.09  E-value=0.016  Score=47.75  Aligned_cols=21  Identities=38%  Similarity=0.457  Sum_probs=19.0

Q ss_pred             EEEEcCCCCcHHHHHHHHhcc
Q 038448          163 IPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       163 i~I~G~gGiGKTtLA~~v~~~  183 (385)
                      |.++|++|.||||+|+.+...
T Consensus         2 i~l~G~~GsGKstla~~la~~   22 (154)
T cd00464           2 IVLIGMMGAGKTTVGRLLAKA   22 (154)
T ss_pred             EEEEcCCCCCHHHHHHHHHHH
Confidence            689999999999999999764

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.

>PRK05973 replicative DNA helicase; Provisional

Probab=95.09  E-value=0.065  Score=47.70  Aligned_cols=48  Identities=10%  Similarity=-0.005  Sum_probs=31.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecCCCCHHHHHHHH
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDFDIIRVTKSI  211 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i  211 (385)
                      -.++.|.|.+|+|||+++.++.... .+. =..+++++...+  ...+...+
T Consensus        64 Gsl~LIaG~PG~GKT~lalqfa~~~-a~~-Ge~vlyfSlEes--~~~i~~R~  111 (237)
T PRK05973         64 GDLVLLGARPGHGKTLLGLELAVEA-MKS-GRTGVFFTLEYT--EQDVRDRL  111 (237)
T ss_pred             CCEEEEEeCCCCCHHHHHHHHHHHH-Hhc-CCeEEEEEEeCC--HHHHHHHH
Confidence            3688999999999999999876542 222 234666765543  44454443

>PRK13975 thymidylate kinase; Provisional

Probab=95.09  E-value=0.018  Score=49.78  Aligned_cols=23  Identities=35%  Similarity=0.326  Sum_probs=21.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .+|.|.|+.|+||||+|+.+...
T Consensus         3 ~~I~ieG~~GsGKtT~~~~L~~~   25 (196)
T PRK13975          3 KFIVFEGIDGSGKTTQAKLLAEK   25 (196)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            57999999999999999999875

>COG1102 Cmk Cytidylate kinase [Nucleotide transport and metabolism]

Probab=95.08  E-value=0.015  Score=47.82  Aligned_cols=43  Identities=21%  Similarity=0.237  Sum_probs=31.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecCCCCHHHHHHHHHHHhhc
Q 038448          162 VIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDFDIIRVTKSILKSIAS  217 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~il~~l~~  217 (385)
                      +|.|-|++|+||||+|+.+.++.-.+  |     |      +.-.+++++++..+.
T Consensus         2 ~ItIsG~pGsG~TTva~~lAe~~gl~--~-----v------saG~iFR~~A~e~gm   44 (179)
T COG1102           2 VITISGLPGSGKTTVARELAEHLGLK--L-----V------SAGTIFREMARERGM   44 (179)
T ss_pred             EEEeccCCCCChhHHHHHHHHHhCCc--e-----e------eccHHHHHHHHHcCC
Confidence            68999999999999999998752221  1     2      234677777776654

>PRK04301 radA DNA repair and recombination protein RadA; Validated

Probab=95.08  E-value=0.043  Score=51.39  Aligned_cols=56  Identities=14%  Similarity=0.188  Sum_probs=39.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhccccccccc----cceEEEEecCCCCHHHHHHHHHHHh
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSDVRVHNHF----DLKAWTCVSEDFDIIRVTKSILKSI  215 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F----~~~~wv~vs~~~~~~~~~~~il~~l  215 (385)
                      .-.++-|+|.+|+|||+|+.++.-.......+    ..++||+....|+...+.. +++.+
T Consensus       101 ~g~vtei~G~~GsGKT~l~~~~~~~~~~~~~~gg~~~~~~yi~te~~f~~~rl~~-~~~~~  160 (317)
T PRK04301        101 TQSITEFYGEFGSGKTQICHQLAVNVQLPEEKGGLEGKAVYIDTEGTFRPERIEQ-MAEAL  160 (317)
T ss_pred             CCcEEEEECCCCCCHhHHHHHHHHHhccccccCCCCceEEEEeCCCCcCHHHHHH-HHHHc
Confidence            45788999999999999999887542221111    3789999988888776654 44444

>TIGR01313 therm_gnt_kin carbohydrate kinase, thermoresistant glucokinase family

Probab=95.05  E-value=0.015  Score=48.72  Aligned_cols=21  Identities=24%  Similarity=0.365  Sum_probs=18.6

Q ss_pred             EEEEcCCCCcHHHHHHHHhcc
Q 038448          163 IPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       163 i~I~G~gGiGKTtLA~~v~~~  183 (385)
                      |.|+|++|+||||+|+.+...
T Consensus         1 i~l~G~~GsGKSTla~~l~~~   21 (163)
T TIGR01313         1 FVLMGVAGSGKSTIASALAHR   21 (163)
T ss_pred             CEEECCCCCCHHHHHHHHHHh
Confidence            468999999999999999874

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.

>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=95.03  E-value=0.022  Score=43.92  Aligned_cols=21  Identities=38%  Similarity=0.354  Sum_probs=19.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHh
Q 038448          161 SVIPIIGTGRIGKTTLAQLAY  181 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~  181 (385)
                      ..++|+|++|.|||||+..+.
T Consensus        16 e~v~I~GpSGsGKSTLl~~l~   36 (107)
T cd00820          16 VGVLITGDSGIGKTELALELI   36 (107)
T ss_pred             EEEEEEcCCCCCHHHHHHHhh
Confidence            679999999999999999876

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

>KOG3308 consensus Uncharacterized protein of the uridine kinase family [Nucleotide transport and metabolism]

Probab=95.02  E-value=0.11  Score=44.34  Aligned_cols=77  Identities=21%  Similarity=0.239  Sum_probs=44.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhccccccccccceEEEE----------------------ecCCCCHHHHHHHHHHHhh
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTC----------------------VSEDFDIIRVTKSILKSIA  216 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~----------------------vs~~~~~~~~~~~il~~l~  216 (385)
                      ..-+|+|-|+.-.||||||+.+..      .|....-|+                      +-+..++..++..|...+.
T Consensus         3 K~~ivgiSG~TnsGKTTLak~l~~------~f~~~~lIhqDDFyKp~~Ei~v~~~n~~~wd~~esLdm~~fl~~ia~~l~   76 (225)
T KOG3308|consen    3 KTLIVGISGCTNSGKTTLAKSLHR------FFPGCSLIHQDDFYKPENEIEVDYNNIDNWDLLESLDMEKFLEKIATWLD   76 (225)
T ss_pred             eEEEEEeecccCCCHhHHHHHHHH------HccCCeeeccccccCchhhhhcccCCcchhcchhhhhHHHHHHHHHHHhc
Confidence            346899999999999999987643      233222222                      1223356666666666665


Q ss_pred             cCCCCCccchHHhhchhhHhhHhhhc
Q 038448          217 SDQLVDDHDLNLLQKYNDWTNRSRLF  242 (385)
Q Consensus       217 ~~~~~~~~~~~~l~~~~~w~~l~~~l  242 (385)
                      .... ...--+.+-+..+|+.....+
T Consensus        77 ~~~~-~~~ar~~~v~~~~~~~~~~~~  101 (225)
T KOG3308|consen   77 SRHN-APEAREHLVSYANFEHYAQQF  101 (225)
T ss_pred             Cccc-cchHhhhhhhhhHHHHHhhhc
Confidence            4333 111222233566677665555

>PRK14527 adenylate kinase; Provisional

Probab=95.01  E-value=0.021  Score=49.27  Aligned_cols=25  Identities=24%  Similarity=0.242  Sum_probs=22.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ...+|.|+|++|+||||+|+.+...
T Consensus         5 ~~~~i~i~G~pGsGKsT~a~~La~~   29 (191)
T PRK14527          5 KNKVVIFLGPPGAGKGTQAERLAQE   29 (191)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHH
Confidence            4578999999999999999998764

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

Probab=95.00  E-value=0.051  Score=54.97  Aligned_cols=57  Identities=18%  Similarity=0.203  Sum_probs=42.5

Q ss_pred             CCCCceEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecCCCCHHHHHHHHHHHhhc
Q 038448          156 TDDGLSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDFDIIRVTKSILKSIAS  217 (385)
Q Consensus       156 ~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~il~~l~~  217 (385)
                      ..+.-++..++|++|+||||||.-+.++.    .| .++=|++|..-+...+-..|...+..
T Consensus       322 ~RP~kKilLL~GppGlGKTTLAHViAkqa----GY-sVvEINASDeRt~~~v~~kI~~avq~  378 (877)
T KOG1969|consen  322 KRPPKKILLLCGPPGLGKTTLAHVIAKQA----GY-SVVEINASDERTAPMVKEKIENAVQN  378 (877)
T ss_pred             CCCccceEEeecCCCCChhHHHHHHHHhc----Cc-eEEEecccccccHHHHHHHHHHHHhh
Confidence            34567899999999999999999998752    23 35668888877777766666665543

>PLN02200 adenylate kinase family protein

Probab=94.98  E-value=0.022  Score=50.84  Aligned_cols=26  Identities=15%  Similarity=0.105  Sum_probs=22.3

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          158 DGLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       158 ~~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ..+.+|.|+|++|+||||+|+.+...
T Consensus        41 ~~~~ii~I~G~PGSGKsT~a~~La~~   66 (234)
T PLN02200         41 KTPFITFVLGGPGSGKGTQCEKIVET   66 (234)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            34578999999999999999998763

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=94.97  E-value=0.041  Score=50.24  Aligned_cols=26  Identities=27%  Similarity=0.340  Sum_probs=22.1

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          158 DGLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       158 ~~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ...+++.++|++|+||||++..+...
T Consensus        70 ~~~~vi~l~G~~G~GKTTt~akLA~~   95 (272)
T TIGR00064        70 NKPNVILFVGVNGVGKTTTIAKLANK   95 (272)
T ss_pred             CCCeEEEEECCCCCcHHHHHHHHHHH
Confidence            45689999999999999988877653

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.

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

Probab=94.97  E-value=0.021  Score=50.29  Aligned_cols=22  Identities=36%  Similarity=0.536  Sum_probs=20.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      .+++|+|.+|.|||||++.+..
T Consensus        34 e~lgivGeSGsGKSTL~r~l~G   55 (252)
T COG1124          34 ETLGIVGESGSGKSTLARLLAG   55 (252)
T ss_pred             CEEEEEcCCCCCHHHHHHHHhc
Confidence            5899999999999999999875

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

Probab=94.96  E-value=0.069  Score=48.36  Aligned_cols=56  Identities=20%  Similarity=0.234  Sum_probs=39.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhccccccccc----cceEEEEecCCCCHHHHHHHHHHHh
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSDVRVHNHF----DLKAWTCVSEDFDIIRVTKSILKSI  215 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F----~~~~wv~vs~~~~~~~~~~~il~~l  215 (385)
                      .-.+.=|+|.+|+|||.|+.+++-+..+....    ..++||+-...|...++. +|++..
T Consensus        37 ~g~itEi~G~~gsGKTql~l~l~~~~~l~~~~~g~~~~vvyidTe~~f~~~Rl~-~i~~~~   96 (256)
T PF08423_consen   37 TGSITEIVGESGSGKTQLCLQLAVNVQLPEEIGGLGGKVVYIDTEGTFSPERLQ-QIAERF   96 (256)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHTTSGGCTTSSSSEEEEEESSSSS-HHHHH-HHHHHT
T ss_pred             CCcEEEEEEecccccchHHHHHHHHhhcccccccCCCceEEEeCCCCCCHHHHH-HHhhcc
Confidence            34688999999999999998876442222222    358999988888887765 466543

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 ....

>TIGR00176 mobB molybdopterin-guanine dinucleotide biosynthesis protein MobB

Probab=94.95  E-value=0.018  Score=47.88  Aligned_cols=22  Identities=36%  Similarity=0.489  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcc
Q 038448          162 VIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      |++|+|+.|+|||||+.++...
T Consensus         1 vi~i~G~~gsGKTtl~~~l~~~   22 (155)
T TIGR00176         1 VLQIVGPKNSGKTTLIERLVKA   22 (155)
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            5899999999999999999875

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.

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

Probab=94.94  E-value=0.19  Score=52.79  Aligned_cols=45  Identities=20%  Similarity=0.243  Sum_probs=31.0

Q ss_pred             hhhHHHHHHHHhcCC---CCCCCCceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          139 DKEKEETVKLLLRDD---LRTDDGLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       139 ~~~~~~l~~~L~~~~---~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      +..++.+.+.+....   ...+....++.++|++|+|||+||+.+...
T Consensus       460 ~~ai~~l~~~i~~~~~g~~~~~~p~~~~lf~Gp~GvGKT~lA~~la~~  507 (731)
T TIGR02639       460 DEAIDSLVSSIKRSRAGLGNPNKPVGSFLFTGPTGVGKTELAKQLAEA  507 (731)
T ss_pred             HHHHHHHHHHHHHHhcCCCCCCCCceeEEEECCCCccHHHHHHHHHHH
Confidence            556667776665321   101223457899999999999999999874

>COG1703 ArgK Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]

Probab=94.94  E-value=0.029  Score=50.90  Aligned_cols=63  Identities=22%  Similarity=0.152  Sum_probs=40.6

Q ss_pred             HHHHHHhcCCCCCCCCceEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecCCCCHHHHHHH
Q 038448          144 ETVKLLLRDDLRTDDGLSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDFDIIRVTKS  210 (385)
Q Consensus       144 ~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~  210 (385)
                      +++..+..    ..++..+|+|.|.||+||+||.-.+-....-+.+=-.++=|.-|.+++--.++-+
T Consensus        39 ~ll~~l~p----~tG~a~viGITG~PGaGKSTli~~L~~~l~~~G~rVaVlAVDPSSp~TGGsiLGD  101 (323)
T COG1703          39 ELLRALYP----RTGNAHVIGITGVPGAGKSTLIEALGRELRERGHRVAVLAVDPSSPFTGGSILGD  101 (323)
T ss_pred             HHHHHHhh----cCCCCcEEEecCCCCCchHHHHHHHHHHHHHCCcEEEEEEECCCCCCCCcccccc
Confidence            45555543    3457789999999999999999877654322333234455666666665555444

>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN

Probab=94.92  E-value=0.066  Score=48.69  Aligned_cols=21  Identities=33%  Similarity=0.354  Sum_probs=18.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHhc
Q 038448          162 VIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      -|.+.|.+|+|||+||+.+..
T Consensus        23 ~vLL~G~~GtGKT~lA~~la~   43 (262)
T TIGR02640        23 PVHLRGPAGTGKTTLAMHVAR   43 (262)
T ss_pred             eEEEEcCCCCCHHHHHHHHHH
Confidence            456899999999999999986

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).

>PRK05057 aroK shikimate kinase I; Reviewed

Probab=94.92  E-value=0.022  Score=48.25  Aligned_cols=23  Identities=22%  Similarity=0.289  Sum_probs=20.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ..|.|+|+.|.||||+++.+...
T Consensus         5 ~~I~liG~~GaGKStl~~~La~~   27 (172)
T PRK05057          5 RNIFLVGPMGAGKSTIGRQLAQQ   27 (172)
T ss_pred             CEEEEECCCCcCHHHHHHHHHHH
Confidence            56999999999999999999874

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

Probab=94.89  E-value=0.027  Score=48.14  Aligned_cols=44  Identities=16%  Similarity=0.071  Sum_probs=29.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecCCCCHHHHHH
Q 038448          162 VIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDFDIIRVTK  209 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~  209 (385)
                      ++.|.|.+|+|||+|+.++.... .+. =..++|++...+  ...+..
T Consensus         1 ~~li~G~~G~GKT~l~~~~~~~~-~~~-g~~v~~~s~e~~--~~~~~~   44 (187)
T cd01124           1 STLLSGGPGTGKTTFALQFLYAG-LAR-GEPGLYVTLEES--PEELIE   44 (187)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHH-HHC-CCcEEEEECCCC--HHHHHH
Confidence            36789999999999999876642 122 245678876543  444433

A related protein is found in archaea.

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

Probab=94.83  E-value=0.24  Score=49.43  Aligned_cols=130  Identities=9%  Similarity=-0.005  Sum_probs=68.6

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecCCC--CHHHHHHHHHHHhhcCCCC--CccchHHhh---
Q 038448          158 DGLSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDF--DIIRVTKSILKSIASDQLV--DDHDLNLLQ---  230 (385)
Q Consensus       158 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~--~~~~~~~~il~~l~~~~~~--~~~~~~~l~---  230 (385)
                      ...+.+.++|++|.|||.||+.+.+.  ...+|-.+.+-.+...+  ......+.+........+.  -.+.++.+.   
T Consensus       274 ~~~~giLl~GpPGtGKT~lAkava~~--~~~~fi~v~~~~l~sk~vGesek~ir~~F~~A~~~~p~iiFiDEiDs~~~~r  351 (494)
T COG0464         274 RPPKGVLLYGPPGTGKTLLAKAVALE--SRSRFISVKGSELLSKWVGESEKNIRELFEKARKLAPSIIFIDEIDSLASGR  351 (494)
T ss_pred             CCCCeeEEECCCCCCHHHHHHHHHhh--CCCeEEEeeCHHHhccccchHHHHHHHHHHHHHcCCCcEEEEEchhhhhccC
Confidence            45568999999999999999999984  34445332222222211  2234444444444322221  123333332   


Q ss_pred             ---c----hhhHhhHhhhccCCCCCc--EEEEEcCChhHHhhc-----CCCCcccCCCCChhhHHhhhhcccc
Q 038448          231 ---K----YNDWTNRSRLFEAGAPGS--KIVFTTRNLGVAEKM-----GPLPAYPLKELSNDDCLSVFSPHSL  289 (385)
Q Consensus       231 ---~----~~~w~~l~~~l~~~~~gs--~IivTTR~~~va~~~-----~~~~~~~l~~L~~~~a~~Lf~~~a~  289 (385)
                         .    .....++...+......+  .||-||-.+......     .-...+.+.+-+.++....|..+.-
T Consensus       352 ~~~~~~~~~r~~~~lL~~~d~~e~~~~v~vi~aTN~p~~ld~a~lR~gRfd~~i~v~~pd~~~r~~i~~~~~~  424 (494)
T COG0464         352 GPSEDGSGRRVVGQLLTELDGIEKAEGVLVIAATNRPDDLDPALLRPGRFDRLIYVPLPDLEERLEIFKIHLR  424 (494)
T ss_pred             CCCCchHHHHHHHHHHHHhcCCCccCceEEEecCCCccccCHhhcccCccceEeecCCCCHHHHHHHHHHHhc
Confidence               1    123334444443223333  345555544433211     1234677888888888899987753

>PRK13531 regulatory ATPase RavA; Provisional

Probab=94.80  E-value=0.082  Score=51.78  Aligned_cols=54  Identities=15%  Similarity=0.141  Sum_probs=34.5

Q ss_pred             HHHHHHHHHHHHHHhh--hhhhHHHHHHHHhcCCCCCCCCceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          122 MAAKIEDRTIRLQEIE--KDKEKEETVKLLLRDDLRTDDGLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       122 ~~~~i~~~~~~l~~i~--~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      +..++..+...+....  +++..+.+...++.+        .-|.|.|++|+|||+||+.+...
T Consensus         7 ~~~~i~~l~~~l~~~i~gre~vI~lll~aalag--------~hVLL~GpPGTGKT~LAraLa~~   62 (498)
T PRK13531          7 LAERISRLSSALEKGLYERSHAIRLCLLAALSG--------ESVFLLGPPGIAKSLIARRLKFA   62 (498)
T ss_pred             HHHHHHHHHHHHhhhccCcHHHHHHHHHHHccC--------CCEEEECCCChhHHHHHHHHHHH
Confidence            4455666666665432  233344444444333        35789999999999999999874

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

Probab=94.78  E-value=0.039  Score=48.32  Aligned_cols=21  Identities=48%  Similarity=0.700  Sum_probs=18.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHhc
Q 038448          162 VIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      .|+|+|-||+||||+|..+..
T Consensus         2 kIaI~GKGG~GKTtiaalll~   22 (255)
T COG3640           2 KIAITGKGGVGKTTIAALLLK   22 (255)
T ss_pred             eEEEecCCCccHHHHHHHHHH
Confidence            589999999999999987444

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

Probab=94.77  E-value=0.037  Score=50.69  Aligned_cols=27  Identities=22%  Similarity=0.310  Sum_probs=23.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhccccc
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSDVRV  186 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~~~~  186 (385)
                      -++|.++|+||.|||+|.+.++++..+
T Consensus       177 NRliLlhGPPGTGKTSLCKaLaQkLSI  203 (423)
T KOG0744|consen  177 NRLILLHGPPGTGKTSLCKALAQKLSI  203 (423)
T ss_pred             eeEEEEeCCCCCChhHHHHHHHHhhee
Confidence            488999999999999999999987643

>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=94.77  E-value=0.058  Score=46.43  Aligned_cols=22  Identities=36%  Similarity=0.382  Sum_probs=20.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcc
Q 038448          162 VIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      +|+|.|+.|+||||+++.+.+.
T Consensus         2 ~I~ieG~~GsGKtT~~~~L~~~   23 (200)
T cd01672           2 FIVFEGIDGAGKTTLIELLAER   23 (200)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            6899999999999999999875

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

>TIGR03499 FlhF flagellar biosynthetic protein FlhF

Probab=94.76  E-value=0.027  Score=51.82  Aligned_cols=25  Identities=28%  Similarity=0.317  Sum_probs=21.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ..+++.++|++|+||||++..+...
T Consensus       193 ~~~vi~~vGptGvGKTTt~~kLa~~  217 (282)
T TIGR03499       193 QGGVIALVGPTGVGKTTTLAKLAAR  217 (282)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHH
Confidence            4579999999999999999888764

>PRK08154 anaerobic benzoate catabolism transcriptional regulator; Reviewed

Probab=94.76  E-value=0.068  Score=49.88  Aligned_cols=25  Identities=28%  Similarity=0.377  Sum_probs=22.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .-..|.++|++|+||||+++.+...
T Consensus       132 ~~~~I~l~G~~GsGKStvg~~La~~  156 (309)
T PRK08154        132 RRRRIALIGLRGAGKSTLGRMLAAR  156 (309)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHH
Confidence            4468999999999999999999864

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

Probab=94.76  E-value=0.023  Score=49.91  Aligned_cols=24  Identities=38%  Similarity=0.499  Sum_probs=21.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhccc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSDV  184 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~~  184 (385)
                      .-|.|+|++|+|||||+.++..+.
T Consensus         6 ~kivv~G~~g~GKTtl~~~l~~~~   29 (219)
T COG1100           6 FKIVVLGDGGVGKTTLLNRLVGDE   29 (219)
T ss_pred             EEEEEEcCCCccHHHHHHHHhcCc
Confidence            568899999999999999998764

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

Probab=94.75  E-value=0.04  Score=48.47  Aligned_cols=33  Identities=18%  Similarity=0.200  Sum_probs=25.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhccccccccccceEEE
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWT  196 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv  196 (385)
                      .+++|+|..|.|||||++.+..-   .......+++
T Consensus        30 e~~~i~G~nGsGKSTLl~~l~Gl---~~~~~G~i~~   62 (216)
T TIGR00960        30 EMVFLVGHSGAGKSTFLKLILGI---EKPTRGKIRF   62 (216)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC---CCCCceEEEE
Confidence            68999999999999999999873   2334455555

>PRK12727 flagellar biosynthesis regulator FlhF; Provisional

Probab=94.75  E-value=0.19  Score=49.84  Aligned_cols=24  Identities=29%  Similarity=0.284  Sum_probs=21.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      -.+|+|+|.+|+||||++.++...
T Consensus       350 G~vIaLVGPtGvGKTTtaakLAa~  373 (559)
T PRK12727        350 GGVIALVGPTGAGKTTTIAKLAQR  373 (559)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHH
Confidence            479999999999999999887653

>PRK12726 flagellar biosynthesis regulator FlhF; Provisional

Probab=94.75  E-value=0.21  Score=47.55  Aligned_cols=40  Identities=18%  Similarity=0.175  Sum_probs=27.8

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEec
Q 038448          158 DGLSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVS  199 (385)
Q Consensus       158 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs  199 (385)
                      ...+++.++|+.|+||||++..+....  ...-..+.+|+..
T Consensus       204 ~~~~ii~lvGptGvGKTTt~akLA~~l--~~~g~~V~lItaD  243 (407)
T PRK12726        204 SNHRIISLIGQTGVGKTTTLVKLGWQL--LKQNRTVGFITTD  243 (407)
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHHHH--HHcCCeEEEEeCC
Confidence            346899999999999999998887542  1111235556654

>PF13521 AAA_28: AAA domain; PDB: 1LW7_A

Probab=94.74  E-value=0.023  Score=47.61  Aligned_cols=20  Identities=40%  Similarity=0.416  Sum_probs=16.8

Q ss_pred             EEEEcCCCCcHHHHHHHHhc
Q 038448          163 IPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       163 i~I~G~gGiGKTtLA~~v~~  182 (385)
                      |+|.|.+|+|||||+..+..
T Consensus         2 I~i~G~~stGKTTL~~~L~~   21 (163)
T PF13521_consen    2 IVITGGPSTGKTTLIEALAA   21 (163)
T ss_dssp             EEEE--TTSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            78999999999999999986

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

Probab=94.73  E-value=0.029  Score=50.13  Aligned_cols=33  Identities=18%  Similarity=0.077  Sum_probs=20.7

Q ss_pred             EEcCCCCcHHHHHHHHhccccccccccceEEEEec
Q 038448          165 IIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVS  199 (385)
Q Consensus       165 I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs  199 (385)
                      |+|++|+||||+++.+.+..  ...-..++-|++.
T Consensus         1 ViGpaGSGKTT~~~~~~~~~--~~~~~~~~~vNLD   33 (238)
T PF03029_consen    1 VIGPAGSGKTTFCKGLSEWL--ESNGRDVYIVNLD   33 (238)
T ss_dssp             -EESTTSSHHHHHHHHHHHH--TTT-S-EEEEE--
T ss_pred             CCCCCCCCHHHHHHHHHHHH--HhccCCceEEEcc
Confidence            68999999999999988753  2232334445533

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

>PLN02318 phosphoribulokinase/uridine kinase

Probab=94.72  E-value=0.041  Score=55.00  Aligned_cols=26  Identities=23%  Similarity=0.439  Sum_probs=23.3

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          158 DGLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       158 ~~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      +++.+|+|.|.+|.||||||+.+...
T Consensus        63 ~~riIIGIaGpSGSGKTTLAk~Lagl   88 (656)
T PLN02318         63 DGIILVGVAGPSGAGKTVFTEKVLNF   88 (656)
T ss_pred             CCeEEEEEECCCCCcHHHHHHHHHhh
Confidence            46789999999999999999999763

>CHL00176 ftsH cell division protein; Validated

Probab=94.70  E-value=0.32  Score=49.95  Aligned_cols=24  Identities=25%  Similarity=0.314  Sum_probs=21.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .+-|.++|++|.|||+||+.+.+.
T Consensus       216 p~gVLL~GPpGTGKT~LAralA~e  239 (638)
T CHL00176        216 PKGVLLVGPPGTGKTLLAKAIAGE  239 (638)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHH
Confidence            456899999999999999999875

>cd04139 RalA_RalB RalA/RalB subfamily

Probab=94.68  E-value=0.026  Score=46.71  Aligned_cols=23  Identities=26%  Similarity=0.473  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHhccc
Q 038448          162 VIPIIGTGRIGKTTLAQLAYSDV  184 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v~~~~  184 (385)
                      -|+++|.+|+|||||+..+.++.
T Consensus         2 ki~~~G~~~~GKTsl~~~l~~~~   24 (164)
T cd04139           2 KVIVVGAGGVGKSALTLQFMYDE   24 (164)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            47899999999999999998653

The Ral (Ras-like) subfamily consists of the highly homologous RalA and RalB. Ral proteins are believed to play a crucial role in tumorigenesis, metastasis, endocytosis, and actin cytoskeleton dynamics. Despite their high sequence similarity (80% sequence identity), nonoverlapping and opposing functions have been assigned to RalA and RalBs in tumor migration. In human bladder and prostate cancer cells, RalB promotes migration while RalA inhibits it. A Ral-specific set of GEFs has been identified that are activated by Ras binding. This RalGEF activity is enhanced by Ras binding to another of its target proteins, phosphatidylinositol 3-kinase (PI3K). Ral effectors include RLIP76/RalBP1, a Rac/cdc42 GAP, and the exocyst (Sec6/8) complex, a heterooctomeric protein complex that is involved in tethering vesicles to specific sites on the plasma membrane prior to exocytosis. In rat kidney cells, RalB is required for functional assembly of the exo

>CHL00195 ycf46 Ycf46; Provisional

Probab=94.68  E-value=0.18  Score=49.96  Aligned_cols=25  Identities=20%  Similarity=0.227  Sum_probs=22.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ..+-|.++|++|.|||.+|+.+.+.
T Consensus       258 ~pkGILL~GPpGTGKTllAkaiA~e  282 (489)
T CHL00195        258 TPRGLLLVGIQGTGKSLTAKAIAND  282 (489)
T ss_pred             CCceEEEECCCCCcHHHHHHHHHHH
Confidence            4567889999999999999999885

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

Probab=94.67  E-value=0.047  Score=47.93  Aligned_cols=35  Identities=20%  Similarity=0.100  Sum_probs=26.8

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHhccccccccccceEEE
Q 038448          158 DGLSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWT  196 (385)
Q Consensus       158 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv  196 (385)
                      .. .+++|+|..|.|||||++.+..-   .......+++
T Consensus        22 ~~-e~~~i~G~nGsGKSTLl~~l~G~---~~~~~G~i~~   56 (214)
T cd03297          22 NE-EVTGIFGASGAGKSTLLRCIAGL---EKPDGGTIVL   56 (214)
T ss_pred             cc-eeEEEECCCCCCHHHHHHHHhCC---CCCCCceEEE
Confidence            35 89999999999999999999874   2233455554

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.

>COG0237 CoaE Dephospho-CoA kinase [Coenzyme metabolism]

Probab=94.67  E-value=0.027  Score=48.87  Aligned_cols=22  Identities=27%  Similarity=0.348  Sum_probs=19.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      .+|+|+|+.|+||||+|+.+-+
T Consensus         3 ~iIglTG~igsGKStva~~~~~   24 (201)
T COG0237           3 LIIGLTGGIGSGKSTVAKILAE   24 (201)
T ss_pred             eEEEEecCCCCCHHHHHHHHHH
Confidence            6899999999999999988754

>PRK08356 hypothetical protein; Provisional

Probab=94.67  E-value=0.032  Score=48.26  Aligned_cols=21  Identities=29%  Similarity=0.441  Sum_probs=19.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHh
Q 038448          161 SVIPIIGTGRIGKTTLAQLAY  181 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~  181 (385)
                      .+|.|+|++|+||||+|..+-
T Consensus         6 ~~i~~~G~~gsGK~t~a~~l~   26 (195)
T PRK08356          6 MIVGVVGKIAAGKTTVAKFFE   26 (195)
T ss_pred             EEEEEECCCCCCHHHHHHHHH
Confidence            579999999999999999993

>PRK04182 cytidylate kinase; Provisional

Probab=94.66  E-value=0.026  Score=47.82  Aligned_cols=22  Identities=41%  Similarity=0.508  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcc
Q 038448          162 VIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      +|.|.|+.|+||||+|+.+...
T Consensus         2 ~I~i~G~~GsGKstia~~la~~   23 (180)
T PRK04182          2 IITISGPPGSGKTTVARLLAEK   23 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            6899999999999999999874

>PRK09825 idnK D-gluconate kinase; Provisional

Probab=94.66  E-value=0.027  Score=47.87  Aligned_cols=23  Identities=13%  Similarity=0.160  Sum_probs=21.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .++.|+|.+|.|||||++.+...
T Consensus         4 e~i~l~G~sGsGKSTl~~~la~~   26 (176)
T PRK09825          4 ESYILMGVSGSGKSLIGSKIAAL   26 (176)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHh
Confidence            57899999999999999999874

>TIGR01166 cbiO cobalt transport protein ATP-binding subunit

Probab=94.65  E-value=0.045  Score=47.09  Aligned_cols=23  Identities=26%  Similarity=0.364  Sum_probs=21.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .+++|+|..|.|||||.+.+..-
T Consensus        19 e~~~i~G~nGsGKSTLl~~i~G~   41 (190)
T TIGR01166        19 EVLALLGANGAGKSTLLLHLNGL   41 (190)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            58999999999999999999874

This model describes the ATP binding subunit of the multisubunit cobalt transporter in bacteria and its equivalents in archaea. The model is restricted to ATP subunit that is a part of the cobalt transporter, which belongs to the ABC transporter superfamily (ATP Binding Cassette). The model excludes ATP binding subunit that are associated with other transporters belonging to ABC transporter superfamily. This superfamily includes two groups, one which catalyze the uptake of small molecules, including ions from the external milieu and the other group which is engaged in the efflux of small molecular weight compounds and ions from within the cell. Energy derived from the hydrolysis of ATP drive the both the process of uptake and efflux.

>cd03255 ABC_MJ0796_Lo1CDE_FtsE This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE)

Probab=94.65  E-value=0.043  Score=48.27  Aligned_cols=33  Identities=18%  Similarity=0.200  Sum_probs=25.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhccccccccccceEEE
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWT  196 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv  196 (385)
                      .+++|+|..|.|||||++.+..-   .......+++
T Consensus        31 ~~~~l~G~nGsGKSTLl~~i~Gl---~~~~~G~i~~   63 (218)
T cd03255          31 EFVAIVGPSGSGKSTLLNILGGL---DRPTSGEVRV   63 (218)
T ss_pred             CEEEEEcCCCCCHHHHHHHHhCC---cCCCceeEEE
Confidence            68999999999999999999874   2233455554

They are clustered together phylogenetically. MacAB is an exporter that confers resistance to macrolides, while the LolCDE system is not a transporter at all. An FtsE null mutants showed filamentous growth and appeared viable on high salt medium only, indicating a role for FtsE in cell division and/or salt transport. The LolCDE complex catalyses the release of lipoproteins from the cytoplasmic membrane prior to their targeting to the outer membrane.

>PRK13946 shikimate kinase; Provisional

Probab=94.64  E-value=0.028  Score=48.20  Aligned_cols=25  Identities=20%  Similarity=0.295  Sum_probs=22.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ..+.|.++|++|+||||+++.+.+.
T Consensus         9 ~~~~I~l~G~~GsGKsti~~~LA~~   33 (184)
T PRK13946          9 GKRTVVLVGLMGAGKSTVGRRLATM   33 (184)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHH
Confidence            3467999999999999999999874

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=94.63  E-value=0.32  Score=51.98  Aligned_cols=59  Identities=20%  Similarity=0.249  Sum_probs=36.8

Q ss_pred             HHHHHHHHHHH--hhhhhhHHHHHHHHhcCCC---CCCCCceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          125 KIEDRTIRLQE--IEKDKEKEETVKLLLRDDL---RTDDGLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       125 ~i~~~~~~l~~--i~~~~~~~~l~~~L~~~~~---~~~~~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ++..+...+..  ++.+..++.+.+.+.....   .......++.++|++|+|||++|+.+...
T Consensus       555 ~l~~l~~~l~~~v~GQ~~av~~v~~~i~~~~~gl~~~~~p~~~~Lf~Gp~GvGKt~lA~~La~~  618 (852)
T TIGR03346       555 KLLHMEEVLHERVVGQDEAVEAVSDAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELAKALAEF  618 (852)
T ss_pred             HHHHHHHHhhcccCCChHHHHHHHHHHHHHhccCCCCCCCCeEEEEEcCCCCCHHHHHHHHHHH
Confidence            34444444422  3336667777777754211   01223467889999999999999998763

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.

>PLN03187 meiotic recombination protein DMC1 homolog; Provisional

Probab=94.63  E-value=0.082  Score=49.86  Aligned_cols=57  Identities=19%  Similarity=0.169  Sum_probs=40.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhccccccc----cccceEEEEecCCCCHHHHHHHHHHHhh
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSDVRVHN----HFDLKAWTCVSEDFDIIRVTKSILKSIA  216 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~----~F~~~~wv~vs~~~~~~~~~~~il~~l~  216 (385)
                      .-.++-|+|.+|+|||+|+.+++-......    .-..++||+....|.+.++.. +++.++
T Consensus       125 ~G~ItEI~G~~GsGKTql~lqlav~~qlp~~~gg~~~~vvyIdTE~tF~peRl~~-ia~~~g  185 (344)
T PLN03187        125 TRCITEAFGEFRSGKTQLAHTLCVTTQLPTEMGGGNGKVAYIDTEGTFRPDRIVP-IAERFG  185 (344)
T ss_pred             CCeEEEEecCCCCChhHHHHHHHHHHhcchhhCCCCceEEEEEcCCCCCHHHHHH-HHHHcC
Confidence            447888999999999999988753322211    124689999999888877654 555554

>PRK13948 shikimate kinase; Provisional

Probab=94.62  E-value=0.032  Score=47.63  Aligned_cols=25  Identities=12%  Similarity=0.123  Sum_probs=22.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ....|.++|+.|+||||+++.+...
T Consensus         9 ~~~~I~LiG~~GsGKSTvg~~La~~   33 (182)
T PRK13948          9 PVTWVALAGFMGTGKSRIGWELSRA   33 (182)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHH
Confidence            4578999999999999999999874

>TIGR02673 FtsE cell division ATP-binding protein FtsE

Probab=94.62  E-value=0.046  Score=47.97  Aligned_cols=33  Identities=24%  Similarity=0.264  Sum_probs=26.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhccccccccccceEEE
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWT  196 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv  196 (385)
                      .+++|+|..|.|||||++.+..-   .......+++
T Consensus        29 ~~~~l~G~nGsGKSTLl~~i~Gl---~~~~~G~i~~   61 (214)
T TIGR02673        29 EFLFLTGPSGAGKTTLLKLLYGA---LTPSRGQVRI   61 (214)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC---CCCCCceEEE
Confidence            58999999999999999999873   2334555655

This model describes FtsE, a member of the ABC transporter ATP-binding protein family. This protein, and its permease partner FtsX, localize to the division site. In a number of species, the ftsEX gene pair is located next to FtsY, the signal recognition particle-docking protein.

>PRK06964 DNA polymerase III subunit delta'; Validated

Probab=94.61  E-value=0.8  Score=43.24  Aligned_cols=77  Identities=10%  Similarity=0.215  Sum_probs=49.4

Q ss_pred             chhhHhhHhhhccCCCCCcEEEEEcCC-hhHHhhcC-CCCcccCCCCChhhHHhhhhccccCCCCCCCCccHHHHHHHHH
Q 038448          231 KYNDWTNRSRLFEAGAPGSKIVFTTRN-LGVAEKMG-PLPAYPLKELSNDDCLSVFSPHSLGEKDFSTHPSLKEIGEKIV  308 (385)
Q Consensus       231 ~~~~w~~l~~~l~~~~~gs~IivTTR~-~~va~~~~-~~~~~~l~~L~~~~a~~Lf~~~a~~~~~~~~~~~l~~~~~~i~  308 (385)
                      +...++.+...+-.-.+++.+|++|.+ ..+...+. ....+.+.+++.++..+.+...-   .     +.    ...++
T Consensus       145 ~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~LLpTI~SRcq~i~~~~~~~~~~~~~L~~~~---~-----~~----~~~~l  212 (342)
T PRK06964        145 NVAAANALLKTLEEPPPGTVFLLVSARIDRLLPTILSRCRQFPMTVPAPEAAAAWLAAQG---V-----AD----ADALL  212 (342)
T ss_pred             CHHHHHHHHHHhcCCCcCcEEEEEECChhhCcHHHHhcCEEEEecCCCHHHHHHHHHHcC---C-----Ch----HHHHH
Confidence            556677777777665667766665554 44443332 23578899999999988886541   1     11    12357


Q ss_pred             HHcCCChHHHH
Q 038448          309 KKCNGLPLVAK  319 (385)
Q Consensus       309 ~~c~glPLAi~  319 (385)
                      ..++|.|+.+.
T Consensus       213 ~~~~Gsp~~Al  223 (342)
T PRK06964        213 AEAGGAPLAAL  223 (342)
T ss_pred             HHcCCCHHHHH
Confidence            78899997444

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

Probab=94.60  E-value=0.03  Score=45.55  Aligned_cols=24  Identities=42%  Similarity=0.447  Sum_probs=21.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhccc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSDV  184 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~~  184 (385)
                      +.|.++|..|.|||||++.+-..+
T Consensus         2 krimliG~~g~GKTTL~q~L~~~~   25 (143)
T PF10662_consen    2 KRIMLIGPSGSGKTTLAQALNGEE   25 (143)
T ss_pred             ceEEEECCCCCCHHHHHHHHcCCC
Confidence            457899999999999999998754

Both pathways require coenzyme B12 (adenosylcobalamin, AdoCbl). Bacteria that harbour these pathways can use ethanolamine as a source of carbon and nitrogen, or propanediol as a sole carbon and energy source, respectively. The exact roles of the EutP and PduV proteins in these respective pathways are not yet determined. Members of this family contain P-loop consensus motifs in the N-terminal part, and are distantly related to various GTPases and ATPases, including ATPase components of transport systems. Propanediol degradation is thought to be important for the natural Salmonella populations, since propanediol is produced by the fermentation of the common plant sugars rhamnose and fucose [, ]. More than 1% of the Salmonella enterica genome is devoted to the utilisation of propanediol and cobalamin biosynthesis. In vivo expression technology has indicated that propanediol utilisation (pdu) genes may be important for growth in host tissues, and competitive index studies with mice have shown that pdu mutations confer a virulence defect [, ]. The pdu operon is contiguous and co-regulated with the cobalamin (B12) biosynthesis cob operon, indicating that propanediol catabolism may be the primary reason for de novo B12 synthesis in Salmonella [, , ]. Please see IPR003207 from INTERPRO, IPR003208 from INTERPRO, IPR009204 from INTERPRO, IPR009191 from INTERPRO, IPR009192 from INTERPRO for more details on the propanediol utilisation pathway and the pdu operon.; GO: 0005524 ATP binding, 0006576 cellular biogenic amine metabolic process

>cd03269 ABC_putative_ATPase This subfamily is involved in drug resistance, nodulation, lipid transport, and bacteriocin and lantibiotic immunity

Probab=94.60  E-value=0.047  Score=47.77  Aligned_cols=34  Identities=15%  Similarity=0.070  Sum_probs=26.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhccccccccccceEEEE
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTC  197 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~  197 (385)
                      .+++|+|..|.|||||++.+...   .......+|+.
T Consensus        27 ~~~~i~G~nGsGKSTLl~~l~G~---~~~~~G~i~~~   60 (210)
T cd03269          27 EIFGLLGPNGAGKTTTIRMILGI---ILPDSGEVLFD   60 (210)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCC---CCCCceEEEEC
Confidence            68999999999999999999874   22345556553

In eubacteria and archaea, the typical organization consists of one ABC and one or two IMs. Eukaryote systems of the ABCA subfamily display ABC domains strongly similar to this family. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region in addition to the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>TIGR03156 GTP_HflX GTP-binding protein HflX

Probab=94.58  E-value=0.13  Score=48.95  Aligned_cols=57  Identities=18%  Similarity=0.377  Sum_probs=40.8

Q ss_pred             hHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHhcCCCCCCCCceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          119 DHMMAAKIEDRTIRLQEIEKDKEKEETVKLLLRDDLRTDDGLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       119 ~~~~~~~i~~~~~~l~~i~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ++.+..++.+++..++.+....+......        ...+...|+|+|.+++|||||...+.+.
T Consensus       156 ~~~i~~ri~~l~~~L~~~~~~~~~~r~~r--------~~~~~~~ValvG~~NvGKSSLln~L~~~  212 (351)
T TIGR03156       156 RRLIRERIAQLKKELEKVEKQRERQRRRR--------KRADVPTVALVGYTNAGKSTLFNALTGA  212 (351)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhhh--------cccCCcEEEEECCCCCCHHHHHHHHhCC
Confidence            34577888888888887765443333321        1134567999999999999999998875

This protein family is one of a number of homologous small, well-conserved GTP-binding proteins with pleiotropic effects. Bacterial members are designated HflX, following the naming convention in Escherichia coli where HflX is encoded immediately downstream of the RNA chaperone Hfq, and immediately upstream of HflKC, a membrane-associated protease pair with an important housekeeping function. Over large numbers of other bacterial genomes, the pairing with hfq is more significant than with hflK and hlfC. The gene from Homo sapiens in this family has been named PGPL (pseudoautosomal GTP-binding protein-like).

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

Probab=94.56  E-value=0.027  Score=45.69  Aligned_cols=23  Identities=35%  Similarity=0.329  Sum_probs=20.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhc
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      ..-|.|.|.||+|||||+..+..
T Consensus         7 ~PNILvtGTPG~GKstl~~~lae   29 (176)
T KOG3347|consen    7 RPNILVTGTPGTGKSTLAERLAE   29 (176)
T ss_pred             CCCEEEeCCCCCCchhHHHHHHH
Confidence            35688999999999999999985

>PRK13695 putative NTPase; Provisional

Probab=94.56  E-value=0.032  Score=47.31  Aligned_cols=22  Identities=36%  Similarity=0.300  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcc
Q 038448          162 VIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .|.|+|.+|+|||||++.+++.
T Consensus         2 ~i~ltG~~G~GKTTll~~i~~~   23 (174)
T PRK13695          2 KIGITGPPGVGKTTLVLKIAEL   23 (174)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            4789999999999999998875

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

Probab=94.56  E-value=0.13  Score=48.30  Aligned_cols=53  Identities=23%  Similarity=0.259  Sum_probs=45.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecCCCCHHHHHHHHHHHhh
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDFDIIRVTKSILKSIA  216 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~il~~l~  216 (385)
                      -+..|-|.|..|.|||.+.+++++...     -..+|++.-+.|+...++..|+.+..
T Consensus        29 ~PS~~~iyG~sgTGKT~~~r~~l~~~n-----~~~vw~n~~ecft~~~lle~IL~~~~   81 (438)
T KOG2543|consen   29 IPSIVHIYGHSGTGKTYLVRQLLRKLN-----LENVWLNCVECFTYAILLEKILNKSQ   81 (438)
T ss_pred             cceeEEEeccCCCchhHHHHHHHhhcC-----CcceeeehHHhccHHHHHHHHHHHhc
Confidence            456678999999999999999998642     13589999999999999999999985

>PF01926 MMR_HSR1: 50S ribosome-binding GTPase; InterPro: IPR002917 Human HSR1, has been localized to the human MHC class I region and is highly homologous to a putative GTP-binding protein, MMR1 from mouse

Probab=94.55  E-value=0.033  Score=43.59  Aligned_cols=21  Identities=33%  Similarity=0.539  Sum_probs=19.5

Q ss_pred             EEEEcCCCCcHHHHHHHHhcc
Q 038448          163 IPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       163 i~I~G~gGiGKTtLA~~v~~~  183 (385)
                      |+|+|++|+|||||...+.+.
T Consensus         2 V~iiG~~~~GKSTlin~l~~~   22 (116)
T PF01926_consen    2 VAIIGRPNVGKSTLINALTGK   22 (116)
T ss_dssp             EEEEESTTSSHHHHHHHHHTS
T ss_pred             EEEECCCCCCHHHHHHHHhcc
Confidence            789999999999999999974

These proteins represent a new subfamily of GTP-binding proteins that has both prokaryote and eukaryote members [].; GO: 0005525 GTP binding, 0005622 intracellular; PDB: 2DWQ_B 2DBY_A 3CNN_A 3CNO_A 3CNL_A 3IBY_A 1PUI_B 1WXQ_A 1LNZ_A 3GEE_A ....

>cd03265 ABC_DrrA DrrA is the ATP-binding protein component of a bacterial exporter complex that confers resistance to the antibiotics daunorubicin and doxorubicin

Probab=94.55  E-value=0.048  Score=48.10  Aligned_cols=34  Identities=18%  Similarity=0.186  Sum_probs=26.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhccccccccccceEEEE
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTC  197 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~  197 (385)
                      .+++|+|..|.|||||.+.+..-   .......+|+.
T Consensus        27 e~~~i~G~nGsGKSTLl~~i~G~---~~~~~G~i~~~   60 (220)
T cd03265          27 EIFGLLGPNGAGKTTTIKMLTTL---LKPTSGRATVA   60 (220)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC---CCCCceEEEEC
Confidence            68999999999999999999873   23345556553

In addition to DrrA, the complex includes an integral membrane protein called DrrB. DrrA belongs to the ABC family of transporters and shares sequence and functional similarities with a protein found in cancer cells called P-glycoprotein. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region in addition to the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK08699 DNA polymerase III subunit delta'; Validated

Probab=94.55  E-value=0.27  Score=46.14  Aligned_cols=128  Identities=12%  Similarity=0.107  Sum_probs=64.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhccc-----cccc---------------cccceEEEEecC----------CCCHHHHH
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSDV-----RVHN---------------HFDLKAWTCVSE----------DFDIIRVT  208 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~~-----~~~~---------------~F~~~~wv~vs~----------~~~~~~~~  208 (385)
                      -...+.++|+.|+||||+|..+....     ....               ..+-..++.-..          ... .+-.
T Consensus        20 ~~hA~Lf~G~~G~GK~~la~~~a~~llC~~~~~~~~~Cg~C~~C~~~~~~~HpD~~~~~p~~~~~~~g~~~~~I~-id~i   98 (325)
T PRK08699         20 RPNAWLFAGKKGIGKTAFARFAAQALLCETPAPGHKPCGECMSCHLFGQGSHPDFYEITPLSDEPENGRKLLQIK-IDAV   98 (325)
T ss_pred             cceEEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCcCHHHHHHhcCCCCCEEEEecccccccccccCCCcC-HHHH
Confidence            34678899999999999998765431     0000               001122332210          112 2334


Q ss_pred             HHHHHHhhcCCCCC---ccchHHhh--chhhHhhHhhhccCCCCCcEEEEEcCChh-HHhhcCC-CCcccCCCCChhhHH
Q 038448          209 KSILKSIASDQLVD---DHDLNLLQ--KYNDWTNRSRLFEAGAPGSKIVFTTRNLG-VAEKMGP-LPAYPLKELSNDDCL  281 (385)
Q Consensus       209 ~~il~~l~~~~~~~---~~~~~~l~--~~~~w~~l~~~l~~~~~gs~IivTTR~~~-va~~~~~-~~~~~l~~L~~~~a~  281 (385)
                      +++.+.+.......   .--++...  +...-+.+...+.....++.+|++|.+.. +...+.. -..+.+.+++.++..
T Consensus        99 R~l~~~~~~~p~~~~~kV~iiEp~~~Ld~~a~naLLk~LEep~~~~~~Ilvth~~~~ll~ti~SRc~~~~~~~~~~~~~~  178 (325)
T PRK08699         99 REIIDNVYLTSVRGGLRVILIHPAESMNLQAANSLLKVLEEPPPQVVFLLVSHAADKVLPTIKSRCRKMVLPAPSHEEAL  178 (325)
T ss_pred             HHHHHHHhhCcccCCceEEEEechhhCCHHHHHHHHHHHHhCcCCCEEEEEeCChHhChHHHHHHhhhhcCCCCCHHHHH
Confidence            45555554332210   00011111  22333334444433334566777777654 4433222 256889999999988


Q ss_pred             hhhhcc
Q 038448          282 SVFSPH  287 (385)
Q Consensus       282 ~Lf~~~  287 (385)
                      ..+...
T Consensus       179 ~~L~~~  184 (325)
T PRK08699        179 AYLRER  184 (325)
T ss_pred             HHHHhc
Confidence            777543

>PRK09435 membrane ATPase/protein kinase; Provisional

Probab=94.55  E-value=0.039  Score=51.72  Aligned_cols=26  Identities=23%  Similarity=0.225  Sum_probs=22.6

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          158 DGLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       158 ~~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ....+|+|.|.+|+|||||+..+...
T Consensus        54 ~~~~~igi~G~~GaGKSTl~~~l~~~   79 (332)
T PRK09435         54 GNALRIGITGVPGVGKSTFIEALGMH   79 (332)
T ss_pred             CCcEEEEEECCCCCCHHHHHHHHHHH
Confidence            46789999999999999999887653

>TIGR02238 recomb_DMC1 meiotic recombinase Dmc1

Probab=94.55  E-value=0.081  Score=49.36  Aligned_cols=57  Identities=19%  Similarity=0.237  Sum_probs=40.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhccccccc----cccceEEEEecCCCCHHHHHHHHHHHhh
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSDVRVHN----HFDLKAWTCVSEDFDIIRVTKSILKSIA  216 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~----~F~~~~wv~vs~~~~~~~~~~~il~~l~  216 (385)
                      .-+++-|+|.+|+|||+|+.+++-......    .=..++||+....|+..++.. +++.++
T Consensus        95 ~G~iteI~G~~GsGKTql~lqla~~~~~~~~~gg~~~~vvYIdtE~~f~~eRi~~-~a~~~g  155 (313)
T TIGR02238        95 SMSITEVFGEFRCGKTQLSHTLCVTAQLPREMGGGNGKVAYIDTEGTFRPDRIRA-IAERFG  155 (313)
T ss_pred             CCeEEEEECCCCCCcCHHHHHHHHHHhcchhhcCCCCeEEEEEcCCCCCHHHHHH-HHHHcC
Confidence            447889999999999999987653221211    113688999888888877654 555554

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.

>cd01131 PilT Pilus retraction ATPase PilT

Probab=94.52  E-value=0.043  Score=47.63  Aligned_cols=23  Identities=17%  Similarity=0.212  Sum_probs=19.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .+|.|+|+.|.||||++..+...
T Consensus         2 GlilI~GptGSGKTTll~~ll~~   24 (198)
T cd01131           2 GLVLVTGPTGSGKSTTLAAMIDY   24 (198)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHH
Confidence            47899999999999999877653

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.

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

Probab=94.51  E-value=0.027  Score=48.45  Aligned_cols=21  Identities=29%  Similarity=0.292  Sum_probs=19.2

Q ss_pred             EEEEcCCCCcHHHHHHHHhcc
Q 038448          163 IPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       163 i~I~G~gGiGKTtLA~~v~~~  183 (385)
                      |.|.|++|+||||+|+.+...
T Consensus         2 I~i~G~pGsGKst~a~~La~~   22 (194)
T cd01428           2 ILLLGPPGSGKGTQAERLAKK   22 (194)
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            789999999999999999774

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

>COG2884 FtsE Predicted ATPase involved in cell division [Cell division and chromosome partitioning]

Probab=94.51  E-value=0.067  Score=45.41  Aligned_cols=25  Identities=28%  Similarity=0.441  Sum_probs=22.2

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhccc
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSDV  184 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~~  184 (385)
                      -..+-++|++|.|||||.+.+|..+
T Consensus        28 Gef~fl~GpSGAGKSTllkLi~~~e   52 (223)
T COG2884          28 GEFVFLTGPSGAGKSTLLKLIYGEE   52 (223)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhhh
Confidence            3678999999999999999999864

>PHA02244 ATPase-like protein

Probab=94.51  E-value=0.09  Score=49.70  Aligned_cols=36  Identities=17%  Similarity=0.206  Sum_probs=26.0

Q ss_pred             hhHHHHHHHHhcCCCCCCCCceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          140 KEKEETVKLLLRDDLRTDDGLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       140 ~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .....+..++...        .-|.|+|++|+|||+||+.+...
T Consensus       107 ~~~~ri~r~l~~~--------~PVLL~GppGtGKTtLA~aLA~~  142 (383)
T PHA02244        107 YETADIAKIVNAN--------IPVFLKGGAGSGKNHIAEQIAEA  142 (383)
T ss_pred             HHHHHHHHHHhcC--------CCEEEECCCCCCHHHHHHHHHHH
Confidence            3445555555332        23678999999999999999874

>TIGR03574 selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal

Probab=94.50  E-value=0.025  Score=51.05  Aligned_cols=22  Identities=23%  Similarity=0.365  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcc
Q 038448          162 VIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .|.++|++|+||||+|+.+...
T Consensus         1 LIvl~G~pGSGKST~a~~La~~   22 (249)
T TIGR03574         1 LIILTGLPGVGKSTFSKELAKK   22 (249)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHH
Confidence            3789999999999999998764

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.

>PRK14532 adenylate kinase; Provisional

Probab=94.50  E-value=0.028  Score=48.24  Aligned_cols=21  Identities=24%  Similarity=0.313  Sum_probs=18.9

Q ss_pred             EEEEcCCCCcHHHHHHHHhcc
Q 038448          163 IPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       163 i~I~G~gGiGKTtLA~~v~~~  183 (385)
                      |.++|++|+||||+|+.+...
T Consensus         3 i~~~G~pGsGKsT~a~~la~~   23 (188)
T PRK14532          3 LILFGPPAAGKGTQAKRLVEE   23 (188)
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            678999999999999999763

>cd03222 ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibitor (RLI) is a key enzyme in ribosomal biogenesis, formation of translation preinitiation complexes, and assembly of HIV capsids

Probab=94.49  E-value=0.054  Score=46.09  Aligned_cols=23  Identities=35%  Similarity=0.501  Sum_probs=21.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .+++|+|..|.|||||.+.+..-
T Consensus        26 e~~~l~G~nGsGKSTLl~~l~Gl   48 (177)
T cd03222          26 EVIGIVGPNGTGKTTAVKILAGQ   48 (177)
T ss_pred             CEEEEECCCCChHHHHHHHHHcC
Confidence            68999999999999999999863

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.

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

Probab=94.49  E-value=0.052  Score=47.51  Aligned_cols=23  Identities=30%  Similarity=0.413  Sum_probs=21.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .+++|+|..|.|||||++.++.-
T Consensus        28 ~~~~l~G~nGsGKSTLl~~l~G~   50 (211)
T cd03225          28 EFVLIVGPNGSGKSTLLRLLNGL   50 (211)
T ss_pred             cEEEEECCCCCCHHHHHHHHhcC
Confidence            68999999999999999999874

The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC transport system of the CbiMNQO family is involved in cobalt transport in association with the cobalamin (vitamin B12) biosynthetic pathways. Most of cobalt (Cbi) transport systems possess a separate CbiN component, the cobalt-binding periplasmic protein, and they are encoded by the conserved gene cluster cbiMNQO. Both the CbiM and CbiQ proteins are integral cytoplasmic membrane proteins, and the CbiO protein has the linker peptide and the Walker A and B motifs commonly found in the ATPase components of the ABC-type transport systems.

>PF10443 RNA12: RNA12 protein; InterPro: IPR018850 Mitochondrial escape protein 2 (also known as RNA12) plays a role in maintaining the mitochondrial genome and in controlling mtDNA escape [, ]

Probab=94.48  E-value=3.6  Score=39.69  Aligned_cols=79  Identities=8%  Similarity=0.053  Sum_probs=48.7

Q ss_pred             CcEEEEEcCChhHHhhcC------CCCcccCCCCChhhHHhhhhccccCCCCC------------CCC----ccHHHHHH
Q 038448          248 GSKIVFTTRNLGVAEKMG------PLPAYPLKELSNDDCLSVFSPHSLGEKDF------------STH----PSLKEIGE  305 (385)
Q Consensus       248 gs~IivTTR~~~va~~~~------~~~~~~l~~L~~~~a~~Lf~~~a~~~~~~------------~~~----~~l~~~~~  305 (385)
                      -.+||++|-+........      ..+.+.|...+++.|..+...+.-.....            ...    .....-..
T Consensus       183 IAHVIFlT~dv~~~k~LskaLPn~vf~tI~L~Das~~~Ak~yV~~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~eld  262 (431)
T PF10443_consen  183 IAHVIFLTDDVSYSKPLSKALPNRVFKTISLSDASPESAKQYVLSQLDEDTEDSSDSKESNEQNKNDKSAENEKDLAELD  262 (431)
T ss_pred             ccEEEEECCCCchhhhHHHhCCCCceeEEeecCCCHHHHHHHHHHHhcccccccccccccccccccccccccccchHHHH
Confidence            347888887765554332      22567899999999999888775332110            000    12333445


Q ss_pred             HHHHHcCCChHHHHHHHHHhh
Q 038448          306 KIVKKCNGLPLVAKSLGGLLR  326 (385)
Q Consensus       306 ~i~~~c~glPLAi~~~~~~L~  326 (385)
                      ..+..+||=-.=+..+++.++
T Consensus       263 ~~i~~LGGRltDLe~lvrRik  283 (431)
T PF10443_consen  263 ECIEPLGGRLTDLEFLVRRIK  283 (431)
T ss_pred             HHHHHcCCcHHHHHHHHHHHH
Confidence            677777887777777777664

It is also involved in the regulation of mtDNA nucleotide structure and number []. Additionally, this protein have a dispensable role in the early maturation of pre-rRNA [].

>TIGR02173 cyt_kin_arch cytidylate kinase, putative

Probab=94.48  E-value=0.031  Score=46.96  Aligned_cols=22  Identities=36%  Similarity=0.490  Sum_probs=20.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcc
Q 038448          162 VIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      +|.|.|..|+||||+|+.+.+.
T Consensus         2 iI~i~G~~GSGKstia~~la~~   23 (171)
T TIGR02173         2 IITISGPPGSGKTTVAKILAEK   23 (171)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            7899999999999999999763

Proteins in this family are believed to be cytidylate kinase. Members of this family are found in the archaea and in spirochaetes, and differ considerably from the common bacterial form of cytidylate kinase described by TIGR00017.

>PRK10416 signal recognition particle-docking protein FtsY; Provisional

Probab=94.47  E-value=0.038  Score=51.62  Aligned_cols=26  Identities=27%  Similarity=0.273  Sum_probs=22.4

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          158 DGLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       158 ~~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ....++.++|++|+||||++..+...
T Consensus       112 ~~~~vi~lvGpnGsGKTTt~~kLA~~  137 (318)
T PRK10416        112 KKPFVILVVGVNGVGKTTTIGKLAHK  137 (318)
T ss_pred             CCCeEEEEECCCCCcHHHHHHHHHHH
Confidence            35689999999999999999888764

>PRK06761 hypothetical protein; Provisional

Probab=94.47  E-value=0.061  Score=49.14  Aligned_cols=23  Identities=30%  Similarity=0.315  Sum_probs=21.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ++|.|.|++|+||||+++.++..
T Consensus         4 ~lIvI~G~~GsGKTTla~~L~~~   26 (282)
T PRK06761          4 KLIIIEGLPGFGKSTTAKMLNDI   26 (282)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHh
Confidence            58999999999999999999986

>PRK00771 signal recognition particle protein Srp54; Provisional

Probab=94.46  E-value=0.11  Score=50.69  Aligned_cols=26  Identities=27%  Similarity=0.118  Sum_probs=22.5

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          158 DGLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       158 ~~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ..+.+|.++|.+|+||||++..+...
T Consensus        93 ~~p~vI~lvG~~GsGKTTtaakLA~~  118 (437)
T PRK00771         93 LKPQTIMLVGLQGSGKTTTAAKLARY  118 (437)
T ss_pred             CCCeEEEEECCCCCcHHHHHHHHHHH
Confidence            35789999999999999999888754

>PRK15453 phosphoribulokinase; Provisional

Probab=94.45  E-value=0.036  Score=50.32  Aligned_cols=24  Identities=21%  Similarity=0.314  Sum_probs=21.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      ...+|+|.|.+|+||||+|+.+.+
T Consensus         4 k~piI~ItG~SGsGKTTva~~l~~   27 (290)
T PRK15453          4 KHPIIAVTGSSGAGTTTVKRAFEK   27 (290)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH
Confidence            457999999999999999998875

>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=94.44  E-value=0.056  Score=45.96  Aligned_cols=23  Identities=22%  Similarity=0.387  Sum_probs=21.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .+++|+|..|.|||||++.+...
T Consensus        27 ~~~~i~G~nGsGKSTLl~~l~G~   49 (178)
T cd03229          27 EIVALLGPSGSGKSTLLRCIAGL   49 (178)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            68999999999999999999863

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.

>KOG0738 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=94.43  E-value=0.11  Score=48.89  Aligned_cols=25  Identities=24%  Similarity=0.324  Sum_probs=22.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ..+-|..+|++|.|||-||++|+..
T Consensus       244 PWkgvLm~GPPGTGKTlLAKAvATE  268 (491)
T KOG0738|consen  244 PWKGVLMVGPPGTGKTLLAKAVATE  268 (491)
T ss_pred             ccceeeeeCCCCCcHHHHHHHHHHh
Confidence            4577899999999999999999984

>cd03221 ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth

Probab=94.41  E-value=0.057  Score=44.23  Aligned_cols=23  Identities=30%  Similarity=0.494  Sum_probs=21.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .+++|+|..|.|||||++.+...
T Consensus        27 e~~~i~G~nGsGKStLl~~l~G~   49 (144)
T cd03221          27 DRIGLVGRNGAGKSTLLKLIAGE   49 (144)
T ss_pred             CEEEEECCCCCCHHHHHHHHcCC
Confidence            68999999999999999999874

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.

>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family

Probab=94.41  E-value=0.14  Score=45.81  Aligned_cols=48  Identities=15%  Similarity=0.193  Sum_probs=33.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecCCCCHHHHHHH
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDFDIIRVTKS  210 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~  210 (385)
                      .-.++.|.|.+|.|||+||.++.... . ..-..++||+...  +...+.+.
T Consensus        20 ~gs~~lI~G~pGsGKT~la~~~l~~~-~-~~ge~~lyvs~ee--~~~~i~~~   67 (237)
T TIGR03877        20 ERNVVLLSGGPGTGKSIFSQQFLWNG-L-QMGEPGIYVALEE--HPVQVRRN   67 (237)
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHH-H-HcCCcEEEEEeeC--CHHHHHHH
Confidence            45889999999999999998865431 2 2345678888765  34455554

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.

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

Probab=94.41  E-value=0.036  Score=46.26  Aligned_cols=23  Identities=35%  Similarity=0.403  Sum_probs=21.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ++++|+|..|+|||||+..+...
T Consensus         2 ~vi~i~G~~gsGKTTli~~L~~~   24 (159)
T cd03116           2 KVIGFVGYSGSGKTTLLEKLIPA   24 (159)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            58999999999999999998874

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

>PRK01184 hypothetical protein; Provisional

Probab=94.40  E-value=0.033  Score=47.60  Aligned_cols=18  Identities=22%  Similarity=0.493  Sum_probs=16.6

Q ss_pred             eEEEEEcCCCCcHHHHHH
Q 038448          161 SVIPIIGTGRIGKTTLAQ  178 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~  178 (385)
                      .+|+|+|++|+||||+++
T Consensus         2 ~~i~l~G~~GsGKsT~a~   19 (184)
T PRK01184          2 KIIGVVGMPGSGKGEFSK   19 (184)
T ss_pred             cEEEEECCCCCCHHHHHH
Confidence            489999999999999987

>cd03293 ABC_NrtD_SsuB_transporters NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively

Probab=94.40  E-value=0.054  Score=47.75  Aligned_cols=23  Identities=22%  Similarity=0.420  Sum_probs=21.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .+++|+|..|.|||||++.+..-
T Consensus        31 ~~~~i~G~nGsGKSTLl~~l~Gl   53 (220)
T cd03293          31 EFVALVGPSGCGKSTLLRIIAGL   53 (220)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCC
Confidence            58999999999999999999874

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.

>TIGR02012 tigrfam_recA protein RecA

Probab=94.40  E-value=0.049  Score=50.74  Aligned_cols=43  Identities=28%  Similarity=0.274  Sum_probs=29.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecCCCC
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDFD  203 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~  203 (385)
                      .-+++-|+|++|+||||||.++...  ....-..++||..-..++
T Consensus        54 ~G~iteI~G~~GsGKTtLaL~~~~~--~~~~g~~v~yId~E~~~~   96 (321)
T TIGR02012        54 RGRIIEIYGPESSGKTTLALHAIAE--AQKAGGTAAFIDAEHALD   96 (321)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHH--HHHcCCcEEEEcccchhH
Confidence            4579999999999999999887654  222334566776544333

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.

>cd03264 ABC_drug_resistance_like ABC-type multidrug transport system, ATPase component

Probab=94.38  E-value=0.05  Score=47.61  Aligned_cols=33  Identities=18%  Similarity=0.119  Sum_probs=25.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHhccccccccccceEEEE
Q 038448          162 VIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTC  197 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~  197 (385)
                      +++|+|..|.|||||++.++.-   .......+++.
T Consensus        27 ~~~i~G~nGsGKSTLl~~l~Gl---~~~~~G~i~~~   59 (211)
T cd03264          27 MYGLLGPNGAGKTTLMRILATL---TPPSSGTIRID   59 (211)
T ss_pred             cEEEECCCCCCHHHHHHHHhCC---CCCCccEEEEC
Confidence            8999999999999999999873   23344556553

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.

>PF03215 Rad17: Rad17 cell cycle checkpoint protein

Probab=94.38  E-value=0.061  Score=53.64  Aligned_cols=50  Identities=20%  Similarity=0.269  Sum_probs=33.1

Q ss_pred             HHHHHHHhcCCCCCCCCceEEEEEcCCCCcHHHHHHHHhccccccccccceEEEE
Q 038448          143 EETVKLLLRDDLRTDDGLSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTC  197 (385)
Q Consensus       143 ~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~  197 (385)
                      +++.+||..... .....+++.+.|++|+||||.++.+.+.    -.|+..-|.+
T Consensus        29 ~eV~~wl~~~~~-~~~~~~iLlLtGP~G~GKtttv~~La~e----lg~~v~Ew~n   78 (519)
T PF03215_consen   29 EEVRSWLEEMFS-GSSPKRILLLTGPSGCGKTTTVKVLAKE----LGFEVQEWIN   78 (519)
T ss_pred             HHHHHHHHHHhc-cCCCcceEEEECCCCCCHHHHHHHHHHH----hCCeeEEecC
Confidence            344555543222 2234579999999999999999998874    2355555654

>smart00173 RAS Ras subfamily of RAS small GTPases

Probab=94.37  E-value=0.034  Score=46.22  Aligned_cols=22  Identities=23%  Similarity=0.484  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcc
Q 038448          162 VIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      -|.|+|.+|+|||||+.++.+.
T Consensus         2 ki~v~G~~~~GKTsli~~~~~~   23 (164)
T smart00173        2 KLVVLGSGGVGKSALTIQFVQG   23 (164)
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            3789999999999999998764

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

>PF13245 AAA_19: Part of AAA domain

Probab=94.37  E-value=0.044  Score=39.50  Aligned_cols=23  Identities=22%  Similarity=0.163  Sum_probs=16.9

Q ss_pred             ceEEEEEcCCCCcHHHHH-HHHhc
Q 038448          160 LSVIPIIGTGRIGKTTLA-QLAYS  182 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA-~~v~~  182 (385)
                      -+++.|.|.+|.|||+++ ..+..
T Consensus        10 ~~~~vv~g~pGtGKT~~~~~~i~~   33 (76)
T PF13245_consen   10 SPLFVVQGPPGTGKTTTLAARIAE   33 (76)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHH
Confidence            367888999999999554 44433

>COG3899 Predicted ATPase [General function prediction only]

Probab=94.37  E-value=0.38  Score=51.19  Aligned_cols=55  Identities=20%  Similarity=0.146  Sum_probs=42.4

Q ss_pred             CCcccCCCCChhhHHhhhhccccCCCCCCCCccHHHHHHHHHHHcCCChHHHHHHHHHhh
Q 038448          267 LPAYPLKELSNDDCLSVFSPHSLGEKDFSTHPSLKEIGEKIVKKCNGLPLVAKSLGGLLR  326 (385)
Q Consensus       267 ~~~~~l~~L~~~~a~~Lf~~~a~~~~~~~~~~~l~~~~~~i~~~c~glPLAi~~~~~~L~  326 (385)
                      ...+.|.||+..+.-.+.........     ....+....|+++..|.|+-+.-+-..|.
T Consensus       211 i~~I~L~PL~~~d~~~lV~~~l~~~~-----~~~~p~~~~i~~kt~GnPfFi~e~lk~l~  265 (849)
T COG3899         211 ITTITLAPLSRADTNQLVAATLGCTK-----LLPAPLLELIFEKTKGNPFFIEEFLKALY  265 (849)
T ss_pred             eeEEecCcCchhhHHHHHHHHhCCcc-----cccchHHHHHHHHhcCCCccHHHHHHHHH
Confidence            36789999999999888776542211     22356788899999999999998888877

>cd03263 ABC_subfamily_A The ABCA subfamily mediates the transport of a variety of lipid compounds

Probab=94.36  E-value=0.057  Score=47.61  Aligned_cols=33  Identities=18%  Similarity=0.274  Sum_probs=25.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhccccccccccceEEE
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWT  196 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv  196 (385)
                      .+++|+|..|.|||||.+.++.-   .......+++
T Consensus        29 e~~~i~G~nGsGKSTLl~~l~Gl---~~~~~G~i~~   61 (220)
T cd03263          29 EIFGLLGHNGAGKTTTLKMLTGE---LRPTSGTAYI   61 (220)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCC---CCCCCcEEEE
Confidence            58999999999999999999873   2334455544

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.

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

Probab=94.36  E-value=0.049  Score=50.80  Aligned_cols=43  Identities=28%  Similarity=0.255  Sum_probs=30.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecCCCC
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDFD  203 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~  203 (385)
                      .-+++-|+|++|+||||||.+++-.  ....-..++||+....++
T Consensus        54 ~G~iteI~Gp~GsGKTtLal~~~~~--~~~~g~~~vyId~E~~~~   96 (325)
T cd00983          54 KGRIIEIYGPESSGKTTLALHAIAE--AQKLGGTVAFIDAEHALD   96 (325)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHH--HHHcCCCEEEECccccHH
Confidence            4578889999999999999987654  223334567776554443

RecA couples ATP hydrolysis to DNA strand exchange.

>TIGR03864 PQQ_ABC_ATP ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system

Probab=94.35  E-value=0.056  Score=48.28  Aligned_cols=23  Identities=26%  Similarity=0.392  Sum_probs=21.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .+++|+|..|.|||||++.+..-
T Consensus        28 e~~~i~G~nGsGKSTLl~~l~G~   50 (236)
T TIGR03864        28 EFVALLGPNGAGKSTLFSLLTRL   50 (236)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            68999999999999999999863

Members of this protein family are the ATP-binding subunit of an ABC transporter system that is associated with PQQ biosynthesis and PQQ-dependent alcohol dehydrogenases. While this family shows homology to several efflux ABC transporter subunits, the presence of a periplasmic substrate-binding protein and association with systems for catabolism of alcohols suggests a role in import rather than detoxification.

>TIGR01425 SRP54_euk signal recognition particle protein SRP54

Probab=94.35  E-value=0.071  Score=51.62  Aligned_cols=25  Identities=28%  Similarity=0.208  Sum_probs=21.6

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHhc
Q 038448          158 DGLSVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       158 ~~~~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      ..+.+|.++|.+|+||||++.++..
T Consensus        98 ~~~~vi~lvG~~GvGKTTtaaKLA~  122 (429)
T TIGR01425        98 GKQNVIMFVGLQGSGKTTTCTKLAY  122 (429)
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHH
Confidence            3478999999999999999987764

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.

>cd01862 Rab7 Rab7 subfamily

Probab=94.34  E-value=0.036  Score=46.41  Aligned_cols=22  Identities=27%  Similarity=0.440  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcc
Q 038448          162 VIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      -|+|+|.+|+|||||+..+.+.
T Consensus         2 ki~viG~~~~GKSsl~~~l~~~   23 (172)
T cd01862           2 KVIILGDSGVGKTSLMNQYVNK   23 (172)
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            3789999999999999998765

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

>cd03224 ABC_TM1139_LivF_branched LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids

Probab=94.32  E-value=0.059  Score=47.54  Aligned_cols=33  Identities=18%  Similarity=0.154  Sum_probs=25.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhccccccccccceEEE
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWT  196 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv  196 (385)
                      .+++|+|..|.|||||++.+..-   .......+++
T Consensus        27 e~~~i~G~nGsGKSTLl~~l~Gl---~~~~~G~i~~   59 (222)
T cd03224          27 EIVALLGRNGAGKTTLLKTIMGL---LPPRSGSIRF   59 (222)
T ss_pred             eEEEEECCCCCCHHHHHHHHhCC---CCCCCceEEE
Confidence            68999999999999999999873   2334455555

The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a heterodimer of six-helix TM domains (LivM and LivH), and one of two alternative soluble periplasmic substrate binding proteins (LivK or LivJ). ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules.

>PRK14531 adenylate kinase; Provisional

Probab=94.31  E-value=0.035  Score=47.46  Aligned_cols=23  Identities=22%  Similarity=0.212  Sum_probs=20.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ..|.|+|++|+||||+++.+...
T Consensus         3 ~~i~i~G~pGsGKsT~~~~la~~   25 (183)
T PRK14531          3 QRLLFLGPPGAGKGTQAARLCAA   25 (183)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHH
Confidence            35889999999999999999764

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

Probab=94.31  E-value=0.037  Score=48.97  Aligned_cols=22  Identities=32%  Similarity=0.531  Sum_probs=20.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      .+|+|+|++|+|||||-+.+..
T Consensus        30 EfvsilGpSGcGKSTLLriiAG   51 (248)
T COG1116          30 EFVAILGPSGCGKSTLLRLIAG   51 (248)
T ss_pred             CEEEEECCCCCCHHHHHHHHhC
Confidence            5899999999999999999864

>CHL00095 clpC Clp protease ATP binding subunit

Probab=94.31  E-value=0.044  Score=58.21  Aligned_cols=41  Identities=27%  Similarity=0.341  Sum_probs=32.4

Q ss_pred             hhhhhHHHHHHHHhcCCCCCCCCceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          137 EKDKEKEETVKLLLRDDLRTDDGLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       137 ~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      +++++.+.++++|.....      .-+.++|.+|+|||++|..+...
T Consensus       183 gr~~ei~~~~~~L~r~~~------~n~lL~G~pGvGKTal~~~la~~  223 (821)
T CHL00095        183 GREKEIERVIQILGRRTK------NNPILIGEPGVGKTAIAEGLAQR  223 (821)
T ss_pred             CcHHHHHHHHHHHccccc------CCeEEECCCCCCHHHHHHHHHHH
Confidence            348889999999965432      34569999999999999888764

>PTZ00088 adenylate kinase 1; Provisional

Probab=94.30  E-value=0.032  Score=49.54  Aligned_cols=22  Identities=27%  Similarity=0.450  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcc
Q 038448          162 VIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .|.|+|++|+||||+|+.+...
T Consensus         8 rIvl~G~PGsGK~T~a~~La~~   29 (229)
T PTZ00088          8 KIVLFGAPGVGKGTFAEILSKK   29 (229)
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            4889999999999999999764

>cd04163 Era Era subfamily

Probab=94.30  E-value=0.043  Score=45.27  Aligned_cols=24  Identities=25%  Similarity=0.448  Sum_probs=21.2

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ..+|+++|.+|+|||||...+...
T Consensus         3 ~~~i~~~G~~g~GKttl~~~l~~~   26 (168)
T cd04163           3 SGFVAIVGRPNVGKSTLLNALVGQ   26 (168)
T ss_pred             eeEEEEECCCCCCHHHHHHHHhCC
Confidence            367999999999999999998764

Era (E. coli Ras-like protein) is a multifunctional GTPase found in all bacteria except some eubacteria. It binds to the 16S ribosomal RNA (rRNA) of the 30S subunit and appears to play a role in the assembly of the 30S subunit, possibly by chaperoning the 16S rRNA. It also contacts several assembly elements of the 30S subunit. Era couples cell growth with cytokinesis and plays a role in cell division and energy metabolism. Homologs have also been found in eukaryotes. Era contains two domains: the N-terminal GTPase domain and a C-terminal domain KH domain that is critical for RNA binding. Both domains are important for Era function. Era is functionally able to compensate for deletion of RbfA, a cold-shock adaptation protein that is required for efficient processing of the 16S rRNA.

>TIGR00041 DTMP_kinase thymidylate kinase

Probab=94.30  E-value=0.091  Score=45.28  Aligned_cols=23  Identities=39%  Similarity=0.286  Sum_probs=21.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ..|+|.|..|+||||+++.+.+.
T Consensus         4 ~~IvieG~~GsGKsT~~~~L~~~   26 (195)
T TIGR00041         4 MFIVIEGIDGAGKTTQANLLKKL   26 (195)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            57999999999999999999875

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.

>COG0529 CysC Adenylylsulfate kinase and related kinases [Inorganic ion transport and metabolism]

Probab=94.29  E-value=0.046  Score=45.75  Aligned_cols=26  Identities=27%  Similarity=0.226  Sum_probs=22.9

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          158 DGLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       158 ~~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      +...+|-+.|.+|.||||+|..++..
T Consensus        21 ~~~~viW~TGLSGsGKSTiA~ale~~   46 (197)
T COG0529          21 QKGAVIWFTGLSGSGKSTIANALEEK   46 (197)
T ss_pred             CCCeEEEeecCCCCCHHHHHHHHHHH
Confidence            45579999999999999999999874

>TIGR01287 nifH nitrogenase iron protein

Probab=94.29  E-value=0.034  Score=50.96  Aligned_cols=23  Identities=39%  Similarity=0.476  Sum_probs=19.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      +.|+|+|-||+||||++..+..-
T Consensus         1 ~~ia~~gKGGVGKTT~a~nLA~~   23 (275)
T TIGR01287         1 RQIAIYGKGGIGKSTTTQNIAAA   23 (275)
T ss_pred             CeeEEeCCCcCcHHHHHHHHHHH
Confidence            46899999999999988766543

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

>cd04119 RJL RJL (RabJ-Like) subfamily

Probab=94.28  E-value=0.037  Score=45.97  Aligned_cols=21  Identities=14%  Similarity=0.327  Sum_probs=19.2

Q ss_pred             EEEEcCCCCcHHHHHHHHhcc
Q 038448          163 IPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       163 i~I~G~gGiGKTtLA~~v~~~  183 (385)
                      |.++|.+|+|||||+..+.+.
T Consensus         3 i~~vG~~~vGKTsli~~l~~~   23 (168)
T cd04119           3 VISMGNSGVGKSCIIKRYCEG   23 (168)
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            789999999999999998765

RJLs are found in many protists and as chimeras with C-terminal DNAJ domains in deuterostome metazoa. They are not found in plants, fungi, and protostome metazoa, suggesting a horizontal gene transfer between protists and deuterostome metazoa. RJLs lack any known membrane targeting signal and contain a degenerate phosphate/magnesium-binding 3 (PM3) motif, suggesting an impaired ability to hydrolyze GTP. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization.

>cd03266 ABC_NatA_sodium_exporter NatA is the ATPase component of a bacterial ABC-type Na+ transport system called NatAB, which catalyzes ATP-dependent electrogenic Na+ extrusion without mechanically coupled proton or K+ uptake

Probab=94.27  E-value=0.06  Score=47.36  Aligned_cols=34  Identities=21%  Similarity=0.032  Sum_probs=26.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhccccccccccceEEEE
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTC  197 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~  197 (385)
                      .+++|+|..|.|||||.+.+..-   .......+|+.
T Consensus        32 e~~~i~G~nGsGKSTLl~~l~Gl---~~~~~G~i~~~   65 (218)
T cd03266          32 EVTGLLGPNGAGKTTTLRMLAGL---LEPDAGFATVD   65 (218)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCC---cCCCCceEEEC
Confidence            68999999999999999999873   33445666663

NatB possess six putative membrane spanning regions at its C-terminus. In B. subtilus, NatAB is inducible by agents such as ethanol and protonophores, which lower the protonmotive force across the membrane. The closest sequence similarity to NatA is exhibited by DrrA of the two-component daunomycin- and doxorubicin-efflux system. Hence, the functional NatAB is presumably assembled with two copies of a single ATP-binding protein and a single intergral membrane protein.

>cd03226 ABC_cobalt_CbiO_domain2 Domain II of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota

Probab=94.27  E-value=0.06  Score=46.90  Aligned_cols=33  Identities=24%  Similarity=0.236  Sum_probs=25.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhccccccccccceEEE
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWT  196 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv  196 (385)
                      .+++|+|..|.|||||.+.++.-   .......+++
T Consensus        27 e~~~i~G~nGsGKSTLl~~l~Gl---~~p~~G~i~~   59 (205)
T cd03226          27 EIIALTGKNGAGKTTLAKILAGL---IKESSGSILL   59 (205)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcC---CCCCceEEEE
Confidence            58999999999999999999874   2334444544

The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. The CbiMNQO family ABC transport system is involved in cobalt transport in association with the cobalamin (vitamin B12) biosynthetic pathways. Most cobalt (Cbi) transport systems possess a separate CbiN component, the cobalt-binding periplasmic protein, and they are encoded by the conserved gene cluster cbiMNQO. Both the CbiM and CbiQ proteins are integral cytoplasmic membrane proteins, and the CbiO protein has the linker peptide and the Walker A and B motifs commonly found in the ATPase components of the ABC-type transport systems.

>COG1084 Predicted GTPase [General function prediction only]

Probab=94.27  E-value=0.61  Score=43.05  Aligned_cols=55  Identities=20%  Similarity=0.202  Sum_probs=37.4

Q ss_pred             HHHHHHHHHHHHHHHhhhhhhHHHHHHHHhcCCCCCCCCceEEEEEcCCCCcHHHHHHHHhc
Q 038448          121 MMAAKIEDRTIRLQEIEKDKEKEETVKLLLRDDLRTDDGLSVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       121 ~~~~~i~~~~~~l~~i~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      ++++-++++...|+-+      +++.+.|- ..+.-+++.+.|.|.|++-+|||||+..+-.
T Consensus       136 R~aSiik~i~~~L~fL------~~~r~~l~-~LP~Idp~~pTivVaG~PNVGKSSlv~~lT~  190 (346)
T COG1084         136 RVASIIKKIDDDLEFL------RKARDHLK-KLPAIDPDLPTIVVAGYPNVGKSSLVRKLTT  190 (346)
T ss_pred             HHHHHHHHhhHHHHHH------HHHHHHHh-cCCCCCCCCCeEEEecCCCCcHHHHHHHHhc
Confidence            5666666666666544      23333332 2232456889999999999999999999864

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

Probab=94.27  E-value=0.037  Score=50.48  Aligned_cols=23  Identities=35%  Similarity=0.472  Sum_probs=21.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ++|+|+|.+|+|||||+..+...
T Consensus         2 ~~i~i~G~~gSGKTTLi~~Li~~   24 (274)
T PRK14493          2 KVLSIVGYKATGKTTLVERLVDR   24 (274)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHH
Confidence            58999999999999999998875

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

Probab=94.25  E-value=0.032  Score=47.55  Aligned_cols=21  Identities=33%  Similarity=0.419  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHhc
Q 038448          162 VIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      +|+|+|+.|+||||++..+.+
T Consensus         1 ii~itG~~gsGKst~~~~l~~   21 (179)
T cd02022           1 IIGLTGGIGSGKSTVAKLLKE   21 (179)
T ss_pred             CEEEECCCCCCHHHHHHHHHH
Confidence            489999999999999999865

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

>PLN02796 D-glycerate 3-kinase

Probab=94.24  E-value=0.042  Score=51.47  Aligned_cols=25  Identities=32%  Similarity=0.088  Sum_probs=22.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .+-+|+|.|..|+|||||++.+...
T Consensus        99 ~pliIGI~G~sGSGKSTLa~~L~~l  123 (347)
T PLN02796         99 PPLVIGISAPQGCGKTTLVFALVYL  123 (347)
T ss_pred             CCEEEEEECCCCCcHHHHHHHHHHH
Confidence            5688999999999999999998864

>TIGR02211 LolD_lipo_ex lipoprotein releasing system, ATP-binding protein

Probab=94.22  E-value=0.063  Score=47.32  Aligned_cols=33  Identities=24%  Similarity=0.283  Sum_probs=25.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhccccccccccceEEE
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWT  196 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv  196 (385)
                      .+++|+|..|.|||||.+.++.-   .......+++
T Consensus        32 ~~~~i~G~nGsGKSTLl~~i~G~---~~~~~G~i~~   64 (221)
T TIGR02211        32 EIVAIVGSSGSGKSTLLHLLGGL---DNPTSGEVLF   64 (221)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCC---CCCCCcEEEE
Confidence            58999999999999999999874   2334455555

This model represents LolD, a member of the ABC transporter family (pfam00005). LolD is involved in localization of lipoproteins in some bacteria. It works with a transmembrane protein LolC, which in some species is a paralogous pair LolC and LolE. Depending on whether the residue immediately following the new, modified N-terminal Cys residue, the nascent lipoprotein may be carried further by LolA and LolB to the outer membrane, or remain at the inner membrane. The top scoring proteins excluded by this model include homologs from the archaeal genus Methanosarcina.

>PRK10584 putative ABC transporter ATP-binding protein YbbA; Provisional

Probab=94.22  E-value=0.062  Score=47.67  Aligned_cols=33  Identities=21%  Similarity=0.192  Sum_probs=25.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhccccccccccceEEE
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWT  196 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv  196 (385)
                      .+++|+|..|.|||||++.++.-   .......+++
T Consensus        37 e~~~i~G~nGsGKSTLl~~i~Gl---~~p~~G~i~~   69 (228)
T PRK10584         37 ETIALIGESGSGKSTLLAILAGL---DDGSSGEVSL   69 (228)
T ss_pred             CEEEEECCCCCCHHHHHHHHHcC---CCCCCeeEEE
Confidence            68999999999999999999873   2333444544

>PRK13540 cytochrome c biogenesis protein CcmA; Provisional

Probab=94.22  E-value=0.064  Score=46.54  Aligned_cols=34  Identities=24%  Similarity=0.152  Sum_probs=26.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhccccccccccceEEEE
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTC  197 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~  197 (385)
                      .+++|+|..|.|||||.+.+...   .......+++.
T Consensus        28 e~~~l~G~nGsGKSTLl~~i~G~---~~~~~G~v~~~   61 (200)
T PRK13540         28 GLLHLKGSNGAGKTTLLKLIAGL---LNPEKGEILFE   61 (200)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcC---CCCCCeeEEEC
Confidence            68999999999999999999874   23344556553

>PRK08099 bifunctional DNA-binding transcriptional repressor/ NMN adenylyltransferase; Provisional

Probab=94.21  E-value=0.035  Score=53.56  Aligned_cols=26  Identities=23%  Similarity=0.194  Sum_probs=23.0

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          158 DGLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       158 ~~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .-.+.|+|+|.+|.|||||++.+...
T Consensus       217 ~~~~~IvI~G~~gsGKTTL~~~La~~  242 (399)
T PRK08099        217 FFVRTVAILGGESSGKSTLVNKLANI  242 (399)
T ss_pred             CCCcEEEEEcCCCCCHHHHHHHHHHH
Confidence            45789999999999999999998863

>smart00072 GuKc Guanylate kinase homologues

Probab=94.21  E-value=0.051  Score=46.54  Aligned_cols=23  Identities=26%  Similarity=0.326  Sum_probs=21.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      +.|.|+|++|+|||||+..+...
T Consensus         3 r~ivl~Gpsg~GK~tl~~~L~~~   25 (184)
T smart00072        3 RPIVLSGPSGVGKGTLLAELIQE   25 (184)
T ss_pred             cEEEEECCCCCCHHHHHHHHHhc
Confidence            68999999999999999999875

Active enzymes catalyze ATP-dependent phosphorylation of GMP to GDP. Structure resembles that of adenylate kinase. So-called membrane-associated guanylate kinase homologues (MAGUKs) do not possess guanylate kinase activities; instead at least some possess protein-binding functions.

>TIGR02315 ABC_phnC phosphonate ABC transporter, ATP-binding protein

Probab=94.21  E-value=0.061  Score=48.18  Aligned_cols=33  Identities=21%  Similarity=0.160  Sum_probs=25.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhccccccccccceEEE
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWT  196 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv  196 (385)
                      .+++|+|..|.|||||++.+..-   .......+++
T Consensus        29 e~~~l~G~nGsGKSTLl~~l~Gl---~~~~~G~i~~   61 (243)
T TIGR02315        29 EFVAIIGPSGAGKSTLLRCINRL---VEPSSGSILL   61 (243)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC---cCCCccEEEE
Confidence            68999999999999999999873   2233445544

Phosphonates are a class of phosphorus-containing organic compound with a stable direct C-P bond rather than a C-O-P linkage. A number of bacterial species have operons, typically about 14 genes in size, with genes for ATP-dependent transport of phosphonates, degradation, and regulation of the expression of the system. Members of this protein family are the ATP-binding cassette component of tripartite ABC transporters of phosphonates.

>PRK03731 aroL shikimate kinase II; Reviewed

Probab=94.20  E-value=0.038  Score=46.61  Aligned_cols=23  Identities=22%  Similarity=0.274  Sum_probs=20.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ..|.|+|++|+||||+|+.+...
T Consensus         3 ~~i~~~G~~GsGKst~~~~la~~   25 (171)
T PRK03731          3 QPLFLVGARGCGKTTVGMALAQA   25 (171)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH
Confidence            35788999999999999999864

>cd01130 VirB11-like_ATPase Type IV secretory pathway component VirB11, and related ATPases

Probab=94.18  E-value=0.077  Score=45.52  Aligned_cols=23  Identities=35%  Similarity=0.232  Sum_probs=20.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ..+.|+|..|.|||||++.+..-
T Consensus        26 ~~i~I~G~tGSGKTTll~aL~~~   48 (186)
T cd01130          26 KNILISGGTGSGKTTLLNALLAF   48 (186)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhh
Confidence            68999999999999999988763

The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to plant cells. The pilus is a fibrous cell surface organelle, which mediates adhesion between bacteria during conjugative transfer or between bacteria and host eukaryotic cells during infection. VirB11- related ATPases include the archaeal flagella biosynthesis protein and the pilus assembly proteins CpaF/TadA and TrbB. This alignment contains the C-terminal domain, which is the ATPase.

>cd03218 ABC_YhbG The ABC transporters belonging to the YhbG family are similar to members of the Mj1267_LivG family, which is involved in the transport of branched-chain amino acids

Probab=94.18  E-value=0.065  Score=47.67  Aligned_cols=33  Identities=18%  Similarity=0.125  Sum_probs=25.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhccccccccccceEEE
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWT  196 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv  196 (385)
                      .+++|+|..|.|||||.+.+..-   .......+|+
T Consensus        27 e~~~l~G~nGsGKSTLl~~l~Gl---~~p~~G~i~~   59 (232)
T cd03218          27 EIVGLLGPNGAGKTTTFYMIVGL---VKPDSGKILL   59 (232)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCC---CCCCCcEEEE
Confidence            58999999999999999999873   2333455555

The genes yhbG and yhbN are located in a single operon and may function together in cell envelope during biogenesis. YhbG is the putative ATP-binding cassette component and YhbN is the putative periplasmic-binding protein. Depletion of each gene product leads to growth arrest, irreversible cell damage and loss of viability in E. coli. The YhbG homolog (NtrA) is essential in Rhizobium meliloti, a symbiotic nitrogen-fixing bacterium.

>cd03235 ABC_Metallic_Cations ABC component of the metal-type transporters

Probab=94.17  E-value=0.063  Score=47.08  Aligned_cols=33  Identities=18%  Similarity=0.181  Sum_probs=25.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhccccccccccceEEE
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWT  196 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv  196 (385)
                      .+++|+|..|.|||||++.+..-   .......+++
T Consensus        26 e~~~l~G~nGsGKSTLl~~l~G~---~~p~~G~i~~   58 (213)
T cd03235          26 EFLAIVGPNGAGKSTLLKAILGL---LKPTSGSIRV   58 (213)
T ss_pred             CEEEEECCCCCCHHHHHHHHcCC---CCCCCCEEEE
Confidence            68999999999999999999874   2223445554

This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of iron-siderophore uptake family suggesting that they share a common ancestor. The best characterized metal-type ABC transporters are the YfeABCD system of Y. pestis, the SitABCD system of Salmonella enterica serovar Typhimurium, and the SitABCD transporter of Shigella flexneri. Moreover other uncharacterized homologs of these metal-type transporters are mainly found in pathogens like Haemophilus or enteroinvasive E. coli isolates.

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

Probab=94.17  E-value=0.038  Score=52.46  Aligned_cols=23  Identities=48%  Similarity=0.663  Sum_probs=18.8

Q ss_pred             ceEEEEEcCCCCcHHH-HHHHHhc
Q 038448          160 LSVIPIIGTGRIGKTT-LAQLAYS  182 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTt-LA~~v~~  182 (385)
                      -++|.+||+.|+|||| ||+....
T Consensus       203 ~~vi~LVGPTGVGKTTTlAKLAar  226 (407)
T COG1419         203 KRVIALVGPTGVGKTTTLAKLAAR  226 (407)
T ss_pred             CcEEEEECCCCCcHHHHHHHHHHH
Confidence            6999999999999975 7765544

>cd03301 ABC_MalK_N The N-terminal ATPase domain of the maltose transporter, MalK

Probab=94.17  E-value=0.066  Score=46.91  Aligned_cols=33  Identities=15%  Similarity=0.221  Sum_probs=25.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhccccccccccceEEE
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWT  196 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv  196 (385)
                      .+++|+|..|.|||||.+.+...   .......+++
T Consensus        27 e~~~l~G~nGsGKSTLl~~l~G~---~~~~~G~v~~   59 (213)
T cd03301          27 EFVVLLGPSGCGKTTTLRMIAGL---EEPTSGRIYI   59 (213)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCC---CCCCceEEEE
Confidence            57999999999999999999874   2233445554

ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two transmembrane-spanning domains (TMDs) or subunits and two nucleotide binding domains (NBDs) or subunits that couple transport to the hydrolysis of ATP. In the maltose transport system, the periplasmic maltose binding protein (MBP) stimulates the ATPase activity of the membrane-associated transporter, which consists of two transmembrane subunits, MalF and MalG, and two copies of the ATP binding subunit, MalK, and becomes tightly bound to the transporter in the catalytic transition state, ensuring that maltose is passed to the transporter as ATP is hydrolyzed.

>PRK13973 thymidylate kinase; Provisional

Probab=94.17  E-value=0.11  Score=45.56  Aligned_cols=23  Identities=26%  Similarity=0.271  Sum_probs=21.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ..|+|-|+.|+||||++..++..
T Consensus         4 ~~IviEG~dGsGKtTq~~~l~~~   26 (213)
T PRK13973          4 RFITFEGGEGAGKSTQIRLLAER   26 (213)
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHH
Confidence            57899999999999999999875

>cd03256 ABC_PhnC_transporter ABC-type phosphate/phosphonate transport system

Probab=94.15  E-value=0.064  Score=47.98  Aligned_cols=23  Identities=26%  Similarity=0.381  Sum_probs=21.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .+++|+|..|.|||||++.+..-
T Consensus        28 e~~~i~G~nGsGKSTLl~~l~Gl   50 (241)
T cd03256          28 EFVALIGPSGAGKSTLLRCLNGL   50 (241)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            58999999999999999999873

Phosphonates are a class of organophosphorus compounds characterized by a chemically stable carbon-to-phosphorus (C-P) bond. Phosphonates are widespread among naturally occurring compounds in all kingdoms of wildlife, but only procaryotic microorganisms are able to cleave this bond. Certain bacteria such as E. coli can use alkylphosphonates as a phosphorus source. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>COG0125 Tmk Thymidylate kinase [Nucleotide transport and metabolism]

Probab=94.14  E-value=0.16  Score=44.33  Aligned_cols=35  Identities=29%  Similarity=0.145  Sum_probs=26.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhccccccccccceEEEE
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTC  197 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~  197 (385)
                      ..|+|=|+-|+||||.++.++..  .+...-.++|..
T Consensus         4 ~fI~iEGiDGaGKTT~~~~L~~~--l~~~g~~v~~tr   38 (208)
T COG0125           4 MFIVIEGIDGAGKTTQAELLKER--LEERGIKVVLTR   38 (208)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH--HHHcCCeEEEEe
Confidence            57899999999999999999985  444433445544

>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=94.14  E-value=0.19  Score=49.53  Aligned_cols=24  Identities=25%  Similarity=0.320  Sum_probs=21.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      -.|++++|+.|+||||++.++...
T Consensus       256 g~Vi~LvGpnGvGKTTTiaKLA~~  279 (484)
T PRK06995        256 GGVFALMGPTGVGKTTTTAKLAAR  279 (484)
T ss_pred             CcEEEEECCCCccHHHHHHHHHHH
Confidence            479999999999999999888764

>PLN03186 DNA repair protein RAD51 homolog; Provisional

Probab=94.14  E-value=0.11  Score=49.13  Aligned_cols=57  Identities=19%  Similarity=0.142  Sum_probs=40.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhccccccc----cccceEEEEecCCCCHHHHHHHHHHHhh
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSDVRVHN----HFDLKAWTCVSEDFDIIRVTKSILKSIA  216 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~----~F~~~~wv~vs~~~~~~~~~~~il~~l~  216 (385)
                      .-.++-|+|.+|+|||+|+..++-......    .-..++||+....|...++ .+|++.++
T Consensus       122 ~g~i~~i~G~~g~GKT~l~~~l~~~~~~~~~~gg~~g~vlyIdtE~~f~~eRl-~qia~~~~  182 (342)
T PLN03186        122 TGSITEIYGEFRTGKTQLCHTLCVTCQLPLDQGGGEGKAMYIDTEGTFRPQRL-IQIAERFG  182 (342)
T ss_pred             CceEEEEECCCCCCccHHHHHHHHHhhcchhhCCCCceEEEEECCCCccHHHH-HHHHHHcC
Confidence            457888999999999999987764321111    1136899999998888776 45565553

>TIGR00231 small_GTP small GTP-binding protein domain

Probab=94.14  E-value=0.042  Score=44.68  Aligned_cols=23  Identities=30%  Similarity=0.447  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHhccc
Q 038448          162 VIPIIGTGRIGKTTLAQLAYSDV  184 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v~~~~  184 (385)
                      -|+++|.+|+|||||+..+....
T Consensus         3 ki~~~G~~~~GKstl~~~l~~~~   25 (161)
T TIGR00231         3 KIVIVGDPNVGKSTLLNRLLGNK   25 (161)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            57899999999999999998764

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

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

Probab=94.13  E-value=0.041  Score=48.29  Aligned_cols=22  Identities=41%  Similarity=0.508  Sum_probs=18.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      ++|+|.|-||+||||++..+..
T Consensus         1 ~~iav~gKGGvGKTt~~~nLA~   22 (212)
T cd02117           1 RQIAIYGKGGIGKSTTSQNLSA   22 (212)
T ss_pred             CEEEEECCCcCcHHHHHHHHHH
Confidence            4789999999999998866554

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

>COG0003 ArsA Predicted ATPase involved in chromosome partitioning [Cell division and chromosome partitioning]

Probab=94.13  E-value=0.078  Score=49.46  Aligned_cols=49  Identities=16%  Similarity=0.154  Sum_probs=32.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecCCCCHHHHHHH
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDFDIIRVTKS  210 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~  210 (385)
                      .+++...|.||+||||+|.+..-.  .......+.-|+.....+..+++..
T Consensus         2 ~riv~f~GKGGVGKTT~aaA~A~~--lA~~g~kvLlvStDPAhsL~d~f~~   50 (322)
T COG0003           2 TRIVFFTGKGGVGKTTIAAATAVK--LAESGKKVLLVSTDPAHSLGDVFDL   50 (322)
T ss_pred             cEEEEEecCCcccHHHHHHHHHHH--HHHcCCcEEEEEeCCCCchHhhhcc
Confidence            478999999999999999774332  2222244666776666566555543

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

Probab=94.12  E-value=0.095  Score=47.75  Aligned_cols=50  Identities=22%  Similarity=0.173  Sum_probs=39.8

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecCCCCHHHHHH
Q 038448          158 DGLSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDFDIIRVTK  209 (385)
Q Consensus       158 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~  209 (385)
                      +.-+++=|+|+.|.||||+|.+++-.  .+..-..++|++.-..+++..+..
T Consensus        58 ~~g~ItEiyG~~gsGKT~lal~~~~~--aq~~g~~a~fIDtE~~l~p~r~~~  107 (279)
T COG0468          58 PRGRITEIYGPESSGKTTLALQLVAN--AQKPGGKAAFIDTEHALDPERAKQ  107 (279)
T ss_pred             ccceEEEEecCCCcchhhHHHHHHHH--hhcCCCeEEEEeCCCCCCHHHHHH
Confidence            45588999999999999999887764  444455889999888888876543

>TIGR03608 L_ocin_972_ABC putative bacteriocin export ABC transporter, lactococcin 972 group

Probab=94.12  E-value=0.069  Score=46.50  Aligned_cols=33  Identities=21%  Similarity=0.201  Sum_probs=25.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhccccccccccceEEE
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWT  196 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv  196 (385)
                      .+++|+|..|.|||||.+.+..-   .......+++
T Consensus        25 e~~~i~G~nGsGKSTLl~~l~G~---~~~~~G~i~~   57 (206)
T TIGR03608        25 KMYAIIGESGSGKSTLLNIIGLL---EKFDSGQVYL   57 (206)
T ss_pred             cEEEEECCCCCCHHHHHHHHhcC---CCCCCeEEEE
Confidence            58999999999999999999873   2233455554

A gene pair with a fairly wide distribution consists of a polypeptide related to the lactococcin 972 (see TIGR01653) and multiple-membrane-spanning putative immunity protein (see TIGR01654). This model represents a small clade within the ABC transporters that regularly are found adjacent to these bacteriocin system gene pairs and are likely serve as export proteins.

>PHA02530 pseT polynucleotide kinase; Provisional

Probab=94.12  E-value=0.04  Score=51.08  Aligned_cols=23  Identities=26%  Similarity=0.304  Sum_probs=20.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .+|.++|.+|+||||+|+.+...
T Consensus         3 ~liil~G~pGSGKSTla~~L~~~   25 (300)
T PHA02530          3 KIILTVGVPGSGKSTWAREFAAK   25 (300)
T ss_pred             EEEEEEcCCCCCHHHHHHHHHHH
Confidence            57889999999999999998764

>PRK05563 DNA polymerase III subunits gamma and tau; Validated

Probab=94.11  E-value=0.42  Score=48.40  Aligned_cols=166  Identities=11%  Similarity=0.042  Sum_probs=82.3

Q ss_pred             HHHHHHHHhcCCCCCCCCceEEEEEcCCCCcHHHHHHHHhccccc--------------------cccccceEEEEecCC
Q 038448          142 KEETVKLLLRDDLRTDDGLSVIPIIGTGRIGKTTLAQLAYSDVRV--------------------HNHFDLKAWTCVSED  201 (385)
Q Consensus       142 ~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~--------------------~~~F~~~~wv~vs~~  201 (385)
                      .+.+.+++..+.     -...+.++|+.|+||||+|+.+.....-                    ..+++ ++.+..+..
T Consensus        25 ~~~L~~~i~~~~-----~~hayLf~Gp~GtGKTt~Ak~lAkal~c~~~~~~~pC~~C~~C~~i~~g~~~d-v~eidaas~   98 (559)
T PRK05563         25 TKTLKNAIKQGK-----ISHAYLFSGPRGTGKTSAAKIFAKAVNCLNPPDGEPCNECEICKAITNGSLMD-VIEIDAASN   98 (559)
T ss_pred             HHHHHHHHHcCC-----CCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCccHHHHHHhcCCCCC-eEEeecccc
Confidence            344555554322     2466778999999999999877543110                    01122 233333222


Q ss_pred             CCHHHHHHHHHHHhhcCCCCC---ccchHHhh--chhhHhhHhhhccCCCCCcEEEE-EcCChhHHhhcC-CCCcccCCC
Q 038448          202 FDIIRVTKSILKSIASDQLVD---DHDLNLLQ--KYNDWTNRSRLFEAGAPGSKIVF-TTRNLGVAEKMG-PLPAYPLKE  274 (385)
Q Consensus       202 ~~~~~~~~~il~~l~~~~~~~---~~~~~~l~--~~~~w~~l~~~l~~~~~gs~Iiv-TTR~~~va~~~~-~~~~~~l~~  274 (385)
                      ..+ +-.+++...+.......   .--+++..  ....+..+...+........+|+ ||....+...+. ....+.+.+
T Consensus        99 ~~v-d~ir~i~~~v~~~p~~~~~kViIIDE~~~Lt~~a~naLLKtLEepp~~~ifIlatt~~~ki~~tI~SRc~~~~f~~  177 (559)
T PRK05563         99 NGV-DEIRDIRDKVKYAPSEAKYKVYIIDEVHMLSTGAFNALLKTLEEPPAHVIFILATTEPHKIPATILSRCQRFDFKR  177 (559)
T ss_pred             CCH-HHHHHHHHHHhhCcccCCeEEEEEECcccCCHHHHHHHHHHhcCCCCCeEEEEEeCChhhCcHHHHhHheEEecCC
Confidence            222 23344444433221100   00111111  33456666666654334445554 444333333222 224578888


Q ss_pred             CChhhHHhhhhccccCCCCCCCCccHHHHHHHHHHHcCCChHHH
Q 038448          275 LSNDDCLSVFSPHSLGEKDFSTHPSLKEIGEKIVKKCNGLPLVA  318 (385)
Q Consensus       275 L~~~~a~~Lf~~~a~~~~~~~~~~~l~~~~~~i~~~c~glPLAi  318 (385)
                      ++.++....+...+-... ...   -.+....|++.++|-+.-+
T Consensus       178 ~~~~ei~~~L~~i~~~eg-i~i---~~~al~~ia~~s~G~~R~a  217 (559)
T PRK05563        178 ISVEDIVERLKYILDKEG-IEY---EDEALRLIARAAEGGMRDA  217 (559)
T ss_pred             CCHHHHHHHHHHHHHHcC-CCC---CHHHHHHHHHHcCCCHHHH
Confidence            998888777765542111 111   1345667888888876543

>cd03230 ABC_DR_subfamily_A This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity

Probab=94.11  E-value=0.073  Score=45.03  Aligned_cols=23  Identities=26%  Similarity=0.433  Sum_probs=21.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .+++|+|..|.|||||.+.+...
T Consensus        27 e~~~i~G~nGsGKStLl~~l~G~   49 (173)
T cd03230          27 EIYGLLGPNGAGKTTLIKIILGL   49 (173)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCC
Confidence            58999999999999999999874

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.

>cd04155 Arl3 Arl3 subfamily

Probab=94.11  E-value=0.05  Score=45.69  Aligned_cols=25  Identities=32%  Similarity=0.348  Sum_probs=21.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      +...|+|+|.+|+|||||...+...
T Consensus        13 ~~~~v~i~G~~g~GKStLl~~l~~~   37 (173)
T cd04155          13 EEPRILILGLDNAGKTTILKQLASE   37 (173)
T ss_pred             CccEEEEEccCCCCHHHHHHHHhcC
Confidence            3456999999999999999999875

Arl3 (Arf-like 3) is an Arf family protein that differs from most Arf family members in the N-terminal extension. In is inactive, GDP-bound form, the N-terminal extension forms an elongated loop that is hydrophobically anchored into the membrane surface; however, it has been proposed that this region might form a helix in the GTP-bound form. The delta subunit of the rod-specific cyclic GMP phosphodiesterase type 6 (PDEdelta) is an Arl3 effector. Arl3 binds microtubules in a regulated manner to alter specific aspects of cytokinesis via interactions with retinitis pigmentosa 2 (RP2). It has been proposed that RP2 functions in concert with Arl3 to link the cell membrane and the cytoskeleton in photoreceptors as part of the cell signaling or vesicular transport machinery. In mice, the absence of Arl3 is associated with abnormal epithelial cell proliferation and cyst formation.

>PRK10247 putative ABC transporter ATP-binding protein YbbL; Provisional

Probab=94.10  E-value=0.069  Score=47.33  Aligned_cols=33  Identities=21%  Similarity=0.091  Sum_probs=25.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhccccccccccceEEE
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWT  196 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv  196 (385)
                      .+++|+|..|.|||||.+.+...   .......+++
T Consensus        34 e~~~i~G~nGsGKSTLl~~l~G~---~~~~~G~i~~   66 (225)
T PRK10247         34 EFKLITGPSGCGKSTLLKIVASL---ISPTSGTLLF   66 (225)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcc---cCCCCCeEEE
Confidence            68999999999999999999874   2233455554

>PRK13236 nitrogenase reductase; Reviewed

Probab=94.10  E-value=0.047  Score=50.60  Aligned_cols=25  Identities=36%  Similarity=0.583  Sum_probs=21.1

Q ss_pred             CCCceEEEEEcCCCCcHHHHHHHHh
Q 038448          157 DDGLSVIPIIGTGRIGKTTLAQLAY  181 (385)
Q Consensus       157 ~~~~~vi~I~G~gGiGKTtLA~~v~  181 (385)
                      +.+.++|++.|-||+||||+|..+.
T Consensus         3 ~~~~~~~~~~GKGGVGKTt~a~NLA   27 (296)
T PRK13236          3 DENIRQIAFYGKGGIGKSTTSQNTL   27 (296)
T ss_pred             CcCceEEEEECCCcCCHHHHHHHHH
Confidence            4577999999999999999876654

>cd04138 H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily

Probab=94.10  E-value=0.042  Score=45.35  Aligned_cols=22  Identities=23%  Similarity=0.530  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcc
Q 038448          162 VIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      -|.++|.+|+|||||...+.+.
T Consensus         3 ki~iiG~~~vGKTsl~~~~~~~   24 (162)
T cd04138           3 KLVVVGAGGVGKSALTIQLIQN   24 (162)
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            3688999999999999988764

H-Ras, N-Ras, and K-Ras4A/4B are the prototypical members of the Ras family. These isoforms generate distinct signal outputs despite interacting with a common set of activators and effectors, and are strongly associated with oncogenic progression in tumor initiation. Mutated versions of Ras that are insensitive to GAP stimulation (and are therefore constitutively active) are found in a significant fraction of human cancers. Many Ras guanine nucleotide exchange factors (GEFs) have been identified. They are sequestered in the cytosol until activation by growth factors triggers recruitment to the plasma membrane or Golgi, where the GEF colocalizes with Ras. Active (GTP-bound) Ras interacts with several effector proteins that stimulate a variety of diverse cytoplasmic signaling activities. Some are known to positively mediate the oncogenic properties of Ras, including Raf, phosphatidylinositol 3-kinase (PI3K), RalGEFs, and Tiam1.

>PRK13538 cytochrome c biogenesis protein CcmA; Provisional

Probab=94.10  E-value=0.071  Score=46.44  Aligned_cols=33  Identities=18%  Similarity=0.120  Sum_probs=25.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhccccccccccceEEE
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWT  196 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv  196 (385)
                      .+++|+|..|.|||||.+.+...   .......+++
T Consensus        28 e~~~l~G~nGsGKSTLl~~l~G~---~~p~~G~v~~   60 (204)
T PRK13538         28 ELVQIEGPNGAGKTSLLRILAGL---ARPDAGEVLW   60 (204)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCC---CCCCCcEEEE
Confidence            58999999999999999999874   2223445554

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

Probab=94.10  E-value=0.07  Score=47.92  Aligned_cols=35  Identities=17%  Similarity=0.041  Sum_probs=26.2

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhccccccccccceEEEE
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTC  197 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~  197 (385)
                      =.+++|+|+.|+|||||.+.++.-   -..-...+++.
T Consensus        28 G~i~~iiGpNG~GKSTLLk~l~g~---l~p~~G~V~l~   62 (258)
T COG1120          28 GEITGILGPNGSGKSTLLKCLAGL---LKPKSGEVLLD   62 (258)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhcc---CCCCCCEEEEC
Confidence            378999999999999999999873   33333445543

>PRK06067 flagellar accessory protein FlaH; Validated

Probab=94.09  E-value=0.17  Score=45.16  Aligned_cols=49  Identities=18%  Similarity=0.016  Sum_probs=33.7

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecCCCCHHHHHHH
Q 038448          158 DGLSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDFDIIRVTKS  210 (385)
Q Consensus       158 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~  210 (385)
                      +.-.++.|+|.+|+|||+|+.++.... .+ .=..++|++..++  ...++++
T Consensus        23 ~~g~~~~i~G~~GsGKt~l~~~~~~~~-~~-~g~~~~y~~~e~~--~~~~~~~   71 (234)
T PRK06067         23 PFPSLILIEGDHGTGKSVLSQQFVYGA-LK-QGKKVYVITTENT--SKSYLKQ   71 (234)
T ss_pred             cCCcEEEEECCCCCChHHHHHHHHHHH-Hh-CCCEEEEEEcCCC--HHHHHHH
Confidence            355889999999999999999985431 22 2346778887654  3444444

>smart00175 RAB Rab subfamily of small GTPases

Probab=94.09  E-value=0.043  Score=45.45  Aligned_cols=21  Identities=29%  Similarity=0.434  Sum_probs=19.2

Q ss_pred             EEEEcCCCCcHHHHHHHHhcc
Q 038448          163 IPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       163 i~I~G~gGiGKTtLA~~v~~~  183 (385)
                      |.++|.+|+|||||.+.+.+.
T Consensus         3 v~v~G~~~~GKTtli~~l~~~   23 (164)
T smart00175        3 IILIGDSGVGKSSLLSRFTDG   23 (164)
T ss_pred             EEEECCCCCCHHHHHHHHhcC
Confidence            789999999999999999765

Rab GTPases are implicated in vesicle trafficking.

>PRK13974 thymidylate kinase; Provisional

Probab=94.09  E-value=0.13  Score=45.22  Aligned_cols=24  Identities=25%  Similarity=0.162  Sum_probs=21.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhccc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSDV  184 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~~  184 (385)
                      .+|++.|..|+||||+++.++...
T Consensus         4 ~~i~~eG~dGsGKsT~~~~l~~~l   27 (212)
T PRK13974          4 KFIVLEGIDGCGKTTQIDHLSKWL   27 (212)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHH
Confidence            589999999999999999998754

>cd03261 ABC_Org_Solvent_Resistant ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules

Probab=94.09  E-value=0.067  Score=47.69  Aligned_cols=23  Identities=35%  Similarity=0.512  Sum_probs=21.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .+++|+|..|.|||||++.+..-
T Consensus        27 e~~~l~G~nGsGKSTLl~~l~G~   49 (235)
T cd03261          27 EILAIIGPSGSGKSTLLRLIVGL   49 (235)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            58999999999999999999874

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.

>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=94.09  E-value=0.31  Score=40.73  Aligned_cols=100  Identities=11%  Similarity=0.036  Sum_probs=57.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhccc----ccc--------------ccccceEEEEecCC---CCHHHHHHHHHHHhhc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSDV----RVH--------------NHFDLKAWTCVSED---FDIIRVTKSILKSIAS  217 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~~----~~~--------------~~F~~~~wv~vs~~---~~~~~~~~~il~~l~~  217 (385)
                      -...+.++|..|+||+++|..+....    ...              ....-..|+.-...   ....++ +++...+..
T Consensus        18 l~ha~L~~G~~g~gk~~~a~~~a~~ll~~~~~~~~c~~c~~c~~~~~~~~~d~~~~~~~~~~~~i~i~~i-r~i~~~~~~   96 (162)
T PF13177_consen   18 LPHALLFHGPSGSGKKTLALAFARALLCSNPNEDPCGECRSCRRIEEGNHPDFIIIKPDKKKKSIKIDQI-REIIEFLSL   96 (162)
T ss_dssp             --SEEEEECSTTSSHHHHHHHHHHHHC-TT-CTT--SSSHHHHHHHTT-CTTEEEEETTTSSSSBSHHHH-HHHHHHCTS
T ss_pred             cceeEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCHHHHHHHhccCcceEEEecccccchhhHHHH-HHHHHHHHH
Confidence            34678999999999999997664321    110              12334556654433   445444 477776655


Q ss_pred             CCCCCc---cchHHhh--chhhHhhHhhhccCCCCCcEEEEEcCChh
Q 038448          218 DQLVDD---HDLNLLQ--KYNDWTNRSRLFEAGAPGSKIVFTTRNLG  259 (385)
Q Consensus       218 ~~~~~~---~~~~~l~--~~~~w~~l~~~l~~~~~gs~IivTTR~~~  259 (385)
                      ......   -.++...  ..+.+..+...+-.-..++.+|++|.+..
T Consensus        97 ~~~~~~~KviiI~~ad~l~~~a~NaLLK~LEepp~~~~fiL~t~~~~  143 (162)
T PF13177_consen   97 SPSEGKYKVIIIDEADKLTEEAQNALLKTLEEPPENTYFILITNNPS  143 (162)
T ss_dssp             S-TTSSSEEEEEETGGGS-HHHHHHHHHHHHSTTTTEEEEEEES-GG
T ss_pred             HHhcCCceEEEeehHhhhhHHHHHHHHHHhcCCCCCEEEEEEECChH
Confidence            443211   1112222  56677778888877677888888887654

...

>cd03296 ABC_CysA_sulfate_importer Part of the ABC transporter complex cysAWTP involved in sulfate import

Probab=94.07  E-value=0.068  Score=47.82  Aligned_cols=23  Identities=30%  Similarity=0.462  Sum_probs=21.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .+++|+|..|.|||||++.+..-
T Consensus        29 e~~~i~G~nGsGKSTLl~~l~Gl   51 (239)
T cd03296          29 ELVALLGPSGSGKTTLLRLIAGL   51 (239)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            68999999999999999999874

Responsible for energy coupling to the transport system. The complex is composed of two ATP-binding proteins (cysA), two transmembrane proteins (cysT and cysW), and a solute-binding protein (cysP). ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK11629 lolD lipoprotein transporter ATP-binding subunit; Provisional

Probab=94.07  E-value=0.069  Score=47.56  Aligned_cols=33  Identities=21%  Similarity=0.211  Sum_probs=25.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhccccccccccceEEE
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWT  196 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv  196 (385)
                      .+++|+|..|.|||||++.++.-   .......+++
T Consensus        36 e~~~l~G~nGsGKSTLl~~l~Gl---~~~~~G~i~~   68 (233)
T PRK11629         36 EMMAIVGSSGSGKSTLLHLLGGL---DTPTSGDVIF   68 (233)
T ss_pred             cEEEEECCCCCCHHHHHHHHhcC---CCCCceEEEE
Confidence            58999999999999999999874   2333455554

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

Probab=94.06  E-value=0.064  Score=47.30  Aligned_cols=52  Identities=15%  Similarity=0.104  Sum_probs=28.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcccc-----ccccccceEEEEecCCCCHHHHHHHHHH
Q 038448          162 VIPIIGTGRIGKTTLAQLAYSDVR-----VHNHFDLKAWTCVSEDFDIIRVTKSILK  213 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v~~~~~-----~~~~F~~~~wv~vs~~~~~~~~~~~il~  213 (385)
                      +..|+|++|.||||++..+.....     ....-+..+-++...+..+..++..+..
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            789999999999987666554320     0123334444444444455555555554

>cd04113 Rab4 Rab4 subfamily

Probab=94.05  E-value=0.044  Score=45.40  Aligned_cols=21  Identities=29%  Similarity=0.396  Sum_probs=18.9

Q ss_pred             EEEEcCCCCcHHHHHHHHhcc
Q 038448          163 IPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       163 i~I~G~gGiGKTtLA~~v~~~  183 (385)
                      |.|+|.+|+|||||+..+.+.
T Consensus         3 i~v~G~~~vGKTsli~~l~~~   23 (161)
T cd04113           3 FIIIGSSGTGKSCLLHRFVEN   23 (161)
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            689999999999999998765

Rab4 has been implicated in numerous functions within the cell. It helps regulate endocytosis through the sorting, recycling, and degradation of early endosomes. Mammalian Rab4 is involved in the regulation of many surface proteins including G-protein-coupled receptors, transferrin receptor, integrins, and surfactant protein A. Experimental data implicate Rab4 in regulation of the recycling of internalized receptors back to the plasma membrane. It is also believed to influence receptor-mediated antigen processing in B-lymphocytes, in calcium-dependent exocytosis in platelets, in alpha-amylase secretion in pancreatic cells, and in insulin-induced translocation of Glut4 from internal vesicles to the cell surface. Rab4 is known to share effector proteins with Rab5 and Rab11. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to p

>cd03259 ABC_Carb_Solutes_like ABC Carbohydrate and Solute Transporters-like subgroup

Probab=94.05  E-value=0.072  Score=46.70  Aligned_cols=23  Identities=30%  Similarity=0.443  Sum_probs=21.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .+++|+|..|.|||||++.+..-
T Consensus        27 e~~~i~G~nGsGKSTLl~~l~G~   49 (213)
T cd03259          27 EFLALLGPSGCGKTTLLRLIAGL   49 (213)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCC
Confidence            58999999999999999999873

This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides and more complex organic molecules. The nucleotide-binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

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

Probab=94.04  E-value=0.041  Score=45.77  Aligned_cols=24  Identities=29%  Similarity=0.445  Sum_probs=21.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .+|++|+|..|+|||||...+...
T Consensus         2 ~~Il~ivG~k~SGKTTLie~lv~~   25 (161)
T COG1763           2 MKILGIVGYKNSGKTTLIEKLVRK   25 (161)
T ss_pred             CcEEEEEecCCCChhhHHHHHHHH
Confidence            379999999999999999998764

>PLN02165 adenylate isopentenyltransferase

Probab=94.03  E-value=0.05  Score=50.75  Aligned_cols=24  Identities=25%  Similarity=0.267  Sum_probs=21.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      -.+|+|+|+.|+||||||..+...
T Consensus        43 g~iivIiGPTGSGKStLA~~LA~~   66 (334)
T PLN02165         43 DKVVVIMGATGSGKSRLSVDLATR   66 (334)
T ss_pred             CCEEEEECCCCCcHHHHHHHHHHH
Confidence            358999999999999999988764

>TIGR02324 CP_lyasePhnL phosphonate C-P lyase system protein PhnL

Probab=94.03  E-value=0.077  Score=46.92  Aligned_cols=34  Identities=18%  Similarity=0.199  Sum_probs=26.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhccccccccccceEEEE
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTC  197 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~  197 (385)
                      .+++|+|..|.|||||.+.++.-   .......+++.
T Consensus        35 e~~~l~G~nGsGKSTLl~~i~G~---~~~~~G~i~~~   68 (224)
T TIGR02324        35 ECVALSGPSGAGKSTLLKSLYAN---YLPDSGRILVR   68 (224)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC---CCCCCCeEEEe
Confidence            68999999999999999999874   23345556554

Members of this family are the PhnL protein of C-P lyase systems for utilization of phosphonates. These systems resemble phosphonatase-based systems in having a three component ABC transporter, where TIGR01097 is the permease, TIGR01098 is the phosphonates binding protein, and TIGR02315 is the ATP-binding cassette (ABC) protein. They differ, however, in having, typically, ten or more additional genes, many of which are believed to form a membrane-associated C-P lysase complex. This protein (PhnL) and the adjacent-encoded PhnK (TIGR02323) resemble transporter ATP-binding proteins but are suggested, based on mutatgenesis studies, to be part of this C-P lyase complex rather than part of a transporter per se.

>TIGR01277 thiQ thiamine ABC transporter, ATP-binding protein

Probab=94.02  E-value=0.073  Score=46.68  Aligned_cols=33  Identities=21%  Similarity=0.203  Sum_probs=26.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhccccccccccceEEE
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWT  196 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv  196 (385)
                      .+++|+|..|.|||||.+.++..   .......+|+
T Consensus        25 e~~~i~G~nGsGKSTLl~~l~G~---~~~~~G~i~~   57 (213)
T TIGR01277        25 EIVAIMGPSGAGKSTLLNLIAGF---IEPASGSIKV   57 (213)
T ss_pred             cEEEEECCCCCCHHHHHHHHhcC---CCCCCcEEEE
Confidence            68999999999999999999874   2333455655

This model describes the energy-transducing ATPase subunit ThiQ of the ThiBPQ thiamine (and thiamine pyrophosphate) ABC transporter in several Proteobacteria. This protein is found so far only in Proteobacteria, and is found in complete genomes only if the ThiB and ThiP subunits are also found.

>PRK12608 transcription termination factor Rho; Provisional

Probab=94.02  E-value=0.25  Score=46.86  Aligned_cols=67  Identities=19%  Similarity=0.158  Sum_probs=44.6

Q ss_pred             HHHHHhcCCCCCCCCceEEEEEcCCCCcHHHHHHHHhccccccc-cccc-eEEEEecCC-CCHHHHHHHHHHHhhcC
Q 038448          145 TVKLLLRDDLRTDDGLSVIPIIGTGRIGKTTLAQLAYSDVRVHN-HFDL-KAWTCVSED-FDIIRVTKSILKSIASD  218 (385)
Q Consensus       145 l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~-~F~~-~~wv~vs~~-~~~~~~~~~il~~l~~~  218 (385)
                      +++.+..-.     .-..+.|+|.+|+|||||++.+.+.  +.. +-+. ++|+.+.+. -.+.++++.+...+...
T Consensus       123 vID~l~PiG-----kGQR~LIvG~pGtGKTTLl~~la~~--i~~~~~dv~~vv~lIgER~~EV~df~~~i~~~Vvas  192 (380)
T PRK12608        123 VVDLVAPIG-----KGQRGLIVAPPRAGKTVLLQQIAAA--VAANHPEVHLMVLLIDERPEEVTDMRRSVKGEVYAS  192 (380)
T ss_pred             hhhheeecC-----CCceEEEECCCCCCHHHHHHHHHHH--HHhcCCCceEEEEEecCCCCCHHHHHHHHhhhEEee
Confidence            566665421     1245699999999999999998775  222 2233 467777764 46778888887765543

>TIGR02528 EutP ethanolamine utilization protein, EutP

Probab=94.02  E-value=0.044  Score=44.39  Aligned_cols=22  Identities=41%  Similarity=0.431  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcc
Q 038448          162 VIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      -|.|+|.+|+|||||...+...
T Consensus         2 kv~liG~~~vGKSsL~~~l~~~   23 (142)
T TIGR02528         2 RIMFIGSVGCGKTTLTQALQGE   23 (142)
T ss_pred             eEEEECCCCCCHHHHHHHHcCC
Confidence            3789999999999999998765

This protein is found within operons which code for polyhedral organelles containing the enzyme ethanolamine ammonia lyase. The function of this gene is unknown, although the presence of an N-terminal GxxGxGK motif implies a GTP-binding site.

>PRK13541 cytochrome c biogenesis protein CcmA; Provisional

Probab=94.01  E-value=0.076  Score=45.89  Aligned_cols=23  Identities=22%  Similarity=0.312  Sum_probs=21.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .+++|+|..|.|||||++.+...
T Consensus        27 e~~~l~G~nGsGKSTLl~~l~G~   49 (195)
T PRK13541         27 AITYIKGANGCGKSSLLRMIAGI   49 (195)
T ss_pred             cEEEEECCCCCCHHHHHHHHhcC
Confidence            58999999999999999999874

>TIGR01189 ccmA heme ABC exporter, ATP-binding protein CcmA

Probab=94.01  E-value=0.076  Score=45.97  Aligned_cols=34  Identities=21%  Similarity=0.137  Sum_probs=26.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhccccccccccceEEEE
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTC  197 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~  197 (385)
                      .+++|+|..|.|||||.+.+...   .......+++.
T Consensus        27 e~~~i~G~nGsGKSTLl~~l~G~---~~~~~G~i~~~   60 (198)
T TIGR01189        27 EALQVTGPNGIGKTTLLRILAGL---LRPDSGEVRWN   60 (198)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCC---CCCCccEEEEC
Confidence            68999999999999999999874   23344555553

This model describes the cyt c biogenesis protein encoded by ccmA in bacteria. An exception is, an arabidopsis protein. Quite likely this is encoded by an organelle. Bacterial c-type cytocromes are located on the periplasmic side of the cytoplasmic membrane. Several gene products encoded in a locus designated as 'ccm' are implicated in the transport and assembly of the functional cytochrome C. This cluster includes genes: ccmA;B;C;D;E;F;G and H. The posttranslational pathway includes the transport of heme moiety, the secretion of the apoprotein and the covalent attachment of the heme with the apoprotein. The proteins ccmA and B represent an ABC transporter; ccmC and D participate in heme transfer to ccmE, which function as a periplasmic heme chaperone. The presence of ccmF, G and H is suggested to be obligatory for the final functional assembly of cytochrome c.

>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional

Probab=94.01  E-value=0.078  Score=48.54  Aligned_cols=26  Identities=23%  Similarity=0.224  Sum_probs=23.6

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          158 DGLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       158 ~~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .+..+|.|+|.+|.|||||...+.+.
T Consensus       102 ~~~~~v~l~G~pGsGKTTLl~~l~~~  127 (290)
T PRK10463        102 RKQLVLNLVSSPGSGKTTLLTETLMR  127 (290)
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            46799999999999999999998874

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

Probab=94.01  E-value=0.047  Score=46.11  Aligned_cols=22  Identities=36%  Similarity=0.345  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcc
Q 038448          162 VIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ++.++|++|+||||++..+...
T Consensus         2 ~~~~~G~~G~GKTt~~~~la~~   23 (173)
T cd03115           2 VILLVGLQGVGKTTTAAKLALY   23 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            6789999999999999888764

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.

>TIGR01184 ntrCD nitrate transport ATP-binding subunits C and D

Probab=94.01  E-value=0.074  Score=47.30  Aligned_cols=23  Identities=35%  Similarity=0.452  Sum_probs=21.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .+++|+|..|.|||||++.+..-
T Consensus        12 e~~~i~G~nGsGKSTLl~~l~Gl   34 (230)
T TIGR01184        12 EFISLIGHSGCGKSTLLNLISGL   34 (230)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            58999999999999999999864

This model describes the ATP binding subunits of nitrate transport in bacteria and archaea. This protein belongs to the ATP-binding cassette (ABC) superfamily. It is thought that the two subunits encoded by ntrC and ntrD form the binding surface for interaction with ATP. This model is restricted in identifying ATP binding subunit associated with the nitrate transport. Nitrate assimilation is aided by other proteins derived from the operon which among others include products of ntrA - a regulatory protein; ntrB - a hydropbobic transmembrane permease and narB - a reductase.

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

Probab=94.00  E-value=0.056  Score=49.08  Aligned_cols=50  Identities=16%  Similarity=0.193  Sum_probs=34.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcccccccccc-ceEEEEecCCCC-HHHHHHHHH
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSDVRVHNHFD-LKAWTCVSEDFD-IIRVTKSIL  212 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~-~~~wv~vs~~~~-~~~~~~~il  212 (385)
                      ..++|+|.+|+|||||++.++++  ++.+|. .++++-+.+... +.++..++.
T Consensus        70 Qr~~If~~~G~GKTtLa~~i~~~--i~~~~~~~~V~~~iGer~~Ev~e~~~~~~  121 (274)
T cd01133          70 GKIGLFGGAGVGKTVLIMELINN--IAKAHGGYSVFAGVGERTREGNDLYHEMK  121 (274)
T ss_pred             CEEEEecCCCCChhHHHHHHHHH--HHhcCCCEEEEEEeccCcHHHHHHHHHHH
Confidence            56899999999999999999986  444554 455566666433 344444443

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.

>cd03292 ABC_FtsE_transporter FtsE is a hydrophilic nucleotide-binding protein that binds FtsX to form a heterodimeric ATP-binding cassette (ABC)-type transporter that associates with the bacterial inner membrane

Probab=93.99  E-value=0.074  Score=46.62  Aligned_cols=23  Identities=30%  Similarity=0.619  Sum_probs=21.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .+++|+|..|.|||||.+.+..-
T Consensus        28 ~~~~i~G~nGsGKSTLl~~l~G~   50 (214)
T cd03292          28 EFVFLVGPSGAGKSTLLKLIYKE   50 (214)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcC
Confidence            58999999999999999999874

The FtsE/X transporter is thought to be involved in cell division and is important for assembly or stability of the septal ring.

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

Probab=93.99  E-value=0.072  Score=47.81  Aligned_cols=55  Identities=13%  Similarity=0.133  Sum_probs=34.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecC-----CCCHHHHHHHHHHHhhc
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSE-----DFDIIRVTKSILKSIAS  217 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~-----~~~~~~~~~~il~~l~~  217 (385)
                      -.+++|||.+|.|||||++.+..   ....-.+.+++.-.+     .....+...+++...+.
T Consensus        39 ge~~glVGESG~GKSTlgr~i~~---L~~pt~G~i~f~g~~i~~~~~~~~~~~v~elL~~Vgl   98 (268)
T COG4608          39 GETLGLVGESGCGKSTLGRLILG---LEEPTSGEILFEGKDITKLSKEERRERVLELLEKVGL   98 (268)
T ss_pred             CCEEEEEecCCCCHHHHHHHHHc---CcCCCCceEEEcCcchhhcchhHHHHHHHHHHHHhCC
Confidence            36899999999999999999987   444444455544221     11233445555555543

>cd04124 RabL2 RabL2 subfamily

Probab=93.98  E-value=0.046  Score=45.49  Aligned_cols=21  Identities=29%  Similarity=0.517  Sum_probs=18.4

Q ss_pred             EEEEcCCCCcHHHHHHHHhcc
Q 038448          163 IPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       163 i~I~G~gGiGKTtLA~~v~~~  183 (385)
                      |.++|.+|+|||||+..+.+.
T Consensus         3 i~vvG~~~vGKTsli~~~~~~   23 (161)
T cd04124           3 IILLGDSAVGKSKLVERFLMD   23 (161)
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            678999999999999887654

RabL2 (Rab-like2) subfamily. RabL2s are novel Rab proteins identified recently which display features that are distinct from other Rabs, and have been termed Rab-like. RabL2 contains RabL2a and RabL2b, two very similar Rab proteins that share 98% sequence identity in humans. RabL2b maps to the subtelomeric region of chromosome 22q13.3 and RabL2a maps to 2q13, a region that suggests it is also a subtelomeric gene. Both genes are believed to be expressed ubiquitously, suggesting that RabL2s are the first example of duplicated genes in human proximal subtelomeric regions that are both expressed actively. Like other Rab-like proteins, RabL2s lack a prenylation site at the C-terminus. The specific functions of RabL2a and RabL2b remain unknown. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-b

>PRK14974 cell division protein FtsY; Provisional

Probab=93.98  E-value=0.051  Score=51.07  Aligned_cols=25  Identities=28%  Similarity=0.175  Sum_probs=21.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      +..+|.++|++|+||||++..+...
T Consensus       139 ~~~vi~~~G~~GvGKTTtiakLA~~  163 (336)
T PRK14974        139 KPVVIVFVGVNGTGKTTTIAKLAYY  163 (336)
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHH
Confidence            4689999999999999988777653

>cd04136 Rap_like Rap-like subfamily

Probab=93.97  E-value=0.046  Score=45.28  Aligned_cols=22  Identities=23%  Similarity=0.495  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcc
Q 038448          162 VIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      -|.|+|.+|+|||||+..+..+
T Consensus         3 ki~i~G~~~vGKTsl~~~~~~~   24 (163)
T cd04136           3 KVVVLGSGGVGKSALTVQFVQG   24 (163)
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4789999999999999887754

The Rap subfamily consists of the Rap1, Rap2, and RSR1. Rap subfamily proteins perform different cellular functions, depending on the isoform and its subcellular localization. For example, in rat salivary gland, neutrophils, and platelets, Rap1 localizes to secretory granules and is believed to regulate exocytosis or the formation of secretory granules. Rap1 has also been shown to localize in the Golgi of rat fibroblasts, zymogen granules, plasma membrane, and microsomal membrane of the pancreatic acini, as well as in the endocytic compartment of skeletal muscle cells and fibroblasts. Rap1 localizes in the nucleus of human oropharyngeal squamous cell carcinomas (SCCs) and cell lines. Rap1 plays a role in phagocytosis by controlling the binding of adhesion receptors (typically integrins) to their ligands. In yeast, Rap1 has been implicated in multiple functions, including activation and silencing of transcription and maintenance of telomeres.

>PF02374 ArsA_ATPase: Anion-transporting ATPase; PDB: 2WOO_A 3IBG_B 3SJA_A 3H84_B 3SJD_A 3ZS9_A 3A37_A 2WOJ_A 3SJC_B 3A36_B

Probab=93.97  E-value=0.071  Score=49.59  Aligned_cols=22  Identities=32%  Similarity=0.394  Sum_probs=18.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      +++.+.|-||+||||+|....-
T Consensus         2 r~~~~~GKGGVGKTT~aaA~A~   23 (305)
T PF02374_consen    2 RILFFGGKGGVGKTTVAAALAL   23 (305)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHH
T ss_pred             eEEEEecCCCCCcHHHHHHHHH
Confidence            6889999999999999966543

...

>PRK14250 phosphate ABC transporter ATP-binding protein; Provisional

Probab=93.97  E-value=0.075  Score=47.64  Aligned_cols=33  Identities=21%  Similarity=0.255  Sum_probs=25.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhccccccccccceEEE
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWT  196 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv  196 (385)
                      .+++|+|..|.|||||++.+..-   .......+++
T Consensus        30 e~~~i~G~nGsGKSTLl~~l~Gl---~~p~~G~i~~   62 (241)
T PRK14250         30 AIYTIVGPSGAGKSTLIKLINRL---IDPTEGSILI   62 (241)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC---CCCCCcEEEE
Confidence            58999999999999999999873   2233455554

>PRK11124 artP arginine transporter ATP-binding subunit; Provisional

Probab=93.97  E-value=0.074  Score=47.67  Aligned_cols=33  Identities=12%  Similarity=0.073  Sum_probs=25.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhccccccccccceEEE
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWT  196 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv  196 (385)
                      .+++|+|..|.|||||++.++.-   .......+++
T Consensus        29 e~~~i~G~nGsGKSTLl~~l~G~---~~~~~G~i~~   61 (242)
T PRK11124         29 ETLVLLGPSGAGKSSLLRVLNLL---EMPRSGTLNI   61 (242)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC---CCCCceEEEE
Confidence            68999999999999999999874   2233455554

>PRK11248 tauB taurine transporter ATP-binding subunit; Provisional

Probab=93.97  E-value=0.074  Score=48.13  Aligned_cols=23  Identities=30%  Similarity=0.423  Sum_probs=21.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .+++|+|..|.|||||++.+..-
T Consensus        28 e~~~i~G~nGsGKSTLl~~l~Gl   50 (255)
T PRK11248         28 ELLVVLGPSGCGKTTLLNLIAGF   50 (255)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            68999999999999999999864

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=93.95  E-value=0.054  Score=51.56  Aligned_cols=24  Identities=25%  Similarity=0.320  Sum_probs=21.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      -.++.++|+.|+||||++.++...
T Consensus       137 g~ii~lvGptGvGKTTtiakLA~~  160 (374)
T PRK14722        137 GGVFALMGPTGVGKTTTTAKLAAR  160 (374)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHH
Confidence            479999999999999999988764

>cd03219 ABC_Mj1267_LivG_branched The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine

Probab=93.95  E-value=0.072  Score=47.51  Aligned_cols=33  Identities=24%  Similarity=0.148  Sum_probs=25.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhccccccccccceEEE
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWT  196 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv  196 (385)
                      .+++|+|..|.|||||.+.+..-   .......+++
T Consensus        27 e~~~l~G~nGsGKSTLl~~l~Gl---~~~~~G~i~~   59 (236)
T cd03219          27 EIHGLIGPNGAGKTTLFNLISGF---LRPTSGSVLF   59 (236)
T ss_pred             cEEEEECCCCCCHHHHHHHHcCC---CCCCCceEEE
Confidence            58999999999999999999873   2233445554

MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E. coli branched-chain amino acid transporter. MJ1267 contains an insertion from residues 114 to 123 characteristic of LivG (Leucine-Isoleucine-Valine) homologs. The branched-chain amino acid transporter from E. coli comprises a heterodimer of ABCs (LivF and LivG), a heterodimer of six-helix TM domains (LivM and LivH), and one of two alternative soluble periplasmic substrate binding proteins (LivK or LivJ).

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

Probab=93.94  E-value=0.047  Score=40.67  Aligned_cols=22  Identities=45%  Similarity=0.590  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcc
Q 038448          162 VIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ++.+.|.+|+||||++..+...
T Consensus         1 ~~~~~g~~G~Gktt~~~~l~~~   22 (99)
T cd01983           1 VIVVTGKGGVGKTTLAANLAAA   22 (99)
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            4778999999999999888764

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

>cd01864 Rab19 Rab19 subfamily

Probab=93.93  E-value=0.048  Score=45.48  Aligned_cols=23  Identities=35%  Similarity=0.381  Sum_probs=19.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .-|.|+|.+|+|||||+..+...
T Consensus         4 ~kv~vvG~~~~GKTsli~~l~~~   26 (165)
T cd01864           4 FKIILIGDSNVGKTCVVQRFKSG   26 (165)
T ss_pred             eEEEEECCCCCCHHHHHHHHhhC
Confidence            46789999999999999988653

Rab19 proteins are associated with Golgi stacks. Similarity analysis indicated that Rab41 is closely related to Rab19. However, the function of these Rabs is not yet chracterized. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.

>TIGR00455 apsK adenylylsulfate kinase (apsK)

Probab=93.92  E-value=0.059  Score=46.10  Aligned_cols=25  Identities=28%  Similarity=0.219  Sum_probs=22.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ...++.|.|.+|.||||+|+.+...
T Consensus        17 ~~~~i~i~G~~GsGKstla~~l~~~   41 (184)
T TIGR00455        17 RGVVIWLTGLSGSGKSTIANALEKK   41 (184)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHH
Confidence            4479999999999999999998864

Important residue (active site in E.coli) is residue 100 of the seed alignment.

>PRK14528 adenylate kinase; Provisional

Probab=93.91  E-value=0.048  Score=46.83  Aligned_cols=23  Identities=26%  Similarity=0.300  Sum_probs=20.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      +.|.|.|++|+||||+|+.+...
T Consensus         2 ~~i~i~G~pGsGKtt~a~~la~~   24 (186)
T PRK14528          2 KNIIFMGPPGAGKGTQAKILCER   24 (186)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHH
Confidence            46889999999999999998764

>PRK09183 transposase/IS protein; Provisional

Probab=93.91  E-value=0.044  Score=49.73  Aligned_cols=23  Identities=30%  Similarity=0.377  Sum_probs=20.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ..+.|+|++|+|||+||..+.+.
T Consensus       103 ~~v~l~Gp~GtGKThLa~al~~~  125 (259)
T PRK09183        103 ENIVLLGPSGVGKTHLAIALGYE  125 (259)
T ss_pred             CeEEEEeCCCCCHHHHHHHHHHH
Confidence            45779999999999999999764

>PF00406 ADK: Adenylate kinase; InterPro: IPR000850 Adenylate kinases (ADK) are phosphotransferases that catalyse the reversible reaction AMP + MgATP = ADP + MgADP an essential reaction for many processes in living cells

Probab=93.90  E-value=0.04  Score=45.48  Aligned_cols=19  Identities=32%  Similarity=0.296  Sum_probs=17.5

Q ss_pred             EEcCCCCcHHHHHHHHhcc
Q 038448          165 IIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       165 I~G~gGiGKTtLA~~v~~~  183 (385)
                      |+|+||+||||+|..+...
T Consensus         1 i~G~PgsGK~t~~~~la~~   19 (151)
T PF00406_consen    1 ILGPPGSGKGTQAKRLAKR   19 (151)
T ss_dssp             EEESTTSSHHHHHHHHHHH
T ss_pred             CcCCCCCChHHHHHHHHHh
Confidence            6899999999999999874

Two ADK isozymes have been identified in mammalian cells. These specifically bind AMP and favour binding to ATP over other nucleotide triphosphates (AK1 is cytosolic and AK2 is located in the mitochondria). A third ADK has been identified in bovine heart and human cells [], this is a mitochondrial GTP:AMP phosphotransferase, also specific for the phosphorylation of AMP, but can only use GTP or ITP as a substrate []. ADK has also been identified in different bacterial species and in yeast []. Two further enzymes are known to be related to the ADK family, i.e. yeast uridine monophosphokinase and slime mold UMP-CMP kinase. Within the ADK family there are several conserved regions, including the ATP-binding domains. One of the most conserved areas includes an Arg residue, whose modification inactivates the enzyme, together with an Asp that resides in the catalytic cleft of the enzyme and participates in a salt bridge.; GO: 0005524 ATP binding, 0019205 nucleobase-containing compound kinase activity, 0006139 nucleobase-containing compound metabolic process; PDB: 1ZD8_A 3TLX_D 1TEV_A 1ZAK_B 3CM0_A 3ADK_A 1ZIP_A 1ZIO_A 1ZIN_A 3NDP_A ....

>cd04159 Arl10_like Arl10-like subfamily

Probab=93.89  E-value=0.047  Score=44.65  Aligned_cols=21  Identities=33%  Similarity=0.504  Sum_probs=19.3

Q ss_pred             EEEEcCCCCcHHHHHHHHhcc
Q 038448          163 IPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       163 i~I~G~gGiGKTtLA~~v~~~  183 (385)
                      |+|+|.+|+|||||...+...
T Consensus         2 i~i~G~~~~GKssl~~~l~~~   22 (159)
T cd04159           2 ITLVGLQNSGKTTLVNVIAGG   22 (159)
T ss_pred             EEEEcCCCCCHHHHHHHHccC
Confidence            689999999999999999875

Arl9/Arl10 was identified from a human cancer-derived EST dataset. No functional information about the subfamily is available at the current time, but crystal structures of human Arl10b and Arl10c have been solved.

>PRK13768 GTPase; Provisional

Probab=93.89  E-value=0.051  Score=49.14  Aligned_cols=23  Identities=30%  Similarity=0.335  Sum_probs=19.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .++.|.|.||+||||++..+...
T Consensus         3 ~~i~v~G~~G~GKTt~~~~~~~~   25 (253)
T PRK13768          3 YIVFFLGTAGSGKTTLTKALSDW   25 (253)
T ss_pred             EEEEEECCCCccHHHHHHHHHHH
Confidence            57899999999999998777653

>PRK13230 nitrogenase reductase-like protein; Reviewed

Probab=93.89  E-value=0.047  Score=50.12  Aligned_cols=22  Identities=27%  Similarity=0.273  Sum_probs=18.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      ++|+|+|-||+||||+|..+..
T Consensus         2 ~~i~~~gKGGVGKTT~a~nLA~   23 (279)
T PRK13230          2 RKFCFYGKGGIGKSTTVCNIAA   23 (279)
T ss_pred             cEEEEECCCCCcHHHHHHHHHH
Confidence            5789999999999998876654

>PRK05537 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Validated

Probab=93.88  E-value=0.077  Score=53.67  Aligned_cols=26  Identities=19%  Similarity=0.173  Sum_probs=22.4

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          158 DGLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       158 ~~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ..-.+|.|+|++|+||||+|+.+...
T Consensus       390 ~~g~~Ivl~Gl~GSGKSTia~~La~~  415 (568)
T PRK05537        390 KQGFTVFFTGLSGAGKSTIAKALMVK  415 (568)
T ss_pred             CCCeEEEEECCCCChHHHHHHHHHHH
Confidence            34458899999999999999999874

>cd03295 ABC_OpuCA_Osmoprotection OpuCA is a the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing in a hyperosmolar environment

Probab=93.87  E-value=0.079  Score=47.49  Aligned_cols=23  Identities=26%  Similarity=0.336  Sum_probs=21.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .+++|+|..|.|||||++.++.-
T Consensus        28 e~~~i~G~nGsGKSTLl~~l~G~   50 (242)
T cd03295          28 EFLVLIGPSGSGKTTTMKMINRL   50 (242)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcC
Confidence            57999999999999999999874

ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition, to the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK02496 adk adenylate kinase; Provisional

Probab=93.87  E-value=0.045  Score=46.81  Aligned_cols=22  Identities=23%  Similarity=0.226  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcc
Q 038448          162 VIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .+.|+|++|+||||+|+.+...
T Consensus         3 ~i~i~G~pGsGKst~a~~la~~   24 (184)
T PRK02496          3 RLIFLGPPGAGKGTQAVVLAEH   24 (184)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            4789999999999999998753

>PRK12724 flagellar biosynthesis regulator FlhF; Provisional

Probab=93.86  E-value=0.085  Score=50.79  Aligned_cols=25  Identities=24%  Similarity=0.193  Sum_probs=21.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ...++.++|++|+||||++.++...
T Consensus       222 ~~~vi~lvGptGvGKTTtaaKLA~~  246 (432)
T PRK12724        222 QRKVVFFVGPTGSGKTTSIAKLAAK  246 (432)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHH
Confidence            3578999999999999999988753

>PRK09493 glnQ glutamine ABC transporter ATP-binding protein; Reviewed

Probab=93.86  E-value=0.079  Score=47.42  Aligned_cols=33  Identities=24%  Similarity=0.186  Sum_probs=25.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhccccccccccceEEE
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWT  196 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv  196 (385)
                      .+++|+|..|.|||||++.+..-   .......+++
T Consensus        28 e~~~l~G~nGsGKSTLl~~l~G~---~~~~~G~i~~   60 (240)
T PRK09493         28 EVVVIIGPSGSGKSTLLRCINKL---EEITSGDLIV   60 (240)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCC---CCCCceEEEE
Confidence            68999999999999999999874   2333455554

>PRK13232 nifH nitrogenase reductase; Reviewed

Probab=93.86  E-value=0.048  Score=49.89  Aligned_cols=22  Identities=41%  Similarity=0.501  Sum_probs=18.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      ++|+|+|-||+||||++..+..
T Consensus         2 ~~iav~gKGGVGKTT~a~nLA~   23 (273)
T PRK13232          2 RQIAIYGKGGIGKSTTTQNLTA   23 (273)
T ss_pred             CEEEEECCCCCcHHHHHHHHHH
Confidence            5788889999999998876654

>COG1136 SalX ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]

Probab=93.86  E-value=0.052  Score=47.73  Aligned_cols=22  Identities=32%  Similarity=0.480  Sum_probs=20.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      .+++|+|++|+|||||...+..
T Consensus        32 e~vaI~GpSGSGKSTLLniig~   53 (226)
T COG1136          32 EFVAIVGPSGSGKSTLLNLLGG   53 (226)
T ss_pred             CEEEEECCCCCCHHHHHHHHhc
Confidence            5899999999999999988875

>cd00876 Ras Ras family

Probab=93.85  E-value=0.05  Score=44.74  Aligned_cols=21  Identities=19%  Similarity=0.504  Sum_probs=18.8

Q ss_pred             EEEEcCCCCcHHHHHHHHhcc
Q 038448          163 IPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       163 i~I~G~gGiGKTtLA~~v~~~  183 (385)
                      |.|+|.+|+|||||...+.+.
T Consensus         2 i~i~G~~~~GKTsli~~l~~~   22 (160)
T cd00876           2 VVVLGAGGVGKSAITIQFVKG   22 (160)
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            689999999999999988754

The Ras family of the Ras superfamily includes classical N-Ras, H-Ras, and K-Ras, as well as R-Ras, Rap, Ral, Rheb, Rhes, ARHI, RERG, Rin/Rit, RSR1, RRP22, Ras2, Ras-dva, and RGK proteins. Ras proteins regulate cell growth, proliferation and differentiation. Ras is activated by guanine nucleotide exchange factors (GEFs) that release GDP and allow GTP binding. Many RasGEFs have been identified. These are sequestered in the cytosol until activation by growth factors triggers recruitment to the plasma membrane or Golgi, where the GEF colocalizes with Ras. Active GTP-bound Ras interacts with several effector proteins: among the best characterized are the Raf kinases, phosphatidylinositol 3-kinase (PI3K), RalGEFs and NORE/MST1. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of m

>PRK13539 cytochrome c biogenesis protein CcmA; Provisional

Probab=93.85  E-value=0.084  Score=46.11  Aligned_cols=23  Identities=30%  Similarity=0.354  Sum_probs=21.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .+++|+|..|.|||||.+.+...
T Consensus        29 e~~~i~G~nGsGKSTLl~~l~G~   51 (207)
T PRK13539         29 EALVLTGPNGSGKTTLLRLIAGL   51 (207)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            68999999999999999999874

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

Probab=93.85  E-value=1.3  Score=46.09  Aligned_cols=59  Identities=22%  Similarity=0.271  Sum_probs=36.7

Q ss_pred             HHHHHHHHHHHH--hhhhhhHHHHHHHHhcC---CCCCCCCceEEEEEcCCCCcHHHHHHHHhc
Q 038448          124 AKIEDRTIRLQE--IEKDKEKEETVKLLLRD---DLRTDDGLSVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       124 ~~i~~~~~~l~~--i~~~~~~~~l~~~L~~~---~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      .++..+..++..  ++++.....+.+.+...   ....+....+...+|+.|||||.||+.+..
T Consensus       480 ~kll~le~~L~~rViGQd~AV~avs~aIrraRaGL~dp~rPigsFlF~GPTGVGKTELAkaLA~  543 (786)
T COG0542         480 EKLLNLERRLKKRVIGQDEAVEAVSDAIRRARAGLGDPNRPIGSFLFLGPTGVGKTELAKALAE  543 (786)
T ss_pred             HHHHHHHHHHhcceeChHHHHHHHHHHHHHHhcCCCCCCCCceEEEeeCCCcccHHHHHHHHHH
Confidence            333444444432  33466666666665442   222344567888899999999999988765

>TIGR01351 adk adenylate kinases

Probab=93.85  E-value=0.044  Score=47.99  Aligned_cols=21  Identities=24%  Similarity=0.286  Sum_probs=18.7

Q ss_pred             EEEEcCCCCcHHHHHHHHhcc
Q 038448          163 IPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       163 i~I~G~gGiGKTtLA~~v~~~  183 (385)
                      |.|+|++|+||||+|+.+...
T Consensus         2 I~i~G~pGsGKsT~a~~La~~   22 (210)
T TIGR01351         2 LVLLGPPGSGKGTQAKRIAEK   22 (210)
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            678999999999999998753

Adenylate kinase (EC 2.7.4.3) converts ATP + AMP to ADP + ADP, that is, uses ATP as a phosphate donor for AMP. Most members of this family are known or believed to be adenylate kinase. However, some members accept other nucleotide triphosphates as donors, may be unable to use ATP, and may fail to complement adenylate kinase mutants. An example of a nucleoside-triphosphate--adenylate kinase (EC 2.7.4.10) is a GTP:AMP phosphotransferase. This family is designated subfamily rather than equivalog for this reason.

>cd00154 Rab Rab family

Probab=93.83  E-value=0.051  Score=44.37  Aligned_cols=22  Identities=32%  Similarity=0.401  Sum_probs=19.6

Q ss_pred             EEEEcCCCCcHHHHHHHHhccc
Q 038448          163 IPIIGTGRIGKTTLAQLAYSDV  184 (385)
Q Consensus       163 i~I~G~gGiGKTtLA~~v~~~~  184 (385)
                      |.++|.+|+|||||...+.+..
T Consensus         3 i~~~G~~~~GKStl~~~l~~~~   24 (159)
T cd00154           3 IVLIGDSGVGKTSLLLRFVDGK   24 (159)
T ss_pred             EEEECCCCCCHHHHHHHHHhCc
Confidence            7899999999999999987664

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

>cd03267 ABC_NatA_like Similar in sequence to NatA, this is the ATPase component of a bacterial ABC-type Na+ transport system called NatAB, which catalyzes ATP-dependent electrogenic Na+ extrusion without mechanically coupled to proton or K+ uptake

Probab=93.83  E-value=0.082  Score=47.23  Aligned_cols=33  Identities=18%  Similarity=0.167  Sum_probs=25.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhccccccccccceEEE
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWT  196 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv  196 (385)
                      .+++|+|..|.|||||++.+...   .......+++
T Consensus        48 e~~~i~G~NGsGKSTLl~~i~Gl---~~p~~G~i~~   80 (236)
T cd03267          48 EIVGFIGPNGAGKTTTLKILSGL---LQPTSGEVRV   80 (236)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC---cCCCceEEEE
Confidence            68999999999999999999873   2234455554

NatB possess six putative membrane spanning regions at its C-terminus. In B. subtilis, NatAB is inducible by agents such as ethanol and protonophores, which lower the protonmotive force across the membrane. The closest sequence similarity to NatA is exhibited by DrrA of the two-component daunomycin- and doxorubicin-efflux system. Hence, the functional NatAB is presumably assembled with two copies of the single ATP-binding protein and the single intergral membrane protein.

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

Probab=93.82  E-value=0.048  Score=46.44  Aligned_cols=36  Identities=17%  Similarity=0.242  Sum_probs=25.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEe
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCV  198 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v  198 (385)
                      .-+.++|.+|+|||.||..+.+.. +...+ .+.|++.
T Consensus        48 ~~l~l~G~~G~GKThLa~ai~~~~-~~~g~-~v~f~~~   83 (178)
T PF01695_consen   48 ENLILYGPPGTGKTHLAVAIANEA-IRKGY-SVLFITA   83 (178)
T ss_dssp             -EEEEEESTTSSHHHHHHHHHHHH-HHTT---EEEEEH
T ss_pred             eEEEEEhhHhHHHHHHHHHHHHHh-ccCCc-ceeEeec
Confidence            568999999999999999998752 22222 3566653

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.

>cd03220 ABC_KpsT_Wzt ABC_KpsT_Wzt The KpsT/Wzt ABC transporter subfamily is involved in extracellular polysaccharide export

Probab=93.82  E-value=0.081  Score=46.85  Aligned_cols=33  Identities=24%  Similarity=0.121  Sum_probs=25.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhccccccccccceEEE
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWT  196 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv  196 (385)
                      .+++|+|..|.|||||++.+..-   .......+|+
T Consensus        49 e~~~i~G~nGsGKSTLl~~l~G~---~~p~~G~i~~   81 (224)
T cd03220          49 ERIGLIGRNGAGKSTLLRLLAGI---YPPDSGTVTV   81 (224)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC---CCCCceEEEE
Confidence            68999999999999999999874   2233445554

Among the variety of membrane-linked or extracellular polysaccharides excreted by bacteria, only capsular polysaccharides, lipopolysaccharides, and teichoic acids have been shown to be exported by ABC transporters. A typical system is made of a conserved integral membrane and an ABC. In addition to these proteins, capsular polysaccharide exporter systems require two 'accessory' proteins to perform their function: a periplasmic (E.coli) or a lipid-anchored outer membrane protein called OMA (Neisseria meningitidis and Haemophilus influenzae) and a cytoplasmic membrane protein MPA2.

>PRK11058 GTPase HflX; Provisional

Probab=93.81  E-value=0.22  Score=48.60  Aligned_cols=57  Identities=19%  Similarity=0.366  Sum_probs=39.4

Q ss_pred             hHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHhcCCCCCCCCceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          119 DHMMAAKIEDRTIRLQEIEKDKEKEETVKLLLRDDLRTDDGLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       119 ~~~~~~~i~~~~~~l~~i~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      +..+..++.++...|+.+...........        ...+...|+|+|.+++|||||...+.+.
T Consensus       164 ~r~i~~ri~~l~~~L~~~~~~r~~~r~~r--------~~~~~p~ValVG~~NaGKSSLlN~Lt~~  220 (426)
T PRK11058        164 RRLLRNRIVQILSRLERVEKQREQGRRAR--------IKADVPTVSLVGYTNAGKSTLFNRITEA  220 (426)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhHHHHHHHh--------hhcCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            34577888888888877765433222211        1124567999999999999999998764

>PRK00698 tmk thymidylate kinase; Validated

Probab=93.81  E-value=0.052  Score=47.15  Aligned_cols=23  Identities=30%  Similarity=0.268  Sum_probs=21.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .+|+|.|+.|+||||+++.+.+.
T Consensus         4 ~~I~ieG~~gsGKsT~~~~L~~~   26 (205)
T PRK00698          4 MFITIEGIDGAGKSTQIELLKEL   26 (205)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            68999999999999999999874

>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=93.80  E-value=0.052  Score=46.10  Aligned_cols=22  Identities=23%  Similarity=0.353  Sum_probs=19.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      .+++|+|+.|.|||||.+.+..
T Consensus        22 ~~~~l~G~nG~GKSTLl~~il~   43 (176)
T cd03238          22 VLVVVTGVSGSGKSTLVNEGLY   43 (176)
T ss_pred             CEEEEECCCCCCHHHHHHHHhh
Confidence            6899999999999999998863

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.

>TIGR02239 recomb_RAD51 DNA repair protein RAD51

Probab=93.78  E-value=0.14  Score=47.94  Aligned_cols=56  Identities=20%  Similarity=0.141  Sum_probs=38.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcccccccc----ccceEEEEecCCCCHHHHHHHHHHHh
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSDVRVHNH----FDLKAWTCVSEDFDIIRVTKSILKSI  215 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~----F~~~~wv~vs~~~~~~~~~~~il~~l  215 (385)
                      .-.++.|+|.+|+|||||+..++........    -..++|++....+...++ ..+++.+
T Consensus        95 ~g~i~~i~G~~g~GKT~l~~~~~~~~~~~~~~Gg~~~~vvyIdtE~~f~~~Rl-~~ia~~~  154 (316)
T TIGR02239        95 TGSITEIFGEFRTGKTQLCHTLAVTCQLPIDQGGGEGKALYIDTEGTFRPERL-LAIAERY  154 (316)
T ss_pred             CCeEEEEECCCCCCcCHHHHHHHHHHhhhhhcCCCCceEEEEECCCCCCHHHH-HHHHHHc
Confidence            4688999999999999999888643212111    135689998887777753 3444444

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).

>cd03268 ABC_BcrA_bacitracin_resist The BcrA subfamily represents ABC transporters involved in peptide antibiotic resistance

Probab=93.78  E-value=0.087  Score=45.98  Aligned_cols=34  Identities=15%  Similarity=0.036  Sum_probs=26.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhccccccccccceEEEE
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTC  197 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~  197 (385)
                      .+++|+|..|.|||||.+.+..-   .......+++.
T Consensus        27 ~~~~i~G~nGsGKSTLl~~l~Gl---~~~~~G~i~~~   60 (208)
T cd03268          27 EIYGFLGPNGAGKTTTMKIILGL---IKPDSGEITFD   60 (208)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCC---cCCCceEEEEC
Confidence            68999999999999999999873   23345556653

Bacitracin is a dodecapeptide antibiotic produced by B. licheniformis and B. subtilis. The synthesis of bacitracin is non-ribosomally catalyzed by a multienzyme complex BcrABC. Bacitracin has potent antibiotic activity against gram-positive bacteria. The inhibition of peptidoglycan biosynthesis is the best characterized bacterial effect of bacitracin. The bacitracin resistance of B. licheniformis is mediated by the ABC transporter Bcr which is composed of two identical BcrA ATP-binding subunits and one each of the integral membrane proteins, BcrB and BcrC. B. subtilis cells carrying bcr genes on high-copy number plasmids develop collateral detergent sensitivity, a similar phenomenon in human cells with overexpressed multi-drug resistance P-glycoprotein.

>cd03258 ABC_MetN_methionine_transporter MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport

Probab=93.78  E-value=0.085  Score=46.94  Aligned_cols=23  Identities=30%  Similarity=0.391  Sum_probs=21.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .+++|+|..|.|||||++.+..-
T Consensus        32 e~~~l~G~nGsGKSTLl~~l~G~   54 (233)
T cd03258          32 EIFGIIGRSGAGKSTLIRCINGL   54 (233)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            68999999999999999999874

Other members of this system include the MetP permease and the MetQ substrate binding protein. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03215 ABC_Carb_Monos_II This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=93.77  E-value=0.089  Score=44.91  Aligned_cols=23  Identities=26%  Similarity=0.348  Sum_probs=21.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .+++|+|..|.|||||.+.+..-
T Consensus        27 ~~~~i~G~nGsGKSTLl~~l~G~   49 (182)
T cd03215          27 EIVGIAGLVGNGQTELAEALFGL   49 (182)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCC
Confidence            58999999999999999999874

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.

>cd02026 PRK Phosphoribulokinase (PRK) is an enzyme involved in the Benson-Calvin cycle in chloroplasts or photosynthetic prokaryotes

Probab=93.77  E-value=0.043  Score=50.13  Aligned_cols=22  Identities=27%  Similarity=0.330  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcc
Q 038448          162 VIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      +|+|.|..|+|||||++.+..-
T Consensus         1 iigI~G~sGsGKSTl~~~L~~l   22 (273)
T cd02026           1 IIGVAGDSGCGKSTFLRRLTSL   22 (273)
T ss_pred             CEEEECCCCCCHHHHHHHHHHh
Confidence            5899999999999999999863

This enzyme catalyzes the phosphorylation of D-ribulose 5-phosphate to form D-ribulose 1, 5-biphosphate, using ATP and NADPH produced by the primary reactions of photosynthesis.

>PRK09354 recA recombinase A; Provisional

Probab=93.74  E-value=0.081  Score=49.81  Aligned_cols=43  Identities=26%  Similarity=0.268  Sum_probs=30.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecCCCC
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDFD  203 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~  203 (385)
                      .-+++-|+|++|+||||||.++...  ....-..++||..-..++
T Consensus        59 ~G~IteI~G~~GsGKTtLal~~~~~--~~~~G~~~~yId~E~s~~  101 (349)
T PRK09354         59 RGRIVEIYGPESSGKTTLALHAIAE--AQKAGGTAAFIDAEHALD  101 (349)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHH--HHHcCCcEEEECCccchH
Confidence            4578999999999999999987654  223334567776554443

>cd03228 ABCC_MRP_Like The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export

Probab=93.74  E-value=0.096  Score=44.21  Aligned_cols=23  Identities=30%  Similarity=0.436  Sum_probs=21.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .+++|+|..|.|||||.+.++.-
T Consensus        29 ~~~~l~G~nGsGKstLl~~i~G~   51 (171)
T cd03228          29 EKVAIVGPSGSGKSTLLKLLLRL   51 (171)
T ss_pred             CEEEEECCCCCCHHHHHHHHHcC
Confidence            68999999999999999999874

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.

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

Probab=93.73  E-value=0.59  Score=43.59  Aligned_cols=112  Identities=12%  Similarity=0.062  Sum_probs=60.0

Q ss_pred             HHHHHHHHhcCCCCCCCCceEEEEEcCCCCcHHHHHHHHhccccccc-------------------cccceEEEEecCCC
Q 038448          142 KEETVKLLLRDDLRTDDGLSVIPIIGTGRIGKTTLAQLAYSDVRVHN-------------------HFDLKAWTCVSEDF  202 (385)
Q Consensus       142 ~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~-------------------~F~~~~wv~vs~~~  202 (385)
                      ...+..+.....    .....+.++|++|+||||+|..+.+..--..                   ..+....++.+...
T Consensus        10 ~~~l~~~~~~~~----~~~halL~~Gp~G~Gktt~a~~lA~~l~~~~~~~~~~~~~~~~~~~~~~~~~~d~lel~~s~~~   85 (325)
T COG0470          10 VKRLLVQALESG----RLPHALLFYGPPGVGKTTAALALAKELLCENPTGLLPCGHCRSCKLIPAGNHPDFLELNPSDLR   85 (325)
T ss_pred             HHHHHHHHHhcC----CCCceeeeeCCCCCCHHHHHHHHHHHHhCCCcccCCcccchhhhhHHhhcCCCceEEecccccC
Confidence            344555554321    1233589999999999999988765421000                   12345556666554


Q ss_pred             C---HHHHHHHHHHHhhcCCCC---CccchHHhh--chhhHhhHhhhccCCCCCcEEEEEcCC
Q 038448          203 D---IIRVTKSILKSIASDQLV---DDHDLNLLQ--KYNDWTNRSRLFEAGAPGSKIVFTTRN  257 (385)
Q Consensus       203 ~---~~~~~~~il~~l~~~~~~---~~~~~~~l~--~~~~w~~l~~~l~~~~~gs~IivTTR~  257 (385)
                      .   ..+..+++..........   ..--++...  ..+.-..+...+......+.+|++|..
T Consensus        86 ~~~i~~~~vr~~~~~~~~~~~~~~~kviiidead~mt~~A~nallk~lEep~~~~~~il~~n~  148 (325)
T COG0470          86 KIDIIVEQVRELAEFLSESPLEGGYKVVIIDEADKLTEDAANALLKTLEEPPKNTRFILITND  148 (325)
T ss_pred             CCcchHHHHHHHHHHhccCCCCCCceEEEeCcHHHHhHHHHHHHHHHhccCCCCeEEEEEcCC
Confidence            4   455666666665544310   111111111  223344455555555667788877763

>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=93.72  E-value=0.094  Score=44.36  Aligned_cols=23  Identities=39%  Similarity=0.521  Sum_probs=21.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .+++|+|..|.|||||.+.+..-
T Consensus        29 e~~~i~G~nGsGKStLl~~l~G~   51 (173)
T cd03246          29 ESLAIIGPSGSGKSTLARLILGL   51 (173)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhc
Confidence            58999999999999999999863

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

>PRK11247 ssuB aliphatic sulfonates transport ATP-binding subunit; Provisional

Probab=93.71  E-value=0.087  Score=47.75  Aligned_cols=23  Identities=26%  Similarity=0.432  Sum_probs=21.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .+++|+|..|.|||||.+.+..-
T Consensus        39 e~~~I~G~NGsGKSTLlk~l~Gl   61 (257)
T PRK11247         39 QFVAVVGRSGCGKSTLLRLLAGL   61 (257)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcC
Confidence            58999999999999999999863

>TIGR01618 phage_P_loop phage nucleotide-binding protein

Probab=93.71  E-value=0.053  Score=47.70  Aligned_cols=23  Identities=22%  Similarity=0.195  Sum_probs=20.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhc
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      ...+.|+|.+|+||||+|+.+-+
T Consensus        12 ~~~~liyG~~G~GKtt~a~~~~~   34 (220)
T TIGR01618        12 PNMYLIYGKPGTGKTSTIKYLPG   34 (220)
T ss_pred             CcEEEEECCCCCCHHHHHHhcCC
Confidence            46699999999999999998854

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

>PRK07952 DNA replication protein DnaC; Validated

Probab=93.71  E-value=0.056  Score=48.46  Aligned_cols=37  Identities=16%  Similarity=0.089  Sum_probs=27.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEe
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCV  198 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v  198 (385)
                      ...+.++|.+|+|||+||..+.+..  ...-..++++++
T Consensus        99 ~~~~~l~G~~GtGKThLa~aia~~l--~~~g~~v~~it~  135 (244)
T PRK07952         99 IASFIFSGKPGTGKNHLAAAICNEL--LLRGKSVLIITV  135 (244)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHH--HhcCCeEEEEEH
Confidence            3578899999999999999999863  222334556654

>PRK08533 flagellar accessory protein FlaH; Reviewed

Probab=93.70  E-value=0.17  Score=45.03  Aligned_cols=48  Identities=21%  Similarity=0.175  Sum_probs=30.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecCCCCHHHHHHHH
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDFDIIRVTKSI  211 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i  211 (385)
                      -.++.|.|.+|.||||||.++.... .+.. ..+++++...  +..++++.+
T Consensus        24 g~~~~i~G~~G~GKTtl~~~~~~~~-~~~g-~~~~yi~~e~--~~~~~~~~~   71 (230)
T PRK08533         24 GSLILIEGDESTGKSILSQRLAYGF-LQNG-YSVSYVSTQL--TTTEFIKQM   71 (230)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHH-HhCC-CcEEEEeCCC--CHHHHHHHH
Confidence            4599999999999999986655431 2222 3456666333  445555554

>cd03262 ABC_HisP_GlnQ_permeases HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively

Probab=93.70  E-value=0.091  Score=45.99  Aligned_cols=33  Identities=24%  Similarity=0.146  Sum_probs=25.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhccccccccccceEEE
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWT  196 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv  196 (385)
                      .+++|+|..|.|||||.+.+..-   .......+++
T Consensus        27 ~~~~l~G~nGsGKSTLl~~l~G~---~~~~~G~i~~   59 (213)
T cd03262          27 EVVVIIGPSGSGKSTLLRCINLL---EEPDSGTIII   59 (213)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC---CCCCCceEEE
Confidence            68999999999999999999873   2233445554

Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP has properties intermediate between those of integral and peripheral membrane proteins and is accessible from both sides of the membrane, presumably by its interaction with HisQ and HisM. The two HisP subunits form a homodimer within the complex. The domain structure of the amino acid uptake systems is typical for prokaryote extracellular solute binding protein-dependent uptake systems. All of the amino acid uptake systems also have at least one, and in a few cases, two extracellular solute binding proteins located in the periplasm of Gram-negative bacteria, or attached to the cell membrane of Gram-positive bacteria. The best-studied member of the PAAT (polar amino acid transport) family is the HisJQM

>cd03254 ABCC_Glucan_exporter_like Glucan exporter ATP-binding protein

Probab=93.69  E-value=0.09  Score=46.62  Aligned_cols=34  Identities=24%  Similarity=0.195  Sum_probs=26.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhccccccccccceEEEE
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTC  197 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~  197 (385)
                      .+++|+|..|.|||||.+.+..-   .......+|+.
T Consensus        30 ~~~~i~G~nGsGKSTLl~~l~G~---~~~~~G~i~~~   63 (229)
T cd03254          30 ETVAIVGPTGAGKTTLINLLMRF---YDPQKGQILID   63 (229)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcC---cCCCCCEEEEC
Confidence            57999999999999999999873   23345666664

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.

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

Probab=93.68  E-value=0.053  Score=49.39  Aligned_cols=23  Identities=39%  Similarity=0.475  Sum_probs=19.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ++|+|.|-||+||||++..+..-
T Consensus         2 ~~iav~~KGGvGKTT~~~nLA~~   24 (270)
T cd02040           2 RQIAIYGKGGIGKSTTTQNLSAA   24 (270)
T ss_pred             cEEEEEeCCcCCHHHHHHHHHHH
Confidence            57888899999999998776553

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

>PRK10908 cell division protein FtsE; Provisional

Probab=93.67  E-value=0.092  Score=46.36  Aligned_cols=33  Identities=24%  Similarity=0.286  Sum_probs=25.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhccccccccccceEEE
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWT  196 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv  196 (385)
                      .+++|+|..|.|||||.+.+..-   .......+++
T Consensus        29 e~~~i~G~nGsGKSTLl~~l~G~---~~~~~G~i~~   61 (222)
T PRK10908         29 EMAFLTGHSGAGKSTLLKLICGI---ERPSAGKIWF   61 (222)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC---CCCCceEEEE
Confidence            68999999999999999999874   2233445554

>cd03216 ABC_Carb_Monos_I This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=93.67  E-value=0.1  Score=43.72  Aligned_cols=23  Identities=26%  Similarity=0.394  Sum_probs=21.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .+++|+|..|.|||||.+.+...
T Consensus        27 e~~~l~G~nGsGKSTLl~~i~G~   49 (163)
T cd03216          27 EVHALLGENGAGKSTLMKILSGL   49 (163)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            58999999999999999999874

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.

>cd03114 ArgK-like The function of this protein family is unkown

Probab=93.66  E-value=0.052  Score=44.70  Aligned_cols=22  Identities=36%  Similarity=0.431  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcc
Q 038448          162 VIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ++++.|.+|+||||++..+...
T Consensus         1 ~i~~~G~~GsGKTt~~~~l~~~   22 (148)
T cd03114           1 VIGITGVPGAGKSTLIDALITA   22 (148)
T ss_pred             CEEEECCCCCcHHHHHHHHHHH
Confidence            4789999999999999888754

The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and ornithine (AO system) and lysine, arginine and ornithine (LAO) transport systems.

>PRK06921 hypothetical protein; Provisional

Probab=93.66  E-value=0.084  Score=48.08  Aligned_cols=38  Identities=18%  Similarity=0.119  Sum_probs=28.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhcccccccc-ccceEEEEec
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSDVRVHNH-FDLKAWTCVS  199 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~-F~~~~wv~vs  199 (385)
                      ..-+.++|.+|+|||+||..+.+.  +... -..++|++..
T Consensus       117 ~~~l~l~G~~G~GKThLa~aia~~--l~~~~g~~v~y~~~~  155 (266)
T PRK06921        117 KNSIALLGQPGSGKTHLLTAAANE--LMRKKGVPVLYFPFV  155 (266)
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHH--HhhhcCceEEEEEHH
Confidence            467899999999999999999985  3333 3445677653

>KOG1514 consensus Origin recognition complex, subunit 1, and related proteins [Replication, recombination and repair]

Probab=93.66  E-value=2.8  Score=42.69  Aligned_cols=96  Identities=16%  Similarity=0.100  Sum_probs=63.2

Q ss_pred             HHHHHHHHHHHHHhh-------hhhhHHHHHHHHhcCCCCCCCCceEEEEEcCCCCcHHHHHHHHhcccc------cccc
Q 038448          123 AAKIEDRTIRLQEIE-------KDKEKEETVKLLLRDDLRTDDGLSVIPIIGTGRIGKTTLAQLAYSDVR------VHNH  189 (385)
Q Consensus       123 ~~~i~~~~~~l~~i~-------~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~------~~~~  189 (385)
                      +..++..+.+|.--.       ++.+..+|-+++-.--. .+..-+.+-|.|.+|.|||..+..|.+...      --..
T Consensus       379 ~S~l~~ara~Lhls~vp~sLpcRe~E~~~I~~f~~~~i~-~~~~g~~mYIsGvPGtGKT~tV~~Vm~~Lq~~s~~~e~p~  457 (767)
T KOG1514|consen  379 ASELSKARARLHLSAVPESLPCRENEFSEIEDFLRSFIS-DQGLGSCMYISGVPGTGKTATVLEVMKELQTSSAQKELPK  457 (767)
T ss_pred             hhHHHHHHHHhHHhhccccccchhHHHHHHHHHHHhhcC-CCCCceeEEEecCCCCCceehHHHHHHHHHHHHhhcCCCC
Confidence            455555666553221       27788888887755433 222334889999999999999999987431      1223


Q ss_pred             ccceEEEEecCCCCHHHHHHHHHHHhhcCCC
Q 038448          190 FDLKAWTCVSEDFDIIRVTKSILKSIASDQL  220 (385)
Q Consensus       190 F~~~~wv~vs~~~~~~~~~~~il~~l~~~~~  220 (385)
                      |+ .+.|+.-.-..+.+++..|..++.+...
T Consensus       458 f~-yveINgm~l~~~~~~Y~~I~~~lsg~~~  487 (767)
T KOG1514|consen  458 FD-YVEINGLRLASPREIYEKIWEALSGERV  487 (767)
T ss_pred             cc-EEEEcceeecCHHHHHHHHHHhcccCcc
Confidence            43 3345544556788999999999987654

>cd03252 ABCC_Hemolysin The ABC-transporter hemolysin B is a central component of the secretion machinery that translocates the toxin, hemolysin A, in a Sec-independent fashion across both membranes of E

Probab=93.65  E-value=0.092  Score=46.86  Aligned_cols=33  Identities=24%  Similarity=0.238  Sum_probs=25.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhccccccccccceEEE
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWT  196 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv  196 (385)
                      .+++|+|..|.|||||++.+..-   .......+++
T Consensus        29 e~~~i~G~nGsGKSTLl~~l~Gl---~~~~~G~i~~   61 (237)
T cd03252          29 EVVGIVGRSGSGKSTLTKLIQRF---YVPENGRVLV   61 (237)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcC---cCCCCCEEEE
Confidence            68999999999999999999873   2233445544

coli. The hemolysin A (HlyA) transport machinery is composed of the ATP-binding cassette (ABC) transporter HlyB located in the inner membrane, hemolysin D (HlyD), also anchored in the inner membrane, and TolC, which resides in the outer membrane. HlyD apparently forms a continuous channel that bridges the entire periplasm, interacting with TolC and HlyB. This arrangement prevents the appearance of periplasmic intermediates of HlyA during substrate transport. Little is known about the molecular details of HlyA transport, but it is evident that ATP-hydrolysis by the ABC-transporter HlyB is a necessary source of energy.

>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=93.64  E-value=0.1  Score=44.49  Aligned_cols=33  Identities=18%  Similarity=0.166  Sum_probs=25.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhccccccccccceEEE
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWT  196 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv  196 (385)
                      .+++|+|..|.|||||.+.++.-   .......+++
T Consensus        26 ~~~~l~G~nGsGKStLl~~i~G~---~~~~~G~v~~   58 (180)
T cd03214          26 EIVGILGPNGAGKSTLLKTLAGL---LKPSSGEILL   58 (180)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC---CCCCCcEEEE
Confidence            68999999999999999999874   2334444444

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.

>PF00071 Ras: Ras family; InterPro: IPR001806 Small GTPases form an independent superfamily within the larger class of regulatory GTP hydrolases

Probab=93.64  E-value=0.057  Score=44.71  Aligned_cols=22  Identities=27%  Similarity=0.459  Sum_probs=19.5

Q ss_pred             EEEEcCCCCcHHHHHHHHhccc
Q 038448          163 IPIIGTGRIGKTTLAQLAYSDV  184 (385)
Q Consensus       163 i~I~G~gGiGKTtLA~~v~~~~  184 (385)
                      |.++|.+|+|||||...+.+..
T Consensus         2 i~vvG~~~vGKtsl~~~~~~~~   23 (162)
T PF00071_consen    2 IVVVGDSGVGKTSLINRLINGE   23 (162)
T ss_dssp             EEEEESTTSSHHHHHHHHHHSS
T ss_pred             EEEECCCCCCHHHHHHHHHhhc
Confidence            6899999999999999988753

This superfamily contains proteins that control a vast number of important processes and possess a common, structurally preserved GTP-binding domain [, ]. Sequence comparisons of small G proteins from various species have revealed that they are conserved in primary structures at the level of 30-55% similarity []. Crystallographic analysis of various small G proteins revealed the presence of a 20 kDa catalytic domain that is unique for the whole superfamily [, ]. The domain is built of five alpha helices (A1-A5), six beta-strands (B1-B6) and five polypeptide loops (G1-G5). A structural comparison of the GTP- and GDP-bound form, allows one to distinguish two functional loop regions: switch I and switch II that surround the gamma-phosphate group of the nucleotide. The G1 loop (also called the P-loop) that connects the B1 strand and the A1 helix is responsible for the binding of the phosphate groups. The G3 loop provides residues for Mg(2+) and phosphate binding and is located at the N terminus of the A2 helix. The G1 and G3 loops are sequentially similar to Walker A and Walker B boxes that are found in other nucleotide binding motifs. The G2 loop connects the A1 helix and the B2 strand and contains a conserved Thr residue responsible for Mg(2+) binding. The guanine base is recognised by the G4 and G5 loops. The consensus sequence NKXD of the G4 loop contains Lys and Asp residues directly interacting with the nucleotide. Part of the G5 loop located between B6 and A5 acts as a recognition site for the guanine base []. The small GTPase superfamily can be divided into at least 8 different families, including: Arf small GTPases. GTP-binding proteins involved in protein trafficking by modulating vesicle budding and uncoating within the Golgi apparatus. Ran small GTPases. GTP-binding proteins involved in nucleocytoplasmic transport. Required for the import of proteins into the nucleus and also for RNA export. Rab small GTPases. GTP-binding proteins involved in vesicular traffic. Rho small GTPases. GTP-binding proteins that control cytoskeleton reorganisation. Ras small GTPases. GTP-binding proteins involved in signalling pathways. Sar1 small GTPases. Small GTPase component of the coat protein complex II (COPII) which promotes the formation of transport vesicles from the endoplasmic reticulum (ER). Mitochondrial Rho (Miro). Small GTPase domain found in mitochondrial proteins involved in mitochondrial trafficking. Roc small GTPases domain. Small GTPase domain always found associated with the COR domain. ; GO: 0005525 GTP binding, 0007264 small GTPase mediated signal transduction; PDB: 1M7B_A 2V55_B 3EG5_C 3LAW_A 1YHN_A 1T91_B 1HE8_B 3SEA_B 3T5G_A 1XTS_A ....

>cd03257 ABC_NikE_OppD_transporters The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE)

Probab=93.64  E-value=0.093  Score=46.47  Aligned_cols=23  Identities=26%  Similarity=0.400  Sum_probs=21.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .+++|+|..|.|||||.+.+...
T Consensus        32 e~~~i~G~nGsGKSTLl~~l~G~   54 (228)
T cd03257          32 ETLGLVGESGSGKSTLARAILGL   54 (228)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            68999999999999999999874

The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane components (NikB and NikC), and two ATPase (NikD and NikE). The NikABCDE transporter is synthesized under anaerobic conditions to meet the increased demand for nickel resulting from hydrogenase synthesis. The molecular mechanism of nickel uptake in many bacteria and most archaea is not known. Many other members of this ABC family are also involved in the uptake of dipeptides and oligopeptides. The oligopeptide transport system (Opp) is a five-component ABC transport composed of a membrane-anchored substrate binding proteins (SRP), OppA, two transmembrane proteins, OppB and OppC, and two ATP-binding domains, OppD and OppF.

>cd00879 Sar1 Sar1 subfamily

Probab=93.63  E-value=0.058  Score=46.17  Aligned_cols=24  Identities=33%  Similarity=0.425  Sum_probs=20.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ...|+|+|.+|+|||||...+..+
T Consensus        19 ~~ki~ilG~~~~GKStLi~~l~~~   42 (190)
T cd00879          19 EAKILFLGLDNAGKTTLLHMLKDD   42 (190)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcC
Confidence            355699999999999999998864

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

>PRK13648 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=93.62  E-value=0.09  Score=47.98  Aligned_cols=23  Identities=30%  Similarity=0.408  Sum_probs=21.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .+++|+|..|.|||||.+.+..-
T Consensus        36 e~~~I~G~nGsGKSTLl~~i~Gl   58 (269)
T PRK13648         36 QWTSIVGHNGSGKSTIAKLMIGI   58 (269)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcC
Confidence            68999999999999999999863

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=93.60  E-value=0.39  Score=50.53  Aligned_cols=146  Identities=10%  Similarity=0.095  Sum_probs=71.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecC---CC--CHHHHHHHHHHHhhcCCCC--CccchHHhh--
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSE---DF--DIIRVTKSILKSIASDQLV--DDHDLNLLQ--  230 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~---~~--~~~~~~~~il~~l~~~~~~--~~~~~~~l~--  230 (385)
                      .+-+.++|++|.|||+||+.+.+.  ....|   +.+..+.   .+  .....++.++.......+.  -.++.+.+-  
T Consensus       487 ~~giLL~GppGtGKT~lakalA~e--~~~~f---i~v~~~~l~~~~vGese~~i~~~f~~A~~~~p~iifiDEid~l~~~  561 (733)
T TIGR01243       487 PKGVLLFGPPGTGKTLLAKAVATE--SGANF---IAVRGPEILSKWVGESEKAIREIFRKARQAAPAIIFFDEIDAIAPA  561 (733)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHh--cCCCE---EEEehHHHhhcccCcHHHHHHHHHHHHHhcCCEEEEEEChhhhhcc
Confidence            455889999999999999999985  33333   2222111   11  1233445555444332221  122333321  


Q ss_pred             ---------chhhHhhHhhhccC--CCCCcEEEEEcCChhHHhh--c---CCCCcccCCCCChhhHHhhhhccccCCCCC
Q 038448          231 ---------KYNDWTNRSRLFEA--GAPGSKIVFTTRNLGVAEK--M---GPLPAYPLKELSNDDCLSVFSPHSLGEKDF  294 (385)
Q Consensus       231 ---------~~~~w~~l~~~l~~--~~~gs~IivTTR~~~va~~--~---~~~~~~~l~~L~~~~a~~Lf~~~a~~~~~~  294 (385)
                               .......+...+..  ...+--||.||........  .   .-...+.+...+.++-.++|....- ....
T Consensus       562 r~~~~~~~~~~~~~~~lL~~ldg~~~~~~v~vI~aTn~~~~ld~allRpgRfd~~i~v~~Pd~~~R~~i~~~~~~-~~~~  640 (733)
T TIGR01243       562 RGARFDTSVTDRIVNQLLTEMDGIQELSNVVVIAATNRPDILDPALLRPGRFDRLILVPPPDEEARKEIFKIHTR-SMPL  640 (733)
T ss_pred             CCCCCCccHHHHHHHHHHHHhhcccCCCCEEEEEeCCChhhCCHhhcCCCccceEEEeCCcCHHHHHHHHHHHhc-CCCC
Confidence                     01112223333332  1223445667765544321  1   1235677888888888888865432 1111


Q ss_pred             CCCccHHHHHHHHHHHcCCCh
Q 038448          295 STHPSLKEIGEKIVKKCNGLP  315 (385)
Q Consensus       295 ~~~~~l~~~~~~i~~~c~glP  315 (385)
                      ....+    ...+++.+.|.-
T Consensus       641 ~~~~~----l~~la~~t~g~s  657 (733)
T TIGR01243       641 AEDVD----LEELAEMTEGYT  657 (733)
T ss_pred             CccCC----HHHHHHHcCCCC
Confidence            11122    344667777654

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.

>cd03245 ABCC_bacteriocin_exporters ABC-type bacteriocin exporters

Probab=93.60  E-value=0.089  Score=46.34  Aligned_cols=34  Identities=24%  Similarity=0.117  Sum_probs=26.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhccccccccccceEEEE
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTC  197 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~  197 (385)
                      .+++|+|..|.|||||.+.+..-   .......+++.
T Consensus        31 ~~~~i~G~nGsGKSTLl~~i~G~---~~~~~G~i~~~   64 (220)
T cd03245          31 EKVAIIGRVGSGKSTLLKLLAGL---YKPTSGSVLLD   64 (220)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcC---cCCCCCeEEEC
Confidence            68999999999999999999873   23334555553

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.

>PRK00279 adk adenylate kinase; Reviewed

Probab=93.60  E-value=0.052  Score=47.72  Aligned_cols=22  Identities=23%  Similarity=0.309  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcc
Q 038448          162 VIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .|.|+|++|+||||+|+.+...
T Consensus         2 ~I~v~G~pGsGKsT~a~~la~~   23 (215)
T PRK00279          2 RLILLGPPGAGKGTQAKFIAEK   23 (215)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            4789999999999999998753

>PLN03046 D-glycerate 3-kinase; Provisional

Probab=93.58  E-value=0.071  Score=51.12  Aligned_cols=25  Identities=28%  Similarity=0.028  Sum_probs=22.1

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHhc
Q 038448          158 DGLSVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       158 ~~~~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      ..+-+|+|.|..|.|||||++.+..
T Consensus       210 ~~PlIIGIsG~qGSGKSTLa~~L~~  234 (460)
T PLN03046        210 IPPLVIGFSAPQGCGKTTLVFALDY  234 (460)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHH
Confidence            3568999999999999999998864

>cd03244 ABCC_MRP_domain2 Domain 2 of the ABC subfamily C

Probab=93.58  E-value=0.098  Score=46.12  Aligned_cols=34  Identities=15%  Similarity=0.073  Sum_probs=26.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhccccccccccceEEEE
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTC  197 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~  197 (385)
                      .+++|+|..|.|||||.+.+...   .......+|+.
T Consensus        31 e~~~i~G~nGsGKSTLl~~l~G~---~~~~~G~i~~~   64 (221)
T cd03244          31 EKVGIVGRTGSGKSSLLLALFRL---VELSSGSILID   64 (221)
T ss_pred             CEEEEECCCCCCHHHHHHHHHcC---CCCCCCEEEEC
Confidence            68999999999999999999873   33445566653

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.

>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=93.58  E-value=0.096  Score=46.78  Aligned_cols=33  Identities=15%  Similarity=0.187  Sum_probs=25.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhccccccccccceEEE
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWT  196 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv  196 (385)
                      .+++|+|..|.|||||++.+..-   .......+++
T Consensus        30 e~~~l~G~nGsGKSTLl~~i~G~---~~~~~G~i~~   62 (238)
T cd03249          30 KTVALVGSSGCGKSTVVSLLERF---YDPTSGEILL   62 (238)
T ss_pred             CEEEEEeCCCCCHHHHHHHHhcc---CCCCCCEEEE
Confidence            68999999999999999999874   2334444444

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.

>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A

Probab=93.57  E-value=0.12  Score=44.74  Aligned_cols=23  Identities=30%  Similarity=0.299  Sum_probs=20.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      +++.|.|.+|.||||+...+...
T Consensus        19 ~~~~l~G~aGtGKT~~l~~~~~~   41 (196)
T PF13604_consen   19 RVSVLQGPAGTGKTTLLKALAEA   41 (196)
T ss_dssp             SEEEEEESTTSTHHHHHHHHHHH
T ss_pred             eEEEEEECCCCCHHHHHHHHHHH
Confidence            68889999999999999887664

>TIGR00959 ffh signal recognition particle protein

Probab=93.56  E-value=0.23  Score=48.29  Aligned_cols=25  Identities=28%  Similarity=0.214  Sum_probs=20.9

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHhc
Q 038448          158 DGLSVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       158 ~~~~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      ..+.++.++|.+|+||||.|..+..
T Consensus        97 ~~p~vi~~vG~~GsGKTTtaakLA~  121 (428)
T TIGR00959        97 KPPTVILMVGLQGSGKTTTCGKLAY  121 (428)
T ss_pred             CCCEEEEEECCCCCcHHHHHHHHHH
Confidence            3478999999999999999766654

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.

>TIGR03410 urea_trans_UrtE urea ABC transporter, ATP-binding protein UrtE

Probab=93.55  E-value=0.097  Score=46.47  Aligned_cols=33  Identities=21%  Similarity=0.122  Sum_probs=25.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhccccccccccceEEE
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWT  196 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv  196 (385)
                      .+++|+|..|.|||||++.+..-   .......+++
T Consensus        27 e~~~l~G~nGsGKSTLl~~l~G~---~~~~~G~i~~   59 (230)
T TIGR03410        27 EVTCVLGRNGVGKTTLLKTLMGL---LPVKSGSIRL   59 (230)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC---CCCCCCEEEE
Confidence            68999999999999999999873   2233445554

Members of this protein family are ABC transporter ATP-binding subunits associated with urea transport and metabolism. This protein is found in a conserved five-gene transport operon typically found adjacent to urease genes. It was shown in Cyanobacteria that disruption leads to the loss of high-affinity urea transport activity.

>PRK07429 phosphoribulokinase; Provisional

Probab=93.55  E-value=0.077  Score=49.75  Aligned_cols=26  Identities=23%  Similarity=0.212  Sum_probs=23.1

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          158 DGLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       158 ~~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ..+-+|+|.|.+|+||||+++.+..-
T Consensus         6 ~~~~IIgI~G~SGSGKSTla~~L~~l   31 (327)
T PRK07429          6 DRPVLLGVAGDSGCGKTTFLRGLADL   31 (327)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHhH
Confidence            46789999999999999999999863

>cd04177 RSR1 RSR1 subgroup

Probab=93.54  E-value=0.06  Score=45.07  Aligned_cols=22  Identities=32%  Similarity=0.604  Sum_probs=19.3

Q ss_pred             EEEEcCCCCcHHHHHHHHhccc
Q 038448          163 IPIIGTGRIGKTTLAQLAYSDV  184 (385)
Q Consensus       163 i~I~G~gGiGKTtLA~~v~~~~  184 (385)
                      |.++|.+|+|||||.+++.++.
T Consensus         4 i~liG~~~~GKTsli~~~~~~~   25 (168)
T cd04177           4 IVVLGAGGVGKSALTVQFVQNV   25 (168)
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            7899999999999999987553

RSR1/Bud1p is a member of the Rap subfamily of the Ras family that is found in fungi. In budding yeasts, RSR1 is involved in selecting a site for bud growth on the cell cortex, which directs the establishment of cell polarization. The Rho family GTPase cdc42 and its GEF, cdc24, then establish an axis of polarized growth by organizing the actin cytoskeleton and secretory apparatus at the bud site. It is believed that cdc42 interacts directly with RSR1 in vivo. In filamentous fungi, polar growth occurs at the tips of hypha and at novel growth sites along the extending hypha. In Ashbya gossypii, RSR1 is a key regulator of hyphal growth, localizing at the tip region and regulating in apical polarization of the actin cytoskeleton. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key featu

>cd03231 ABC_CcmA_heme_exporter CcmA, the ATP-binding component of the bacterial CcmAB transporter

Probab=93.54  E-value=0.1  Score=45.28  Aligned_cols=34  Identities=18%  Similarity=0.185  Sum_probs=26.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhccccccccccceEEEE
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTC  197 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~  197 (385)
                      .+++|+|..|.|||||.+.+..-   .......+++.
T Consensus        27 e~~~i~G~nGsGKSTLl~~l~G~---~~~~~G~i~~~   60 (201)
T cd03231          27 EALQVTGPNGSGKTTLLRILAGL---SPPLAGRVLLN   60 (201)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC---CCCCCcEEEEC
Confidence            68999999999999999999874   23344555543

The CCM family is involved in bacterial cytochrome c biogenesis. Cytochrome c maturation in E. coli requires the ccm operon, which encodes eight membrane proteins (CcmABCDEFGH). CcmE is a periplasmic heme chaperone that binds heme covalently and transfers it onto apocytochrome c in the presence of CcmF, CcmG, and CcmH. The CcmAB proteins represent an ABC transporter and the CcmCD proteins participate in heme transfer to CcmE.

>TIGR03740 galliderm_ABC gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit

Probab=93.53  E-value=0.1  Score=46.15  Aligned_cols=33  Identities=21%  Similarity=0.170  Sum_probs=25.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhccccccccccceEEE
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWT  196 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv  196 (385)
                      .+++|+|..|.|||||.+.+...   .......+|+
T Consensus        27 e~~~i~G~nGsGKSTLl~~l~G~---~~~~~G~i~~   59 (223)
T TIGR03740        27 SVYGLLGPNGAGKSTLLKMITGI---LRPTSGEIIF   59 (223)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCC---CCCCceEEEE
Confidence            58999999999999999999873   2334444444

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.

>PRK12338 hypothetical protein; Provisional

Probab=93.52  E-value=0.064  Score=49.76  Aligned_cols=24  Identities=33%  Similarity=0.246  Sum_probs=21.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      +.+|.|.|.+|+||||+|..+...
T Consensus         4 p~ii~i~G~sGsGKST~a~~la~~   27 (319)
T PRK12338          4 PYVILIGSASGIGKSTIASELART   27 (319)
T ss_pred             cEEEEEECCCCCCHHHHHHHHHHH
Confidence            479999999999999999999774

>cd00878 Arf_Arl Arf (ADP-ribosylation factor)/Arl (Arf-like) small GTPases

Probab=93.52  E-value=0.061  Score=44.38  Aligned_cols=22  Identities=32%  Similarity=0.267  Sum_probs=19.8

Q ss_pred             EEEEcCCCCcHHHHHHHHhccc
Q 038448          163 IPIIGTGRIGKTTLAQLAYSDV  184 (385)
Q Consensus       163 i~I~G~gGiGKTtLA~~v~~~~  184 (385)
                      |+++|.+|+|||||...+....
T Consensus         2 i~iiG~~~~GKssli~~~~~~~   23 (158)
T cd00878           2 ILILGLDGAGKTTILYKLKLGE   23 (158)
T ss_pred             EEEEcCCCCCHHHHHHHHhcCC
Confidence            6899999999999999998763

Arf proteins are activators of phospholipase D isoforms. Unlike Ras proteins they lack cysteine residues at their C-termini and therefore are unlikely to be prenylated. Arfs are N-terminally myristoylated. Members of the Arf family are regulators of vesicle formation in intracellular traffic that interact reversibly with membranes of the secretory and endocytic compartments in a GTP-dependent manner. They depart from other small GTP-binding proteins by a unique structural device, interswitch toggle, that implements front-back communication from N-terminus to the nucleotide binding site. Arf-like (Arl) proteins are close relatives of the Arf, but only Arl1 has been shown to function in membrane traffic like the Arf proteins. Arl2 has an unrelated function in the folding of native tubulin, and Arl4 may function in the nucleus. Most other Arf family proteins are so far relatively poorly characterized. Thu

>cd03247 ABCC_cytochrome_bd The CYD subfamily implicated in cytochrome bd biogenesis

Probab=93.51  E-value=0.11  Score=44.20  Aligned_cols=23  Identities=39%  Similarity=0.547  Sum_probs=21.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .+++|+|..|.|||||++.+..-
T Consensus        29 e~~~i~G~nGsGKStLl~~l~G~   51 (178)
T cd03247          29 EKIALLGRSGSGKSTLLQLLTGD   51 (178)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcc
Confidence            57999999999999999999874

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.

>PRK10867 signal recognition particle protein; Provisional

Probab=93.50  E-value=0.12  Score=50.23  Aligned_cols=25  Identities=32%  Similarity=0.278  Sum_probs=20.5

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHhc
Q 038448          158 DGLSVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       158 ~~~~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      ..+.+|.++|.+|+||||.+..+..
T Consensus        98 ~~p~vI~~vG~~GsGKTTtaakLA~  122 (433)
T PRK10867         98 KPPTVIMMVGLQGAGKTTTAGKLAK  122 (433)
T ss_pred             CCCEEEEEECCCCCcHHHHHHHHHH
Confidence            3578999999999999997766544

>PRK11300 livG leucine/isoleucine/valine transporter ATP-binding subunit; Provisional

Probab=93.50  E-value=0.099  Score=47.23  Aligned_cols=33  Identities=18%  Similarity=0.138  Sum_probs=25.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhccccccccccceEEE
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWT  196 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv  196 (385)
                      .+++|+|..|.|||||++.++.-   .......+++
T Consensus        32 e~~~l~G~nGsGKSTLl~~l~Gl---~~~~~G~i~~   64 (255)
T PRK11300         32 EIVSLIGPNGAGKTTVFNCLTGF---YKPTGGTILL   64 (255)
T ss_pred             eEEEEECCCCCCHHHHHHHHhCC---cCCCcceEEE
Confidence            68999999999999999999873   2333445554

>PRK11701 phnK phosphonate C-P lyase system protein PhnK; Provisional

Probab=93.50  E-value=0.1  Score=47.32  Aligned_cols=23  Identities=35%  Similarity=0.447  Sum_probs=21.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .+++|+|..|.|||||++.++.-
T Consensus        33 e~~~i~G~nGsGKSTLl~~l~Gl   55 (258)
T PRK11701         33 EVLGIVGESGSGKTTLLNALSAR   55 (258)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            68999999999999999999874

>PRK06835 DNA replication protein DnaC; Validated

Probab=93.50  E-value=0.057  Score=50.66  Aligned_cols=37  Identities=14%  Similarity=0.135  Sum_probs=27.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEec
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVS  199 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs  199 (385)
                      .-+.++|.+|+|||+||..+.+..  ...-..++|+++.
T Consensus       184 ~~Lll~G~~GtGKThLa~aIa~~l--~~~g~~V~y~t~~  220 (329)
T PRK06835        184 ENLLFYGNTGTGKTFLSNCIAKEL--LDRGKSVIYRTAD  220 (329)
T ss_pred             CcEEEECCCCCcHHHHHHHHHHHH--HHCCCeEEEEEHH
Confidence            568999999999999999998853  2222345666643

>cd03294 ABC_Pro_Gly_Bertaine This family comprises the glycine betaine/L-proline ATP binding subunit in bacteria and its equivalents in archaea

Probab=93.50  E-value=0.099  Score=47.73  Aligned_cols=23  Identities=26%  Similarity=0.322  Sum_probs=21.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .+++|+|..|.|||||.+.+..-
T Consensus        51 e~~~l~G~nGsGKSTLl~~L~Gl   73 (269)
T cd03294          51 EIFVIMGLSGSGKSTLLRCINRL   73 (269)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcC
Confidence            68999999999999999999874

This transport system belong to the larger ATP-Binding Cassette (ABC) transporter superfamily. The characteristic feature of these transporters is the obligatory coupling of ATP hydrolysis to substrate translocation. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03260 ABC_PstB_phosphate_transporter Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient

Probab=93.50  E-value=0.063  Score=47.57  Aligned_cols=23  Identities=30%  Similarity=0.437  Sum_probs=21.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .+++|+|..|.|||||++.+..-
T Consensus        27 e~~~i~G~nGsGKSTLl~~i~G~   49 (227)
T cd03260          27 EITALIGPSGCGKSTLLRLLNRL   49 (227)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhh
Confidence            68999999999999999999873

The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein is a phosphate-binding protein located in the periplasmic space. P stA and PstC are hydrophobic and they form the transmembrane portion of the Pst system. PstB is the catalytic subunit, which couples the energy of ATP hydrolysis to the import of phosphate across cellular membranes through the Pst system, often referred as ABC-protein. PstB belongs to one of the largest superfamilies of proteins characterized by a highly conserved adenosine triphosphate (ATP) binding cassette (ABC), which is also a nucleotide binding domain (NBD).

>cd04137 RheB Rheb (Ras Homolog Enriched in Brain) subfamily

Probab=93.49  E-value=0.067  Score=45.27  Aligned_cols=23  Identities=22%  Similarity=0.429  Sum_probs=19.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      +-|.|+|.+|+|||||+..+...
T Consensus         2 ~kv~l~G~~g~GKTtl~~~~~~~   24 (180)
T cd04137           2 RKIAVLGSRSVGKSSLTVQFVEG   24 (180)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhC
Confidence            35789999999999999988754

Rheb was initially identified in rat brain, where its expression is elevated by seizures or by long-term potentiation. It is expressed ubiquitously, with elevated levels in muscle and brain. Rheb functions as an important mediator between the tuberous sclerosis complex proteins, TSC1 and TSC2, and the mammalian target of rapamycin (TOR) kinase to stimulate cell growth. TOR kinase regulates cell growth by controlling nutrient availability, growth factors, and the energy status of the cell. TSC1 and TSC2 form a dimeric complex that has tumor suppressor activity, and TSC2 is a GTPase activating protein (GAP) for Rheb. The TSC1/TSC2 complex inhibits the activation of TOR kinase through Rheb. Rheb has also been shown to induce the formation of large cytoplasmic vacuoles in a process that is dependent on the GTPase cycle of Rheb, but independent of the TOR kinase, suggesting Rheb plays a role in endocytic trafficking that le

>TIGR03878 thermo_KaiC_2 KaiC domain protein, AF_0795 family

Probab=93.48  E-value=0.094  Score=47.59  Aligned_cols=40  Identities=20%  Similarity=0.201  Sum_probs=29.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecC
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSE  200 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~  200 (385)
                      .-+++.|.|.+|+|||+||.++.... .+ .=..+++++...
T Consensus        35 ~gs~~lI~G~pGtGKT~l~~qf~~~~-a~-~Ge~vlyis~Ee   74 (259)
T TIGR03878        35 AYSVINITGVSDTGKSLMVEQFAVTQ-AS-RGNPVLFVTVES   74 (259)
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHH-Hh-CCCcEEEEEecC
Confidence            45789999999999999999875532 22 224677888764

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

>TIGR00750 lao LAO/AO transport system ATPase

Probab=93.46  E-value=0.086  Score=48.96  Aligned_cols=27  Identities=26%  Similarity=0.260  Sum_probs=23.0

Q ss_pred             CCCceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          157 DDGLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       157 ~~~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .....+|+|+|.+|+|||||+..+...
T Consensus        31 ~~~~~~i~i~G~~G~GKttl~~~l~~~   57 (300)
T TIGR00750        31 TGNAHRVGITGTPGAGKSTLLEALGME   57 (300)
T ss_pred             cCCceEEEEECCCCCCHHHHHHHHHHH
Confidence            346789999999999999999887664

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

>cd01869 Rab1_Ypt1 Rab1/Ypt1 subfamily

Probab=93.46  E-value=0.065  Score=44.65  Aligned_cols=22  Identities=27%  Similarity=0.383  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcc
Q 038448          162 VIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      -|.|+|.+|+|||||...+.+.
T Consensus         4 ki~i~G~~~vGKSsli~~~~~~   25 (166)
T cd01869           4 KLLLIGDSGVGKSCLLLRFADD   25 (166)
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            4789999999999999998764

Rab1 is found in every eukaryote and is a key regulatory component for the transport of vesicles from the ER to the Golgi apparatus. Studies on mutations of Ypt1, the yeast homolog of Rab1, showed that this protein is necessary for the budding of vesicles of the ER as well as for their transport to, and fusion with, the Golgi apparatus. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to t

>PRK15177 Vi polysaccharide export ATP-binding protein VexC; Provisional

Probab=93.45  E-value=0.064  Score=47.11  Aligned_cols=23  Identities=35%  Similarity=0.345  Sum_probs=21.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .+++|+|..|.|||||.+.++.-
T Consensus        14 e~~~l~G~NGsGKSTLlk~i~Gl   36 (213)
T PRK15177         14 EHIGILAAPGSGKTTLTRLLCGL   36 (213)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            68999999999999999999874

>COG1121 ZnuC ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]

Probab=93.44  E-value=0.11  Score=46.58  Aligned_cols=22  Identities=27%  Similarity=0.480  Sum_probs=20.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      .+++|+|+.|.|||||.+.+..
T Consensus        31 ~~~~iiGPNGaGKSTLlK~iLG   52 (254)
T COG1121          31 EITALIGPNGAGKSTLLKAILG   52 (254)
T ss_pred             cEEEEECCCCCCHHHHHHHHhC
Confidence            6899999999999999999987

>cd04101 RabL4 RabL4 (Rab-like4) subfamily

Probab=93.43  E-value=0.067  Score=44.39  Aligned_cols=21  Identities=29%  Similarity=0.529  Sum_probs=18.5

Q ss_pred             EEEEcCCCCcHHHHHHHHhcc
Q 038448          163 IPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       163 i~I~G~gGiGKTtLA~~v~~~  183 (385)
                      |.++|.+|+|||+|+..+..+
T Consensus         3 i~vvG~~~~GKtsl~~~l~~~   23 (164)
T cd04101           3 CAVVGDPAVGKTAFVQMFHSN   23 (164)
T ss_pred             EEEECCCCCCHHHHHHHHhcC
Confidence            789999999999999988653

RabL4s are novel proteins that have high sequence similarity with Rab family members, but display features that are distinct from Rabs, and have been termed Rab-like. As in other Rab-like proteins, RabL4 lacks a prenylation site at the C-terminus. The specific function of RabL4 remains unknown.

>cd00157 Rho Rho (Ras homology) family

Probab=93.41  E-value=0.066  Score=44.73  Aligned_cols=21  Identities=33%  Similarity=0.512  Sum_probs=19.0

Q ss_pred             EEEEcCCCCcHHHHHHHHhcc
Q 038448          163 IPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       163 i~I~G~gGiGKTtLA~~v~~~  183 (385)
                      |.++|.+|+|||||...+.+.
T Consensus         3 i~i~G~~~~GKSsli~~l~~~   23 (171)
T cd00157           3 IVVVGDGAVGKTCLLISYTTG   23 (171)
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            679999999999999998865

Members of the Rho family include RhoA, Cdc42, Rac, Rnd, Wrch1, RhoBTB, and Rop. There are 22 human Rho family members identified currently. These proteins are all involved in the reorganization of the actin cytoskeleton in response to external stimuli. They also have roles in cell transformation by Ras in cytokinesis, in focal adhesion formation and in the stimulation of stress-activated kinase. These various functions are controlled through distinct effector proteins and mediated through a GTP-binding/GTPase cycle involving three classes of regulating proteins: GAPs (GTPase-activating proteins), GEFs (guanine nucleotide exchange factors), and GDIs (guanine nucleotide dissociation inhibitors). Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho protein

>COG0703 AroK Shikimate kinase [Amino acid transport and metabolism]

Probab=93.40  E-value=0.063  Score=45.00  Aligned_cols=23  Identities=26%  Similarity=0.267  Sum_probs=20.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      +-|.++||.|+||||+.+.+.+.
T Consensus         3 ~~IvLiG~mGaGKSTIGr~LAk~   25 (172)
T COG0703           3 MNIVLIGFMGAGKSTIGRALAKA   25 (172)
T ss_pred             ccEEEEcCCCCCHhHHHHHHHHH
Confidence            35789999999999999999864

>cd01860 Rab5_related Rab5-related subfamily

Probab=93.40  E-value=0.068  Score=44.28  Aligned_cols=23  Identities=17%  Similarity=0.362  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHhccc
Q 038448          162 VIPIIGTGRIGKTTLAQLAYSDV  184 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v~~~~  184 (385)
                      -|.|+|.+|+|||||+..+.++.
T Consensus         3 ki~v~G~~~~GKSsli~~l~~~~   25 (163)
T cd01860           3 KLVLLGDSSVGKSSLVLRFVKNE   25 (163)
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC
Confidence            37899999999999999988763

This subfamily includes Rab5 and Rab22 of mammals, Ypt51/Ypt52/Ypt53 of yeast, and RabF of plants. The members of this subfamily are involved in endocytosis and endocytic-sorting pathways. In mammals, Rab5 GTPases localize to early endosomes and regulate fusion of clathrin-coated vesicles to early endosomes and fusion between early endosomes. In yeast, Ypt51p family members similarly regulate membrane trafficking through prevacuolar compartments. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence mo

>PRK11831 putative ABC transporter ATP-binding protein YrbF; Provisional

Probab=93.39  E-value=0.1  Score=47.60  Aligned_cols=23  Identities=39%  Similarity=0.567  Sum_probs=21.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .+++|+|..|.|||||++.+..-
T Consensus        34 e~~~i~G~nGsGKSTLl~~l~Gl   56 (269)
T PRK11831         34 KITAIMGPSGIGKTTLLRLIGGQ   56 (269)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            58999999999999999999864

>PF06745 KaiC: KaiC; InterPro: IPR014774 This entry represents a domain within bacterial and archaeal proteins, most of which are hypothetical

Probab=93.38  E-value=0.12  Score=45.69  Aligned_cols=42  Identities=29%  Similarity=0.193  Sum_probs=28.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecCC
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSED  201 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~  201 (385)
                      .-.++.|.|.+|+|||+|+.++.... .+..=..++||+...+
T Consensus        18 ~gs~~li~G~~GsGKT~l~~q~l~~~-~~~~ge~vlyvs~ee~   59 (226)
T PF06745_consen   18 KGSVVLISGPPGSGKTTLALQFLYNG-LKNFGEKVLYVSFEEP   59 (226)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHH-HHHHT--EEEEESSS-
T ss_pred             CCcEEEEEeCCCCCcHHHHHHHHHHh-hhhcCCcEEEEEecCC
Confidence            45799999999999999998765431 2221235678887664

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 ....

>cd04162 Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily

Probab=93.37  E-value=0.068  Score=44.71  Aligned_cols=21  Identities=33%  Similarity=0.457  Sum_probs=18.9

Q ss_pred             EEEEcCCCCcHHHHHHHHhcc
Q 038448          163 IPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       163 i~I~G~gGiGKTtLA~~v~~~  183 (385)
                      |.|+|.+|+|||||...+.+.
T Consensus         2 i~ivG~~~vGKTsli~~~~~~   22 (164)
T cd04162           2 ILVLGLDGAGKTSLLHSLSSE   22 (164)
T ss_pred             EEEECCCCCCHHHHHHHHhcC
Confidence            679999999999999998765

Arl9 (Arf-like 9) was first identified as part of the Human Cancer Genome Project. It maps to chromosome 4q12 and is sometimes referred to as Arfrp2 (Arf-related protein 2). This is a novel subfamily identified in human cancers that is uncharacterized to date.

>cd03251 ABCC_MsbA MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins

Probab=93.36  E-value=0.11  Score=46.26  Aligned_cols=33  Identities=18%  Similarity=0.184  Sum_probs=25.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhccccccccccceEEE
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWT  196 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv  196 (385)
                      .+++|+|..|.|||||++.+..-   .......+++
T Consensus        29 e~~~i~G~nGsGKSTLl~~l~Gl---~~p~~G~i~~   61 (234)
T cd03251          29 ETVALVGPSGSGKSTLVNLIPRF---YDVDSGRILI   61 (234)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcc---ccCCCCEEEE
Confidence            58999999999999999999874   2233455554

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.

>cd04123 Rab21 Rab21 subfamily

Probab=93.36  E-value=0.069  Score=44.01  Aligned_cols=21  Identities=33%  Similarity=0.651  Sum_probs=19.0

Q ss_pred             EEEEcCCCCcHHHHHHHHhcc
Q 038448          163 IPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       163 i~I~G~gGiGKTtLA~~v~~~  183 (385)
                      |.|+|.+|+|||||...+.+.
T Consensus         3 i~i~G~~~~GKStli~~l~~~   23 (162)
T cd04123           3 VVLLGEGRVGKTSLVLRYVEN   23 (162)
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            789999999999999888765

The localization and function of Rab21 are not clearly defined, with conflicting data reported. Rab21 has been reported to localize in the ER in human intestinal epithelial cells, with partial colocalization with alpha-glucosidase, a late endosomal/lysosomal marker. More recently, Rab21 was shown to colocalize with and affect the morphology of early endosomes. In Dictyostelium, GTP-bound Rab21, together with two novel LIM domain proteins, LimF and ChLim, has been shown to regulate phagocytosis. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site

>PF06564 YhjQ: YhjQ protein; InterPro: IPR017746 The YhjQ protein is encoded immediately upstream of bacterial cellulose synthase (bcs) genes in a broad range of bacteria, including both copies of the bcs locus in Klebsiella pneumoniae, and in several species is clearly part of the bcs operon

Probab=93.36  E-value=0.069  Score=47.60  Aligned_cols=22  Identities=41%  Similarity=0.510  Sum_probs=18.9

Q ss_pred             eEEEEEcC-CCCcHHHHHHHHhc
Q 038448          161 SVIPIIGT-GRIGKTTLAQLAYS  182 (385)
Q Consensus       161 ~vi~I~G~-gGiGKTtLA~~v~~  182 (385)
                      ++|+|+|. ||+||||++-.+..
T Consensus         2 ~~iai~s~kGGvG~TTltAnLA~   24 (243)
T PF06564_consen    2 KVIAIVSPKGGVGKTTLTANLAW   24 (243)
T ss_pred             cEEEEecCCCCCCHHHHHHHHHH
Confidence            58999998 89999999977654

It is identified as a probable component of the bacterial cellulose metabolic process not only by gene location, but also by partial phylogenetic profiling, or Haft-Selengut algorithm [], based on a bacterial cellulose biosynthesis genome property profile. Cellulose plays an important role in biofilm formation and structural integrity in some bacteria. Mutants in yhjQ in Escherichia coli, show altered morphology an growth, but the function of YhjQ has not yet been determined.

>cd03233 ABC_PDR_domain1 The pleiotropic drug resistance (PDR) family of ATP-binding cassette (ABC) transporters

Probab=93.34  E-value=0.1  Score=45.34  Aligned_cols=23  Identities=17%  Similarity=0.271  Sum_probs=21.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .+++|+|..|.|||||++.+..-
T Consensus        34 e~~~i~G~nGsGKSTLl~~l~G~   56 (202)
T cd03233          34 EMVLVLGRPGSGCSTLLKALANR   56 (202)
T ss_pred             cEEEEECCCCCCHHHHHHHhccc
Confidence            68999999999999999999874

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.

>cd04140 ARHI_like ARHI subfamily

Probab=93.34  E-value=0.069  Score=44.55  Aligned_cols=22  Identities=23%  Similarity=0.443  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcc
Q 038448          162 VIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .|.++|.+|+|||||.+.+...
T Consensus         3 kv~~vG~~~vGKTsli~~~~~~   24 (165)
T cd04140           3 RVVVFGAGGVGKSSLVLRFVKG   24 (165)
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            3789999999999999888754

ARHI (A Ras homolog member I) is a member of the Ras family with several unique structural and functional properties. ARHI is expressed in normal human ovarian and breast tissue, but its expression is decreased or eliminated in breast and ovarian cancer. ARHI contains an N-terminal extension of 34 residues (human) that is required to retain its tumor suppressive activity. Unlike most other Ras family members, ARHI is maintained in the constitutively active (GTP-bound) state in resting cells and has modest GTPase activity. ARHI inhibits STAT3 (signal transducers and activators of transcription 3), a latent transcription factor whose abnormal activation plays a critical role in oncogenesis. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Due to

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

Probab=93.32  E-value=0.066  Score=50.46  Aligned_cols=26  Identities=19%  Similarity=0.262  Sum_probs=24.0

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          158 DGLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       158 ~~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ..+..++|||++|.|||.+|+.+++.
T Consensus       146 k~PlgllL~GPPGcGKTllAraiA~e  171 (413)
T PLN00020        146 KVPLILGIWGGKGQGKSFQCELVFKK  171 (413)
T ss_pred             CCCeEEEeeCCCCCCHHHHHHHHHHH
Confidence            46789999999999999999999986

>cd03223 ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cassette transporter (Pat) is involved in the import of very long-chain fatty acids (VLCFA) into the peroxisome

Probab=93.32  E-value=0.12  Score=43.39  Aligned_cols=23  Identities=22%  Similarity=0.229  Sum_probs=21.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .+++|+|..|.|||||++.+..-
T Consensus        28 e~~~i~G~nGsGKSTLl~~l~G~   50 (166)
T cd03223          28 DRLLITGPSGTGKSSLFRALAGL   50 (166)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcC
Confidence            58999999999999999999874

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

>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=93.32  E-value=0.11  Score=45.32  Aligned_cols=23  Identities=30%  Similarity=0.416  Sum_probs=21.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .+++|+|..|.|||||.+.+..-
T Consensus        25 e~~~l~G~nGsGKSTLl~~l~gl   47 (211)
T cd03298          25 EITAIVGPSGSGKSTLLNLIAGF   47 (211)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            68999999999999999999874

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.

>cd01876 YihA_EngB The YihA (EngB) subfamily

Probab=93.31  E-value=0.065  Score=44.33  Aligned_cols=20  Identities=25%  Similarity=0.468  Sum_probs=18.5

Q ss_pred             EEEEcCCCCcHHHHHHHHhc
Q 038448          163 IPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       163 i~I~G~gGiGKTtLA~~v~~  182 (385)
                      |+++|.+|+|||||...+.+
T Consensus         2 i~l~G~~g~GKTtL~~~l~~   21 (170)
T cd01876           2 IAFAGRSNVGKSSLINALTN   21 (170)
T ss_pred             EEEEcCCCCCHHHHHHHHhc
Confidence            68999999999999999984

This subfamily of GTPases is typified by the E. coli YihA, an essential protein involved in cell division control. YihA and its orthologs are small proteins that typically contain less than 200 amino acid residues and consists of the GTPase domain only (some of the eukaryotic homologs contain an N-terminal extension of about 120 residues that might be involved in organellar targeting). Homologs of yihA are found in most Gram-positive and Gram-negative pathogenic bacteria, with the exception of Mycobacterium tuberculosis. The broad-spectrum nature of YihA and its essentiality for cell viability in bacteria make it an attractive antibacterial target.

>PRK14730 coaE dephospho-CoA kinase; Provisional

Probab=93.31  E-value=0.07  Score=46.17  Aligned_cols=22  Identities=23%  Similarity=0.223  Sum_probs=19.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      .+|+|+|+.|+||||+++.+..
T Consensus         2 ~~i~itG~~gsGKst~~~~l~~   23 (195)
T PRK14730          2 RRIGLTGGIASGKSTVGNYLAQ   23 (195)
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            4799999999999999998865

>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=93.31  E-value=0.059  Score=48.62  Aligned_cols=22  Identities=27%  Similarity=0.324  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcc
Q 038448          162 VIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      +|+|.|.+|+||||++..+...
T Consensus         1 IIgItG~SGSGKTTv~~~l~~~   22 (277)
T cd02029           1 VIAVTGSSGAGTTTVKRAFEHI   22 (277)
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            5899999999999999988753

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.

>cd03237 ABC_RNaseL_inhibitor_domain2 The ATPase domain 2 of RNase L inhibitor

Probab=93.31  E-value=0.07  Score=48.05  Aligned_cols=23  Identities=39%  Similarity=0.541  Sum_probs=21.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .+++|+|..|+|||||++.+...
T Consensus        26 e~~~i~G~NGsGKSTLlk~L~G~   48 (246)
T cd03237          26 EVIGILGPNGIGKTTFIKMLAGV   48 (246)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            68999999999999999999874

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.

>PRK13543 cytochrome c biogenesis protein CcmA; Provisional

Probab=93.31  E-value=0.11  Score=45.50  Aligned_cols=23  Identities=26%  Similarity=0.307  Sum_probs=21.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .+++|+|..|.|||||.+.+...
T Consensus        38 e~~~i~G~nGsGKSTLl~~i~G~   60 (214)
T PRK13543         38 EALLVQGDNGAGKTTLLRVLAGL   60 (214)
T ss_pred             CEEEEEcCCCCCHHHHHHHHhCC
Confidence            57999999999999999999874

---

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	385
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	8e-54
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	9e-06
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	7e-44
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	6e-25
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	9e-06

>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation, ADP, nucleotide binding, CARD, apoptosis; HET: ADP; 2.21A {Homo sapiens} Length = 591

 Score =  186 bits (474), Expect = 8e-54
 Identities = 47/368 (12%), Positives = 107/368 (29%), Gaps = 67/368 (18%)

Query: 55  VKMWLGDLQNLAYDVDDLLDELETEAFRRNLMFQEPAAAQTTTTKFRRLIPSCCTNFSPQ 114
           ++      +++      ++D + ++ F      ++     T   +   LI       +  
Sbjct: 10  LQHREALEKDI--KTSYIMDHMISDGFLTISEEEKVRNEPTQQQRAAMLIKMILKKDNDS 67

Query: 115 AIKF-DHMMAAKIEDRTIRLQEIEKDKEK------------------------------- 142
            + F + ++    +D    L +                                      
Sbjct: 68  YVSFYNALLHEGYKDLAALLHDGIPVVSSSSGKDSVSGITSYVRTVLCEGGVPQRPVVFV 127

Query: 143 --EETVKLLLRDDLRTDDGLSVIPIIGTGRIGKTTLAQLAYSDVRV--HNHFDLKAWTCV 198
             ++ V  + +   +       + I G    GK+ LA  A  D  +          W  V
Sbjct: 128 TRKKLVNAIQQKLSKLKGEPGWVTIHGMAGCGKSVLAAEAVRDHSLLEGCFPGGVHWVSV 187

Query: 199 SEDFDI--IRVTKSILKSI---ASDQLVDDHDLNLLQKY-----NDWTNR---------- 238
            +      +   +++   +    S       ++   +            R          
Sbjct: 188 GKQDKSGLLMKLQNLCTRLDQDESFSQRLPLNIEEAKDRLRILMLRKHPRSLLILDDVWD 247

Query: 239 SRLFEAGAPGSKIVFTTRNLGVAEKMG--PLPAYPLKELSNDDCLSVFSPHSLGEKDFST 296
           S + +A     +I+ TTR+  V + +            L  +  L + S           
Sbjct: 248 SWVLKAFDSQCQILLTTRDKSVTDSVMGPKYVVPVESSLGKEKGLEILSLFV-----NMK 302

Query: 297 HPSLKEIGEKIVKKCNGLPLVAKSLGGLLRGFLNHESDKKQMENLGRKYFQELYSRLFFQ 356
              L E    I+K+C G PLV   +G LLR        +  ++ L  K F+ +     + 
Sbjct: 303 KADLPEQAHSIIKECKGSPLVVSLIGALLRD--FPNRWEYYLKQLQNKQFKRIRKSSSYD 360

Query: 357 LSSSNKSL 364
             + ++++
Sbjct: 361 YEALDEAM 368

>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 = 46.7 bits (111), Expect = 9e-06
 Identities = 9/38 (23%), Positives = 14/38 (36%), Gaps = 1/38 (2%)

Query: 339 ENLGRKYFQELYSRLFFQLSSSNKSL-FVMHDLNNDLL 375
                   QE  ++       + KS  + +HDL  D L
Sbjct: 408 TEEVEDILQEFVNKSLLFCDRNGKSFRYYLHDLQVDFL 445

>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 =  159 bits (402), Expect = 7e-44
 Identities = 44/402 (10%), Positives = 100/402 (24%), Gaps = 85/402 (21%)

Query: 39  NEVLDDAEEKQNTEQSVKMWLGDLQNLAYDVDDLLDELETEAFRRNLMFQEPAAAQTTTT 98
              L  A  +   +   +  L  L+      +D  + +   + R                
Sbjct: 7   CRALSTAHTRLIHDFEPRDALTYLEGKNIFTEDHSELISKMSTRLE-----------RIA 55

Query: 99  KFRRLIPSCCTNFSPQAIKFDHMMAAKIEDRTIRLQEIEK-------------------- 138
            F R+     +   P    F++   + + D      +                       
Sbjct: 56  NFLRIYRRQASELGPLIDFFNYNNQSHLADFLEDYIDFAINEPDLLRPVVIAPQFSRQML 115

Query: 139 ------------------DKEKEETVKLLLRDDLRTDDGLSVIPIIGTGRIGKTTLAQLA 180
                             +   +  +K L       D     + + G    GK+ +A  A
Sbjct: 116 DRKLLLGNVPKQMTCYIREYHVDRVIKKLDEM---CDLDSFFLFLHGRAGSGKSVIASQA 172

Query: 181 Y--SDVRVHNHFDLKAWTCVSED-----FDIIRVTKSILKSIAS-------DQLVDDHDL 226
              SD  +  ++D   W   S       FD+      +LKS          + +      
Sbjct: 173 LSKSDQLIGINYDSIVWLKDSGTAPKSTFDLFTDILLMLKSEDDLLNFPSVEHVTSVVLK 232

Query: 227 NLLQKYND------------WTNRSRLFEAGAPGSKIVFTTRNLGVAEKM-GPLPAYPLK 273
            ++                       +  A     + + TTR++ ++           + 
Sbjct: 233 RMICNALIDRPNTLFVFDDVV-QEETIRWAQELRLRCLVTTRDVEISNAASQTCEFIEVT 291

Query: 274 ELSNDDCLSVFSPHSLGEKDFSTHPSLKEIGEKIVKKCNGLPLVAKSLGGLLRGFLNHES 333
            L  D+C      + +           +++  K ++  +G P                E 
Sbjct: 292 SLEIDECYDFLEAYGMPMPV---GEKEEDVLNKTIELSSGNPATLMMFFKSCEPK-TFEK 347

Query: 334 DKKQMENLGRKYFQELYSRLFFQLSSSNKSLFVM-HDLNNDL 374
             +    L  +    +     +   S   +L      L+++ 
Sbjct: 348 MAQLNNKLESRGLVGVECITPYSYKSLAMALQRCVEVLSDED 389

>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 =  106 bits (264), Expect = 6e-25
 Identities = 61/383 (15%), Positives = 115/383 (30%), Gaps = 102/383 (26%)

Query: 28  SDEWKKILVKINEV------LDDAEEKQNTEQSVKMWLGDLQNLAYDVDDLLDELETEAF 81
            +E   I++  + V            KQ  E+ V+ ++ ++  + Y    L+  ++TE  
Sbjct: 48  KEEIDHIIMSKDAVSGTLRLFWTLLSKQ--EEMVQKFVEEVLRINYKF--LMSPIKTEQ- 102

Query: 82  RRNLMFQEPAAAQTTTTKFRRLIPSCCTNFSPQAIKFDHMMAAKIEDRTIRLQEIEKDKE 141
                 ++P+       + R  + +    F+   +               RLQ   K ++
Sbjct: 103 ------RQPSMMTRMYIEQRDRLYNDNQVFAKYNVS--------------RLQPYLKLRQ 142

Query: 142 KEETVKLLLRDDLRTDDGLSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKA-W----T 196
                  LL   LR    + +    G    GKT +A       +V    D K  W     
Sbjct: 143 A------LLE--LRPAKNVLID---GVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKN 191

Query: 197 CVSEDFDIIRVTKSILKSIASDQLV-DDHDLNLLQKYNDWTNR-SRLF------------ 242
           C S +  ++ + + +L  I  +     DH  N+  + +       RL             
Sbjct: 192 CNSPE-TVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVL 250

Query: 243 ---------EAGAPGSKIVFTTRNLGVAEKMGPLPAYPL------KELSNDDCLSVFSPH 287
                     A     KI+ TTR   V + +       +        L+ D+  S+    
Sbjct: 251 LNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLL-K 309

Query: 288 SLGEKDFSTHPSLKEIGEKIVKKCNGLPLVAKSLGGLLRGFLNH-------ESDKKQM-- 338
            L  +       L        +     P     +   +R  L           DK     
Sbjct: 310 YLDCRPQ----DLPR------EVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTII 359

Query: 339 ----ENLGRKYFQELYSRLF-FQ 356
                 L    +++++ RL  F 
Sbjct: 360 ESSLNVLEPAEYRKMFDRLSVFP 382

>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 = 46.8 bits (110), Expect = 9e-06
 Identities = 36/259 (13%), Positives = 73/259 (28%), Gaps = 77/259 (29%)

Query: 22  KAEPGRSDEWKKILV-KIN-------EVLDDAEEKQNTEQ------SVK--------MWL 59
           +      D WK +   K+         VL+ AE ++  ++      S          +W 
Sbjct: 338 RDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWF 397

Query: 60  GDLQNLAYDVDDLLDELETE--AFRRN---------LMFQEPAAAQTTTTKFRRLIPS-- 106
             ++    DV  ++++L       ++          +  +     +      R ++    
Sbjct: 398 DVIK---SDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYN 454

Query: 107 -----CCTNFSPQAIKFD---------HMMAAKIEDRTIRLQEIEKDKEKEETVKLLLRD 152
                   +  P  +  D         H+   +  +R    + +  D          L  
Sbjct: 455 IPKTFDSDDLIPPYL--DQYFYSHIGHHLKNIEHPERMTLFRMVFLDFR-------FLEQ 505

Query: 153 DLRTDDGLSVIPIIGTGRIGKTTLAQLA-YSDVRVHNHFDLKAWTCVSEDFDIIRVTKSI 211
            +R D          +G I   TL QL  Y      N    +       DF         
Sbjct: 506 KIRHDS----TAWNASGSI-LNTLQQLKFYKPYICDNDPKYERLVNAILDF--------- 551

Query: 212 LKSIASDQLVDDHDLNLLQ 230
           L  I  + +   +  +LL+
Sbjct: 552 LPKIEENLICSKY-TDLLR 569

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	385
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	100.0
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	99.94
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	99.93
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	99.9
3qfl_A	115	MLA10; coiled-coil, (CC) domain, NLRS, nucleotide-	99.58
2qen_A	350	Walker-type ATPase; unknown function; HET: ADP; 2.	98.81
2fna_A	357	Conserved hypothetical protein; structural genomic	98.75
1w5s_A	412	Origin recognition complex subunit 2 ORC2; replica	98.73
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	98.73
2chg_A	226	Replication factor C small subunit; DNA-binding pr	98.64
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	98.5
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	98.45
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	98.44
1hqc_A	324	RUVB; extended AAA-ATPase domain, complex with nuc	98.44
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	98.43
1sxj_B	323	Activator 1 37 kDa subunit; clamp loader, processi	98.37
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	98.02
3bos_A	242	Putative DNA replication factor; P-loop containing	97.97
2chq_A	319	Replication factor C small subunit; DNA-binding pr	97.72
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	97.69
1jr3_A	373	DNA polymerase III subunit gamma; processivity, pr	97.68
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	97.5
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	97.48
1a5t_A	334	Delta prime, HOLB; zinc finger, DNA replication; 2	97.48
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	97.43
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	97.34
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	97.19
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	97.15
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	97.14
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	97.07
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	97.05
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	96.99
3pvs_A	447	Replication-associated recombination protein A; ma	96.95
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	96.92
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	96.88
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	96.8
2gno_A	305	DNA polymerase III, gamma subunit-related protein;	96.79
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	96.78
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	96.76
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	96.66
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	96.65
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	96.62
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	96.61
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	96.54
4b4t_J	405	26S protease regulatory subunit 8 homolog; hydrola	96.52
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	96.48
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	96.43
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	96.36
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	96.32
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	96.28
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	96.27
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	96.19
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	96.17
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	96.13
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	96.12
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	96.11
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	96.11
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	96.09
3co5_A	143	Putative two-component system transcriptional RES	96.09
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	96.07
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	96.03
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	95.98
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	95.98
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	95.95
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	95.94
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	95.92
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	95.84
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	95.84
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	95.81
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	95.81
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	95.78
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	95.78
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	95.74
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	95.74
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	95.7
4b4t_H	467	26S protease regulatory subunit 7 homolog; hydrola	95.69
2cvh_A	220	DNA repair and recombination protein RADB; filamen	95.68
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	95.68
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	95.67
1uf9_A	203	TT1252 protein; P-loop, nucleotide binding domain,	95.64
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	95.64
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	95.63
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	95.63
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	95.62
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	95.61
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	95.61
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	95.61
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	95.58
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	95.57
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	95.56
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	95.56
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	95.55
3tqc_A	321	Pantothenate kinase; biosynthesis of cofactors, pr	95.55
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	95.53
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	95.52
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	95.52
1via_A	175	Shikimate kinase; structural genomics, transferase	95.51
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	95.51
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	95.51
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	95.5
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	95.5
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	95.48
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	95.43
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	95.43
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	95.43
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	95.43
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	95.42
1jjv_A	206	Dephospho-COA kinase; P-loop nucleotide-binding fo	95.42
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	95.41
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	95.38
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	95.37
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	95.37
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	95.34
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	95.34
3umf_A	217	Adenylate kinase; rossmann fold, transferase; 2.05	95.32
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	95.31
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	95.3
1uj2_A	252	Uridine-cytidine kinase 2; alpha/beta mononucleoti	95.24
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	95.22
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	95.22
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	95.2
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	95.2
2vli_A	183	Antibiotic resistance protein; transferase, tunica	95.19
2vhj_A	331	Ntpase P4, P4; non- hydrolysable ATP analogue, hyd	95.19
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	95.18
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	95.16
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	95.15
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	95.15
3fwy_A	314	Light-independent protochlorophyllide reductase I	95.13
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	95.12
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	95.12
2hf9_A	226	Probable hydrogenase nickel incorporation protein	95.11
2onk_A	240	Molybdate/tungstate ABC transporter, ATP-binding p	95.09
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	95.08
4b4t_I	437	26S protease regulatory subunit 4 homolog; hydrola	95.08
3tif_A	235	Uncharacterized ABC transporter ATP-binding prote;	95.06
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	95.04
2f6r_A	281	COA synthase, bifunctional coenzyme A synthase; 18	95.02
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	95.02
3pxg_A	468	Negative regulator of genetic competence CLPC/MEC;	95.02
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	95.01
2pcj_A	224	ABC transporter, lipoprotein-releasing system ATP-	94.98
1gtv_A	214	TMK, thymidylate kinase; transferase, transferase	94.96
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	94.96
2z0h_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	94.95
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	94.94
2grj_A	192	Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosp	94.93
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	94.92
1v5w_A	343	DMC1, meiotic recombination protein DMC1/LIM15 hom	94.9
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	94.9
2z43_A	324	DNA repair and recombination protein RADA; archaea	94.89
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	94.89
3gfo_A	275	Cobalt import ATP-binding protein CBIO 1; structur	94.88
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	94.87
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	94.86
1b0u_A	262	Histidine permease; ABC transporter, transport pro	94.85
4a74_A	231	DNA repair and recombination protein RADA; hydrola	94.84
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	94.84
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	94.82
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	94.82
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	94.82
1sq5_A	308	Pantothenate kinase; P-loop, transferase; HET: PAU	94.81
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	94.8
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	94.8
4g1u_C	266	Hemin import ATP-binding protein HMUV; membrane tr	94.79
1tue_A	212	Replication protein E1; helicase, replication, E1E	94.79
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	94.78
2i3b_A	189	HCR-ntpase, human cancer-related ntpase; AAA, ross	94.74
1vht_A	218	Dephospho-COA kinase; structural genomics, transfe	94.74
3bh0_A	315	DNAB-like replicative helicase; ATPase, replicatio	94.73
2i1q_A	322	DNA repair and recombination protein RADA; ATPase,	94.73
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	94.73
2f1r_A	171	Molybdopterin-guanine dinucleotide biosynthesis pr	94.72
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	94.72
3hws_A	363	ATP-dependent CLP protease ATP-binding subunit CL;	94.71
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	94.7
1m7g_A	211	Adenylylsulfate kinase; APS kinase, transferase, s	94.69
1mv5_A	243	LMRA, multidrug resistance ABC transporter ATP-bin	94.68
2ged_A	193	SR-beta, signal recognition particle receptor beta	94.66
2cbz_A	237	Multidrug resistance-associated protein 1; ABC pro	94.65
1ji0_A	240	ABC transporter; ATP binding protein, structural g	94.65
3lnc_A	231	Guanylate kinase, GMP kinase; ALS collaborative cr	94.64
2olj_A	263	Amino acid ABC transporter; ABC domain, ATPase, hy	94.63
2ff7_A	247	Alpha-hemolysin translocation ATP-binding protein	94.63
1sgw_A	214	Putative ABC transporter; structural genomics, P p	94.62
3nbx_X	500	ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structu	94.6
1zu4_A	320	FTSY; GTPase, signal recognition particle, SRP, re	94.6
1g6h_A	257	High-affinity branched-chain amino acid transport	94.58
2v3c_C	432	SRP54, signal recognition 54 kDa protein; nucleoti	94.57
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	94.56
2ixe_A	271	Antigen peptide transporter 1; ABC ATPase, hydrola	94.56
3hr8_A	356	Protein RECA; alpha and beta proteins (A/B, A+B),	94.54
1vpl_A	256	ABC transporter, ATP-binding protein; TM0544, stru	94.53
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	94.53
1np6_A	174	Molybdopterin-guanine dinucleotide biosynthesis pr	94.51
2pze_A	229	Cystic fibrosis transmembrane conductance regulat;	94.51
2ga8_A	359	Hypothetical 39.9 kDa protein; YFR007W, YFH7, unkn	94.5
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	94.49
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	94.47
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	94.44
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	94.44
3ake_A	208	Cytidylate kinase; CMP kinase, CMP complex, open c	94.42
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	94.42
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	94.41
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	94.4
2yz2_A	266	Putative ABC transporter ATP-binding protein TM_0;	94.4
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	94.38
2qtf_A	364	Protein HFLX, GTP-binding protein; beta-alpha-barr	94.37
2xxa_A	433	Signal recognition particle protein; protein trans	94.37
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	94.37
2zr9_A	349	Protein RECA, recombinase A; recombination, RECA m	94.34
3lda_A	400	DNA repair protein RAD51; DNA binding protein, ATP	94.31
3d3q_A	340	TRNA delta(2)-isopentenylpyrophosphate transferase	94.31
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	94.29
2xb4_A	223	Adenylate kinase; ATP-binding, nucleotide-binding,	94.28
2qgz_A	308	Helicase loader, putative primosome component; str	94.27
3b85_A	208	Phosphate starvation-inducible protein; PHOH2, ATP	94.26
1e4v_A	214	Adenylate kinase; transferase(phosphotransferase);	94.25
2ihy_A	279	ABC transporter, ATP-binding protein; ATPase, ABC	94.22
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	94.22
3sr0_A	206	Adenylate kinase; phosphoryl transfer analogue, AL	94.21
3zvl_A	416	Bifunctional polynucleotide phosphatase/kinase; hy	94.19
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	94.19
1u94_A	356	RECA protein, recombinase A; homologous recombinat	94.18
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	94.15
2e87_A	357	Hypothetical protein PH1320; GTP-binding, GTPase,	94.14
3r20_A	233	Cytidylate kinase; structural genomics, seattle st	94.13
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	94.12
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	94.1
1ltq_A	301	Polynucleotide kinase; phosphatase, alpha/beta, P-	94.1
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	94.09
3a8t_A	339	Adenylate isopentenyltransferase; rossmann fold pr	94.08
2wji_A	165	Ferrous iron transport protein B homolog; membrane	94.05
2d2e_A	250	SUFC protein; ABC-ATPase, SUF protein, 310-helix,	94.05
2og2_A	359	Putative signal recognition particle receptor; nuc	94.04
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	94.03
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	94.0
3crm_A	323	TRNA delta(2)-isopentenylpyrophosphate transferase	93.97
2bjv_A	265	PSP operon transcriptional activator; AAA, transcr	93.96
1a7j_A	290	Phosphoribulokinase; transferase, calvin cycle; 2.	93.94
2qi9_C	249	Vitamin B12 import ATP-binding protein BTUD; inner	93.94
4edh_A	213	DTMP kinase, thymidylate kinase; structural genomi	93.91
2r44_A	331	Uncharacterized protein; putative ATPase, structur	93.9
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	93.9
2zu0_C	267	Probable ATP-dependent transporter SUFC; iron-sulf	93.88
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	93.87
2ghi_A	260	Transport protein; multidrug resistance protein, M	93.84
3exa_A	322	TRNA delta(2)-isopentenylpyrophosphate transferase	93.84
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	93.83
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	93.81
3foz_A	316	TRNA delta(2)-isopentenylpyrophosphate transferas;	93.8
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	93.74
2eyu_A	261	Twitching motility protein PILT; pilus retraction	93.72
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	93.71
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	93.67
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	93.66
2nq2_C	253	Hypothetical ABC transporter ATP-binding protein H	93.66
3nh6_A	306	ATP-binding cassette SUB-family B member 6, mitoc;	93.64
2c9o_A	456	RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-	93.64
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	93.6
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	93.6
1q3t_A	236	Cytidylate kinase; nucleotide monophosphate kinase	93.59
3fvq_A	359	Fe(3+) IONS import ATP-binding protein FBPC; nucle	93.58
2pjz_A	263	Hypothetical protein ST1066; ATP binding protein,	93.55
2vp4_A	230	Deoxynucleoside kinase; ATP-binding, DNA synthesis	93.52
3geh_A	462	MNME, tRNA modification GTPase MNME; G protein, U3	93.48
4eaq_A	229	DTMP kinase, thymidylate kinase; structural genomi	93.48
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	93.46
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	93.41
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	93.4
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	93.4
3end_A	307	Light-independent protochlorophyllide reductase ir	93.39
3sop_A	270	Neuronal-specific septin-3; hydrolase; HET: GDP; 2	93.39
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	93.37
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	93.36
4hlc_A	205	DTMP kinase, thymidylate kinase; TMK, MRSA, pipiri	93.34
1nrj_B	218	SR-beta, signal recognition particle receptor beta	93.33
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	93.32
1xp8_A	366	RECA protein, recombinase A; recombination, radior	93.31
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	93.3
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	93.3
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	93.28
3tui_C	366	Methionine import ATP-binding protein METN; ABC-tr	93.28
4tmk_A	213	Protein (thymidylate kinase); ATP:DTMP phosphotran	93.25
2ocp_A	241	DGK, deoxyguanosine kinase; protein-nucleotide com	93.25
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	93.24
2bbs_A	290	Cystic fibrosis transmembrane conductance regulato	93.23
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	93.23
2qmh_A	205	HPR kinase/phosphorylase; V267F mutation, ATP-bind	93.22
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	93.19
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	93.17
1ls1_A	295	Signal recognition particle protein; FFH, SRP54, S	93.15
1z47_A	355	CYSA, putative ABC-transporter ATP-binding protein	93.13
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	93.12
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	93.11
1nij_A	318	Hypothetical protein YJIA; structural genomics, P-	93.11
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	93.1
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	93.08
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	93.07
2yyz_A	359	Sugar ABC transporter, ATP-binding protein; sugar	93.06
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	93.04
1um8_A	376	ATP-dependent CLP protease ATP-binding subunit CL;	93.03
2it1_A	362	362AA long hypothetical maltose/maltodextrin trans	93.02
3io5_A	333	Recombination and repair protein; storage dimer, i	93.01
1g29_1	372	MALK, maltose transport protein MALK; ATPase, acti	93.0
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	93.0
1v43_A	372	Sugar-binding transport ATP-binding protein; ATPas	92.98
3rlf_A	381	Maltose/maltodextrin import ATP-binding protein M;	92.98
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	92.96
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	92.95
3d31_A	348	Sulfate/molybdate ABC transporter, ATP-binding pro	92.95
2cxx_A	190	Probable GTP-binding protein ENGB; structural geno	92.93
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	92.93
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	92.88
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	92.85
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	92.85
4a1f_A	338	DNAB helicase, replicative DNA helicase; hydrolase	92.83
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	92.82
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	92.82
3kta_A	182	Chromosome segregation protein SMC; structural mai	92.8
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	92.78
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	92.77
4bas_A	199	ADP-ribosylation factor, putative (small GTPase, p	92.74
2zts_A	251	Putative uncharacterized protein PH0186; KAIC like	92.71
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	92.69
1p5z_B	263	DCK, deoxycytidine kinase; nucleoside kinase, P-lo	92.69
3iev_A	308	GTP-binding protein ERA; ERA, GTPase, KH domain, a	92.69
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	92.68
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	92.65
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	92.64
2aka_B	299	Dynamin-1; fusion protein, GTPase domain, myosin,	92.64
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	92.64
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	92.63
2qu8_A	228	Putative nucleolar GTP-binding protein 1; GTPase,	92.59
1ojl_A	304	Transcriptional regulatory protein ZRAR; response	92.59
3lv8_A	236	DTMP kinase, thymidylate kinase; structural genomi	92.58
3eph_A	409	TRNA isopentenyltransferase; transferase, alternat	92.57
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	92.56
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	92.56
1cp2_A	269	CP2, nitrogenase iron protein; oxidoreductase; 1.9	92.54
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	92.52
3m6a_A	543	ATP-dependent protease LA 1; alpha, beta, ATP-bind	92.52
1oxx_K	353	GLCV, glucose, ABC transporter, ATP binding protei	92.52
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	92.51
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	92.49
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	92.49
2afh_E	289	Nitrogenase iron protein 1; nitrogen fixation, iro	92.47
3ld9_A	223	DTMP kinase, thymidylate kinase; ssgcid, NIH, niai	92.46
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	92.46
2orw_A	184	Thymidine kinase; TMTK, TP4A, transferase; HET: 4T	92.46
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	92.45
1pui_A	210	ENGB, probable GTP-binding protein ENGB; structura	92.44
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	92.43
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	92.43
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	92.41
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	92.4
3llu_A	196	RAS-related GTP-binding protein C; structural geno	92.4
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	92.37
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	92.37
1lw7_A	365	Transcriptional regulator NADR; NMN, NMN adenylyl	92.35
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	92.32
2p67_A	341	LAO/AO transport system kinase; ARGK, structural G	92.3
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	92.29
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	92.29
2dhr_A	499	FTSH; AAA+ protein, hexameric Zn metalloprotease,	92.26
2axn_A	520	6-phosphofructo-2-kinase/fructose-2,6- biphosphata	92.26
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	92.25
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	92.23
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	92.22
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	92.21
1j8m_F	297	SRP54, signal recognition 54 kDa protein; signalin	92.2
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	92.19
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	92.17
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	92.17
2h92_A	219	Cytidylate kinase; rossmann fold, transferase; HET	92.13
3gmt_A	230	Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucle	92.12
1ega_A	301	Protein (GTP-binding protein ERA); GTPase, RNA-bin	92.12
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	92.11
1g8p_A	350	Magnesium-chelatase 38 kDa subunit; parallel beta	92.11
2fh5_B	214	SR-beta, signal recognition particle receptor beta	92.1
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	92.08
3lxx_A	239	GTPase IMAP family member 4; structural genomics c	92.07
2r8r_A	228	Sensor protein; KDPD, PFAM02702, MCSG, structural	92.06
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	92.06
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	92.06
2qnr_A	301	Septin-2, protein NEDD5; structural genomics conso	92.05
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	92.02
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	92.01
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	91.99
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	91.98
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	91.98
3gee_A	476	MNME, tRNA modification GTPase MNME; G protein, cy	91.96
1g8f_A	511	Sulfate adenylyltransferase; alpha-beta protein, b	91.91
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	91.91
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	91.88
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	91.84
2gza_A	361	Type IV secretion system protein VIRB11; ATPase, h	91.8
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	91.8
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	91.8
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	91.79
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	91.79
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	91.77
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	91.76
2ewv_A	372	Twitching motility protein PILT; pilus retraction	91.74
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	91.72
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	91.7
1u0j_A	267	DNA replication protein; AAA+ protein, P-loop atpa	91.7
1m8p_A	573	Sulfate adenylyltransferase; rossmann fold, phosph	91.67
2r6a_A	454	DNAB helicase, replicative helicase; replication,	91.67
4dhe_A	223	Probable GTP-binding protein ENGB; melioidosis, RA	91.66
3v9p_A	227	DTMP kinase, thymidylate kinase; ssgcid, STRU geno	91.65
3k53_A	271	Ferrous iron transport protein B; GTPase fold, hel	91.64
2pt7_A	330	CAG-ALFA; ATPase, protein-protein complex, type IV	91.62
4dkx_A	216	RAS-related protein RAB-6A; GTP binding fold, memb	91.6
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	91.6
3ch4_B	202	Pmkase, phosphomevalonate kinase; parallel beta-sh	91.57
2obl_A	347	ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O	91.55
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	91.55
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	91.51
2ffh_A	425	Protein (FFH); SRP54, signal recognition particle,	91.48
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	91.47
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	91.46
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	91.45
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	91.45
1bif_A	469	6-phosphofructo-2-kinase/ fructose-2,6-bisphospha;	91.42
3gd7_A	390	Fusion complex of cystic fibrosis transmembrane co	91.41
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	91.41
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	91.39
2xtp_A	260	GTPase IMAP family member 2; immune system, G prot	91.37
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	91.35
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	91.35
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	91.35
1tq4_A	413	IIGP1, interferon-inducible GTPase; interferon gam	91.34
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	91.33
2h57_A	190	ADP-ribosylation factor-like protein 6; GTP, GTPas	91.31
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	91.27
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	91.25
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	91.24
3cr8_A	552	Sulfate adenylyltranferase, adenylylsulfate kinase	91.22
3b1v_A	272	Ferrous iron uptake transporter protein B; G prote	91.15
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	91.13
2qag_B	427	Septin-6, protein NEDD5; cell cycle, cell division	91.08
1jwy_B	315	Dynamin A GTPase domain; dynamin, GTPase, GDP, myo	91.02
3hjn_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	90.98
1c9k_A	180	COBU, adenosylcobinamide kinase; alpha/beta struct	90.95
2q6t_A	444	DNAB replication FORK helicase; hydrolase; 2.90A {	90.9
1p9r_A	418	General secretion pathway protein E; bacterial typ	90.9
1wf3_A	301	GTP-binding protein; GTPase, riken structural geno	90.86
3iby_A	256	Ferrous iron transport protein B; G protein, G dom	90.84
3ea0_A	245	ATPase, para family; alpha-beta-alpha sandwich, st	90.81
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	90.81
1g41_A	444	Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dep	90.77
3k9g_A	267	PF-32 protein; ssgcid, SBRI, decode biostructures,	90.76
2npi_A	460	Protein CLP1; CLP1-PCF11 complex, ATP binding, ter	90.71
4dzz_A	206	Plasmid partitioning protein PARF; deviant walker	90.68
3fdi_A	201	Uncharacterized protein; cytidylate kinase like pr	90.61
1h65_A	270	Chloroplast outer envelope protein OEP34; GTPase,	90.56
1x6v_B	630	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	90.54
3def_A	262	T7I23.11 protein; chloroplast, TOC33, GTPase, hydr	90.53
3bgw_A	444	DNAB-like replicative helicase; ATPase, replicatio	90.5
2qag_C	418	Septin-7; cell cycle, cell division, GTP-binding,	90.47
2x77_A	189	ADP-ribosylation factor; GTP-binding protein, smal	90.46
3euj_A	483	Chromosome partition protein MUKB, linker; MUKB, M	90.35
3lxw_A	247	GTPase IMAP family member 1; immunity, structural	90.31
3fkq_A	373	NTRC-like two-domain protein; RER070207001320, str	90.29
1f2t_A	149	RAD50 ABC-ATPase; DNA double-strand break repair,	90.29
1q57_A	503	DNA primase/helicase; dntpase, DNA replication, tr	90.28
3cpj_B	223	GTP-binding protein YPT31/YPT8; RAB GTPase, prenyl	90.25
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	90.18
2dpy_A	438	FLII, flagellum-specific ATP synthase; beta barrel	90.15
3b60_A	582	Lipid A export ATP-binding/permease protein MSBA;	90.07
3tqf_A	181	HPR(Ser) kinase; transferase, hydrolase; 2.80A {Co	90.06
1t9h_A	307	YLOQ, probable GTPase ENGC; N-terminal beta-barrel	90.05
3b5x_A	582	Lipid A export ATP-binding/permease protein MSBA;	90.05
3io3_A	348	DEHA2D07832P; chaperone, membrane traffic, ATPase;	90.05
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	90.01
3t5d_A	274	Septin-7; GTP-binding protein, cytoskeleton, signa	89.89
3a1s_A	258	Iron(II) transport protein B; FEOB, iron transport	89.86
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	89.79
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	89.72
3k1j_A	604	LON protease, ATP-dependent protease LON; ATP-bind	89.71
3tmk_A	216	Thymidylate kinase; phosphotransferase; HET: T5A;	89.68
3iqw_A	334	Tail-anchored protein targeting factor GET3; ATPas	89.68
1jr3_D	343	DNA polymerase III, delta subunit; processivity, p	89.65
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	89.56
1zcb_A	362	G alpha I/13; GTP-binding, lipoprotein, membrane,	89.54
1dek_A	241	Deoxynucleoside monophosphate kinase; transferase,	89.5
3kjh_A	254	CO dehydrogenase/acetyl-COA synthase complex, acce	89.48
3q9l_A	260	Septum site-determining protein MIND; ATPase, bact	89.48
3bk7_A	607	ABC transporter ATP-binding protein; ABC ATPase, i	89.4
2b8t_A	223	Thymidine kinase; deoxyribonucleoside kinase, zinc	89.39
3j16_B	608	RLI1P; ribosome recycling, translation, eukarya, r	89.31
3cwq_A	209	Para family chromosome partitioning protein; alpha	89.23
2yc2_C	208	IFT27, small RAB-related GTPase; transport protein	89.23
2gks_A	546	Bifunctional SAT/APS kinase; transferase, sulfuryl	89.18
3j16_B	608	RLI1P; ribosome recycling, translation, eukarya, r	89.12
2qag_A	361	Septin-2, protein NEDD5; cell cycle, cell division	89.01
4i1u_A	210	Dephospho-COA kinase; structural genomics, niaid,	89.0
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	88.94
3r7w_A	307	Gtpase1, GTP-binding protein GTR1; RAG gtpases, GT	88.89

>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=100.00  E-value=4.8e-36  Score=300.02  Aligned_cols=239  Identities=13%  Similarity=0.112  Sum_probs=181.9

Q ss_pred             hhhhhHHHHHHHHhcCCCCCCCCceEEEEEcCCCCcHHHHHHHHhc--cccccccccceEEEEecCCC--CHHHHHHHHH
Q 038448          137 EKDKEKEETVKLLLRDDLRTDDGLSVIPIIGTGRIGKTTLAQLAYS--DVRVHNHFDLKAWTCVSEDF--DIIRVTKSIL  212 (385)
Q Consensus       137 ~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~--~~~~~~~F~~~~wv~vs~~~--~~~~~~~~il  212 (385)
                      +.+.++++|.++|....   +++.++|+|+||||+||||||+++|+  +.+++.+|++++||++++.+  +...++..|+
T Consensus       132 GR~~~~~~l~~~L~~~~---~~~~~vv~I~G~gGvGKTtLA~~v~~~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~~~il  208 (549)
T 2a5y_B          132 IREYHVDRVIKKLDEMC---DLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGTAPKSTFDLFTDIL  208 (549)
T ss_dssp             CCHHHHHHHHHHHHHHT---TSSSEEEEEECSTTSSHHHHHHHHHHHCSSTBTTTBSEEEEEECCCCSTTHHHHHHHHHH
T ss_pred             CchHHHHHHHHHHhccc---CCCceEEEEEcCCCCCHHHHHHHHHHhhhHHHhccCCcEEEEEECCCCCCCHHHHHHHHH
Confidence            44778888999986542   34679999999999999999999998  66899999999999999985  8999999999


Q ss_pred             HHhhcCCC----CCcc--ch----HHhh------------chhhHhhHhhhccCCCCCcEEEEEcCChhHHhhcCCC-Cc
Q 038448          213 KSIASDQL----VDDH--DL----NLLQ------------KYNDWTNRSRLFEAGAPGSKIVFTTRNLGVAEKMGPL-PA  269 (385)
Q Consensus       213 ~~l~~~~~----~~~~--~~----~~l~------------~~~~w~~l~~~l~~~~~gs~IivTTR~~~va~~~~~~-~~  269 (385)
                      .+++....    ....  +.    ..+.            -++.|+.-...++. .+||+||||||+..++..++.. .+
T Consensus       209 ~~l~~~~~~~~~~~~~~~~~~~l~~~l~~~L~~~kr~LlVLDdv~~~~~~~~~~-~~gs~ilvTTR~~~v~~~~~~~~~~  287 (549)
T 2a5y_B          209 LMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVVQEETIRWAQ-ELRLRCLVTTRDVEISNAASQTCEF  287 (549)
T ss_dssp             HHHTTTSCCTTCCCCTTCCHHHHHHHHHHHHTTSTTEEEEEEEECCHHHHHHHH-HTTCEEEEEESBGGGGGGCCSCEEE
T ss_pred             HHHhcCcccccccccccccHHHHHHHHHHHHcCCCcEEEEEECCCCchhhcccc-cCCCEEEEEcCCHHHHHHcCCCCeE
Confidence            99986531    0111  11    1111            12233321113332 3799999999999999887633 67


Q ss_pred             ccCCCCChhhHHhhhhccccCCCCCCCCccHHHHHHHHHHHcCCChHHHHHHHHHhh-----------------------
Q 038448          270 YPLKELSNDDCLSVFSPHSLGEKDFSTHPSLKEIGEKIVKKCNGLPLVAKSLGGLLR-----------------------  326 (385)
Q Consensus       270 ~~l~~L~~~~a~~Lf~~~a~~~~~~~~~~~l~~~~~~i~~~c~glPLAi~~~~~~L~-----------------------  326 (385)
                      |+|++|+.++||+||.+.+|+..   .++.+.+++.+|+++|+|+||||+++|++|+                       
T Consensus       288 ~~l~~L~~~ea~~Lf~~~a~~~~---~~~~~~~~~~~I~~~c~GlPLAl~~~g~~l~~~~w~~~~~l~~~l~~~~~~~i~  364 (549)
T 2a5y_B          288 IEVTSLEIDECYDFLEAYGMPMP---VGEKEEDVLNKTIELSSGNPATLMMFFKSCEPKTFEKMAQLNNKLESRGLVGVE  364 (549)
T ss_dssp             EECCCCCHHHHHHHHHHTSCCCC-----CHHHHHHHHHHHHHTTCHHHHHHHHTTCCSSSHHHHHHHHHHHHHHCSSTTC
T ss_pred             EECCCCCHHHHHHHHHHHhcCCC---CchhHHHHHHHHHHHhCCChHHHHHHHHHhccchHHHHHHhHHHhhcccHHHHH
Confidence            99999999999999999988653   2467889999999999999999999998754                       


Q ss_pred             --------------------------------cccC-------------------CCCccCcHHHHHHHHHHHHHhcccc
Q 038448          327 --------------------------------GFLN-------------------HESDKKQMENLGRKYFQELYSRLFF  355 (385)
Q Consensus       327 --------------------------------g~~~-------------------~~~~~~~~e~~~~~~~~~Lv~rsll  355 (385)
                                                      ++++                   ....+.+++++++ ||++|+++|||
T Consensus       365 ~~l~~Sy~~L~~~lk~~f~~Ls~~er~l~~~ls~fp~~~~i~i~~w~a~~~G~i~~~~~~~~~~~~~~-~l~~L~~rsLl  443 (549)
T 2a5y_B          365 CITPYSYKSLAMALQRCVEVLSDEDRSALAFAVVMPPGVDIPVKLWSCVIPVDICSNEEEQLDDEVAD-RLKRLSKRGAL  443 (549)
T ss_dssp             CCSSSSSSSHHHHHHHHHHTSCHHHHHHTTGGGSSCTTCCEEHHHHHHHSCC-------CCCTHHHHH-HHHHTTTBSSC
T ss_pred             HHHhcccccccHHHHHHHhccchhhhhHhhheeeeCCCCeeeeeeeeeeccceeccCCCCCCHHHHHH-HHHHHHHcCCe
Confidence                                            1111                   1001344677777 99999999999


Q ss_pred             ceecCC-CCceeEchhHHHHHHHhhcccc
Q 038448          356 QLSSSN-KSLFVMHDLNNDLLNGLHGRFT  383 (385)
Q Consensus       356 ~~~~~~-~~~~~mHdlv~d~a~~~s~~e~  383 (385)
                      ++...+ ..+|+|||+||++|++++++++
T Consensus       444 ~~~~~~~~~~~~mHdlv~~~a~~~~~~~~  472 (549)
T 2a5y_B          444 LSGKRMPVLTFKIDHIIHMFLKHVVDAQT  472 (549)
T ss_dssp             SEEECSSSCEEECCHHHHHHHHTTSCTHH
T ss_pred             eEecCCCceEEEeChHHHHHHHHHHHHHH
Confidence            987643 3469999999999999998765

>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=99.94  E-value=3.2e-26  Score=249.47  Aligned_cols=234  Identities=21%  Similarity=0.316  Sum_probs=166.3

Q ss_pred             hhhHHHHHHHHhcCCCCCCCCceEEEEEcCCCCcHHHHHHHHhccccc-cccc-cceEEEEecCCCC--HHHHHHHHHHH
Q 038448          139 DKEKEETVKLLLRDDLRTDDGLSVIPIIGTGRIGKTTLAQLAYSDVRV-HNHF-DLKAWTCVSEDFD--IIRVTKSILKS  214 (385)
Q Consensus       139 ~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~-~~~F-~~~~wv~vs~~~~--~~~~~~~il~~  214 (385)
                      +.+.++|.++|....    ++.++|+|+||||+||||||+++|++.+. ..+| +.++||++++..+  ....+..++..
T Consensus       130 ~~~~~~l~~~l~~~~----~~~~~v~i~G~gG~GKTtLa~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~  205 (1249)
T 3sfz_A          130 KKLVHAIQQKLWKLN----GEPGWVTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWVSIGKQDKSGLLMKLQNLCMR  205 (1249)
T ss_dssp             HHHHHHHHHHHHTTT----TSCEEEEEECSTTSSHHHHHHHHTCCHHHHTTTSTTCEEEEECCSCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhcc----CCCCEEEEEeCCCCCHHHHHHHHhcChhHHHhhCCCeEEEEEECCcCchHHHHHHHHHHHH
Confidence            777888888886532    46799999999999999999999998543 4445 5677999998543  34456777777


Q ss_pred             hhcCCCC---CccchHHhh-----------------chhhHhhHhhhccCCCCCcEEEEEcCChhHHhh-cCCCCcccCC
Q 038448          215 IASDQLV---DDHDLNLLQ-----------------KYNDWTNRSRLFEAGAPGSKIVFTTRNLGVAEK-MGPLPAYPLK  273 (385)
Q Consensus       215 l~~~~~~---~~~~~~~l~-----------------~~~~w~~l~~~l~~~~~gs~IivTTR~~~va~~-~~~~~~~~l~  273 (385)
                      +......   .....+.+.                 -++.|+.-  .+....+||+||||||++.++.. ++....+.+.
T Consensus       206 l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~LlvlDd~~~~~--~~~~~~~~~~ilvTtR~~~~~~~~~~~~~~~~~~  283 (1249)
T 3sfz_A          206 LDQEESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDVWDPW--VLKAFDNQCQILLTTRDKSVTDSVMGPKHVVPVE  283 (1249)
T ss_dssp             HTTTCTTCSSCCSSHHHHHHHHHHHTSSSSCSCEEEEESCCCHH--HHTTTCSSCEEEEEESSTTTTTTCCSCBCCEECC
T ss_pred             hhhhcccccCCCCCHHHHHHHHHHHHhccCCCEEEEEecCCCHH--HHHhhcCCCEEEEEcCCHHHHHhhcCCceEEEec
Confidence            7654321   111222211                 12223221  12223679999999999999854 3455788999


Q ss_pred             C-CChhhHHhhhhccccCCCCCCCCccHHHHHHHHHHHcCCChHHHHHHHHHhh--------------------------
Q 038448          274 E-LSNDDCLSVFSPHSLGEKDFSTHPSLKEIGEKIVKKCNGLPLVAKSLGGLLR--------------------------  326 (385)
Q Consensus       274 ~-L~~~~a~~Lf~~~a~~~~~~~~~~~l~~~~~~i~~~c~glPLAi~~~~~~L~--------------------------  326 (385)
                      + |+.++|++||...++...     +.+.+++.+|+++|+|+||||+++|++|+                          
T Consensus       284 ~~l~~~~a~~l~~~~~~~~~-----~~~~~~~~~i~~~~~glPLal~~~~~~l~~~~~~~~~~l~~l~~~~~~~~~~~~~  358 (1249)
T 3sfz_A          284 SGLGREKGLEILSLFVNMKK-----EDLPAEAHSIIKECKGSPLVVSLIGALLRDFPNRWAYYLRQLQNKQFKRIRKSSS  358 (1249)
T ss_dssp             SSCCHHHHHHHHHHHHTSCS-----TTCCTHHHHHHHHTTTCHHHHHHHHHHHHHSSSCHHHHHHHHHSCCCCCSSCTTC
T ss_pred             CCCCHHHHHHHHHHhhCCCh-----hhCcHHHHHHHHHhCCCHHHHHHHHHHhhcChhHHHHHHHHHhhhhhhhcccccc
Confidence            6 999999999998874322     33456789999999999999999999997                          


Q ss_pred             ----------------------------cccCCCCc---------cCcHHHHHHHHHHHHHhccccceecCCCC-ceeEc
Q 038448          327 ----------------------------GFLNHESD---------KKQMENLGRKYFQELYSRLFFQLSSSNKS-LFVMH  368 (385)
Q Consensus       327 ----------------------------g~~~~~~~---------~~~~e~~~~~~~~~Lv~rsll~~~~~~~~-~~~mH  368 (385)
                                                  ++++....         ....++.++.+|++|+++||++....+.. +|+||
T Consensus       359 ~~~~~~~~~l~~s~~~L~~~~~~~~~~l~~f~~~~~i~~~~~~~~~~~~~~~~~~~l~~L~~~sl~~~~~~~~~~~~~~h  438 (1249)
T 3sfz_A          359 YDYEALDEAMSISVEMLREDIKDYYTDLSILQKDVKVPTKVLCVLWDLETEEVEDILQEFVNKSLLFCNRNGKSFCYYLH  438 (1249)
T ss_dssp             TTHHHHHHHHHHHHHTSCTTTHHHHHHGGGSCTTCCEEHHHHHHHHTCCHHHHHHHHHHHHHTTSCEEEESSSSEEEECC
T ss_pred             cchHHHHHHHHHHHHhCCHHHHHHHHHhCccCCCCeeCHHHHHHHhCCCHHHHHHHHHHHHhccceEEecCCCceEEEec
Confidence                                        11111000         01114557899999999999998754332 49999


Q ss_pred             hhHHHHHHHhhcccc
Q 038448          369 DLNNDLLNGLHGRFT  383 (385)
Q Consensus       369 dlv~d~a~~~s~~e~  383 (385)
                      |+||++|+..+.+|.
T Consensus       439 ~l~~~~~~~~~~~~~  453 (1249)
T 3sfz_A          439 DLQVDFLTEKNRSQL  453 (1249)
T ss_dssp             HHHHHHHHHHTGGGH
T ss_pred             HHHHHHHHhhhhHHH
Confidence            999999999988764

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A*

Probab=99.93  E-value=1.1e-25  Score=231.04  Aligned_cols=220  Identities=14%  Similarity=0.090  Sum_probs=152.1

Q ss_pred             hhhhhhHHHHHHHHhcCCCCCCCCceEEEEEcCCCCcHHHHHHHHhccccccccccc-eEEEEecCCCCHHHHHHHHHHH
Q 038448          136 IEKDKEKEETVKLLLRDDLRTDDGLSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDL-KAWTCVSEDFDIIRVTKSILKS  214 (385)
Q Consensus       136 i~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~-~~wv~vs~~~~~~~~~~~il~~  214 (385)
                      ++++.+.++|.++|...     ++.++|+|+||||+||||||+.+|++.+++.+|+. ++|+++++.++...++..|+..
T Consensus       131 VGRe~eLeeL~elL~~~-----d~~RVV~IvGmGGIGKTTLAk~Vy~d~rV~~~Fd~gV~WVsVs~~~d~~~IL~~Ll~l  205 (1221)
T 1vt4_I          131 VSRLQPYLKLRQALLEL-----RPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKL  205 (1221)
T ss_dssp             CCCHHHHHHHHHHHHHC-----CSSCEEEECCSTTSSHHHHHHHHHHHCHHHHHHSSCEEEEECCCSSSHHHHHHHHHHH
T ss_pred             CCcHHHHHHHHHHHhcc-----CCCeEEEEEcCCCccHHHHHHHHHHhhHHHHhCCCcEEEEEeCCCCCHHHHHHHHHHH
Confidence            44577788888888752     23689999999999999999999998778899986 8999999999988888888775


Q ss_pred             hhcCC---CCCc-------cchH----Hhh--------------chhhHhh-HhhhccCCCCCcEEEEEcCChhHHhhcC
Q 038448          215 IASDQ---LVDD-------HDLN----LLQ--------------KYNDWTN-RSRLFEAGAPGSKIVFTTRNLGVAEKMG  265 (385)
Q Consensus       215 l~~~~---~~~~-------~~~~----~l~--------------~~~~w~~-l~~~l~~~~~gs~IivTTR~~~va~~~~  265 (385)
                      +....   ....       ...+    .+.              -++.|.. ....++   +||+||||||+..++..+.
T Consensus       206 L~~i~~~~~~~~d~~~~ip~~leeL~e~Lr~lL~~l~~KRvLLVLDDVwd~eqLe~f~---pGSRILVTTRd~~Va~~l~  282 (1221)
T 1vt4_I          206 LYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFN---LSCKILLTTRFKQVTDFLS  282 (1221)
T ss_dssp             HHHHCSSSTTTSCCCSSHHHHHHHHHHHHHHHHHHSTTSSCEEEEESCCCHHHHHHHH---SSCCEEEECSCSHHHHHHH
T ss_pred             HhhcCcccccccccccCCCCCHHHHHHHHHHHHHhhcCCCEEEEEeCcChHHHHHhhC---CCeEEEEeccChHHHHhcC
Confidence            43321   0000       0111    111              1122221 112233   7999999999999986544


Q ss_pred             CCCcccCC------CCChhhHHhhhhccccCCCCCCCCccHHHHHHHHHHHcCCChHHHHHHHHHhhcc-----------
Q 038448          266 PLPAYPLK------ELSNDDCLSVFSPHSLGEKDFSTHPSLKEIGEKIVKKCNGLPLVAKSLGGLLRGF-----------  328 (385)
Q Consensus       266 ~~~~~~l~------~L~~~~a~~Lf~~~a~~~~~~~~~~~l~~~~~~i~~~c~glPLAi~~~~~~L~g~-----------  328 (385)
                      ....|.++      +|+.++||+||.+. ++..    .   .++..+|   |+|+||||+++|+.|++.           
T Consensus       283 g~~vy~LeL~d~dL~LS~eEA~eLF~~~-~g~~----~---eeL~~eI---CgGLPLALkLaGs~Lr~k~~s~eeW~~~~  351 (1221)
T 1vt4_I          283 AATTTHISLDHHSMTLTPDEVKSLLLKY-LDCR----P---QDLPREV---LTTNPRRLSIIAESIRDGLATWDNWKHVN  351 (1221)
T ss_dssp             HHSSCEEEECSSSSCCCHHHHHHHHHHH-HCCC----T---TTHHHHH---CCCCHHHHHHHHHHHHHSCSSHHHHHHCS
T ss_pred             CCeEEEecCccccCCcCHHHHHHHHHHH-cCCC----H---HHHHHHH---hCCCHHHHHHHHHHHhCCCCCHHHHhcCC
Confidence            33457777      99999999999987 3322    1   1233333   999999999999998611           


Q ss_pred             -----------------------------cCCCCc----------cCcHHHHHHHHHHHHHhccccceecCCCCceeEch
Q 038448          329 -----------------------------LNHESD----------KKQMENLGRKYFQELYSRLFFQLSSSNKSLFVMHD  369 (385)
Q Consensus       329 -----------------------------~~~~~~----------~~~~e~~~~~~~~~Lv~rsll~~~~~~~~~~~mHd  369 (385)
                                                   +.....          ....++.++.+|++|+++|||+.. ....+|+|||
T Consensus       352 ~~~I~aaLelSYd~Lp~eelK~cFL~LAIFPed~~I~~elLa~LW~aeGeedAe~~L~eLvdRSLLq~d-~~~~rYrMHD  430 (1221)
T 1vt4_I          352 CDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQ-PKESTISIPS  430 (1221)
T ss_dssp             CHHHHHHHHHHHHHSCTTHHHHHHHHTTSSCTTSCEEHHHHHHHHCSSCSHHHHHHHHHHHTSSSSSBC-SSSSEEBCCC
T ss_pred             hhHHHHHHHHHHHhCCHHHHHHHHHHHhCCCCCCCCCHHHHHHHhcCCCHHHHHHHHHHHHhhCCEEEe-CCCCEEEehH
Confidence                                         110000          000023478999999999999985 2345699999


Q ss_pred             hHHHHH
Q 038448          370 LNNDLL  375 (385)
Q Consensus       370 lv~d~a  375 (385)
                      |+++++
T Consensus       431 LllELr  436 (1221)
T 1vt4_I          431 IYLELK  436 (1221)
T ss_dssp             HHHHHH
T ss_pred             HHHHHh
Confidence            999966

>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation, ADP, nucleotide binding, CARD, apoptosis; HET: ADP; 2.21A {Homo sapiens}

Probab=99.90  E-value=6e-23  Score=207.32  Aligned_cols=228  Identities=22%  Similarity=0.314  Sum_probs=152.4

Q ss_pred             hhhHHHHHHHHhcCCCCCCCCceEEEEEcCCCCcHHHHHHHHhccccc-cccc-cceEEEEecCCCCHHHHHHHH---HH
Q 038448          139 DKEKEETVKLLLRDDLRTDDGLSVIPIIGTGRIGKTTLAQLAYSDVRV-HNHF-DLKAWTCVSEDFDIIRVTKSI---LK  213 (385)
Q Consensus       139 ~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~-~~~F-~~~~wv~vs~~~~~~~~~~~i---l~  213 (385)
                      +.+.+.|.++|...    .++.++|+|+||||+||||||..+|++.++ ..+| +.++|++++.. +...++..+   +.
T Consensus       130 ~~~l~~L~~~L~~~----~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~v~wv~~~~~-~~~~~~~~l~~l~~  204 (591)
T 1z6t_A          130 KKLVNAIQQKLSKL----KGEPGWVTIHGMAGCGKSVLAAEAVRDHSLLEGCFPGGVHWVSVGKQ-DKSGLLMKLQNLCT  204 (591)
T ss_dssp             HHHHHHHHHHHTTS----TTSCEEEEEECCTTSSHHHHHHHHHCCHHHHHHHCTTCEEEEEEESC-CHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcc----cCCCceEEEEcCCCCCHHHHHHHHHhchhHHHhhCCCceEEEECCCC-chHHHHHHHHHHHH
Confidence            77778888888643    235789999999999999999999998655 7889 48999999875 333444433   33


Q ss_pred             HhhcCCC---CCccchHH----hh-------------chhhHhhHhhhccCCCCCcEEEEEcCChhHHhhcCCCCcccC-
Q 038448          214 SIASDQL---VDDHDLNL----LQ-------------KYNDWTNRSRLFEAGAPGSKIVFTTRNLGVAEKMGPLPAYPL-  272 (385)
Q Consensus       214 ~l~~~~~---~~~~~~~~----l~-------------~~~~w~~l~~~l~~~~~gs~IivTTR~~~va~~~~~~~~~~l-  272 (385)
                      .+.....   ......+.    +.             -++.|..-  .+....+|++||||||+..++..+.. ..+.+ 
T Consensus       205 ~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~LLVLDdv~~~~--~l~~l~~~~~ilvTsR~~~~~~~~~~-~~~~v~  281 (591)
T 1z6t_A          205 RLDQDESFSQRLPLNIEEAKDRLRILMLRKHPRSLLILDDVWDSW--VLKAFDSQCQILLTTRDKSVTDSVMG-PKYVVP  281 (591)
T ss_dssp             HHCSSCCSCSSCCCSHHHHHHHHHHHHHHTCTTCEEEEEEECCHH--HHHTTCSSCEEEEEESCGGGGTTCCS-CEEEEE
T ss_pred             HhccccccccCCCCCHHHHHHHHHHHHccCCCCeEEEEeCCCCHH--HHHHhcCCCeEEEECCCcHHHHhcCC-CceEee
Confidence            4432111   01112111    11             11122210  11123578999999999998876542 33443 


Q ss_pred             --CCCChhhHHhhhhccccCCCCCCCCccHHHHHHHHHHHcCCChHHHHHHHHHhhc-----------------------
Q 038448          273 --KELSNDDCLSVFSPHSLGEKDFSTHPSLKEIGEKIVKKCNGLPLVAKSLGGLLRG-----------------------  327 (385)
Q Consensus       273 --~~L~~~~a~~Lf~~~a~~~~~~~~~~~l~~~~~~i~~~c~glPLAi~~~~~~L~g-----------------------  327 (385)
                        .+|+.+++++||...++...     ....+.+.+|+++|+|+||||..+|+.|++                       
T Consensus       282 ~l~~L~~~ea~~L~~~~~~~~~-----~~~~~~~~~i~~~~~G~PLal~~~a~~l~~~~~~w~~~l~~l~~~~~~~~~~~  356 (591)
T 1z6t_A          282 VESSLGKEKGLEILSLFVNMKK-----ADLPEQAHSIIKECKGSPLVVSLIGALLRDFPNRWEYYLKQLQNKQFKRIRKS  356 (591)
T ss_dssp             CCSSCCHHHHHHHHHHHHTSCG-----GGSCTHHHHHHHHHTTCHHHHHHHHHHHHHSTTCHHHHHHHHHSCCCCCSSCC
T ss_pred             cCCCCCHHHHHHHHHHHhCCCc-----ccccHHHHHHHHHhCCCcHHHHHHHHHHhcCchhHHHHHHHHHHhHHHHhhhc
Confidence              68999999999998875421     222457889999999999999999998851                       


Q ss_pred             -------------------------------ccCCCC----------ccCcHHHHHHHHHHHHHhccccceecCC-CCce
Q 038448          328 -------------------------------FLNHES----------DKKQMENLGRKYFQELYSRLFFQLSSSN-KSLF  365 (385)
Q Consensus       328 -------------------------------~~~~~~----------~~~~~e~~~~~~~~~Lv~rsll~~~~~~-~~~~  365 (385)
                                                     ++....          +... .+.+..++++|+++|||+....+ ...|
T Consensus       357 ~~~~~~~l~~~l~~s~~~L~~~~~~~l~~la~f~~~~~i~~~~l~~l~~~~-~~~~~~~l~~L~~~~Ll~~~~~~~~~~~  435 (591)
T 1z6t_A          357 SSYDYEALDEAMSISVEMLREDIKDYYTDLSILQKDVKVPTKVLCILWDME-TEEVEDILQEFVNKSLLFCDRNGKSFRY  435 (591)
T ss_dssp             CSSCCHHHHHHHHHHHHTSCTTTHHHHHHGGGCCTTCCEEHHHHHHHHTCC-HHHHHHHHHHHHHTTSSEEEEETTEEEE
T ss_pred             cccchHHHHHHHHHHHHhCCHHHHHHHHHccccCCCCccCHHHHHHHhccC-HHHHHHHHHHHHhCcCeEEecCCCccEE
Confidence                                           111000          0011 12467899999999999976433 2369


Q ss_pred             eEchhHHHHHHHhhc
Q 038448          366 VMHDLNNDLLNGLHG  380 (385)
Q Consensus       366 ~mHdlv~d~a~~~s~  380 (385)
                      +||++||++++....
T Consensus       436 ~~H~lv~~~~~~~~~  450 (591)
T 1z6t_A          436 YLHDLQVDFLTEKNC  450 (591)
T ss_dssp             ECCHHHHHHHHHHTG
T ss_pred             EEcHHHHHHHHhhhh
Confidence            999999999998743

>3qfl_A MLA10; coiled-coil, (CC) domain, NLRS, nucleotide-binding domain, L rich repeat containing receptors, protein binding; 2.00A {Hordeum vulgare}

Probab=99.58  E-value=3e-16  Score=122.56  Aligned_cols=63  Identities=19%  Similarity=0.324  Sum_probs=58.6

Q ss_pred             cCCCCChhhHHHHHHHHHHHHHHHHHHHhc--ccCchHHHHHHHHHHHhhhhhhhHHHHHHHHHH
Q 038448           19 CTPKAEPGRSDEWKKILVKINEVLDDAEEK--QNTEQSVKMWLGDLQNLAYDVDDLLDELETEAF   81 (385)
Q Consensus        19 ~~~~~v~~~l~~l~~~L~~i~~~l~~ae~~--~~~~~~~~~Wl~~lr~~ayd~eD~lD~~~~~~~   81 (385)
                      .++.||++++++|+++|++|++||.+|+.+  +.+++.++.|+++||++|||+|||||+|.++..
T Consensus        19 ~l~~gv~~~i~~Lk~eL~~m~a~L~da~~~~~~~~d~~vk~W~~~vrdlaYD~ED~iD~f~~~~~   83 (115)
T 3qfl_A           19 KLHKGVKKNIEDLGKELESMNAALIKIGEVPREQLDSQDKLWADEVRELSYVIEDVVDKFLVQVD   83 (115)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHTTSCGGGCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHhchHHHHHHHHHHHHHHHHHHHHHHHhccccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            456799999999999999999999999987  567899999999999999999999999999875

>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus abyssi}

Probab=98.81  E-value=1.5e-08  Score=94.64  Aligned_cols=152  Identities=16%  Similarity=0.212  Sum_probs=88.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecCCC------CHHHHHHHHHHHhhc----------------C
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDF------DIIRVTKSILKSIAS----------------D  218 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~------~~~~~~~~il~~l~~----------------~  218 (385)
                      +++.|+|++|+|||||++.+++..      + .+|++.....      +...++..+...+..                .
T Consensus        32 ~~v~i~G~~G~GKT~Ll~~~~~~~------~-~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~  104 (350)
T 2qen_A           32 PLTLLLGIRRVGKSSLLRAFLNER------P-GILIDCRELYAERGHITREELIKELQSTISPFQKFQSKFKISLNLKFL  104 (350)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHHHS------S-EEEEEHHHHHHTTTCBCHHHHHHHHHHHSCSHHHHHHHHTCCCCCGGG
T ss_pred             CeEEEECCCcCCHHHHHHHHHHHc------C-cEEEEeecccccccCCCHHHHHHHHHHHHHHHHhHhhhceeEEEecce
Confidence            689999999999999999998752      1 6677754332      444555555544321                0


Q ss_pred             CCC-Cccc---------------------hHHhhchh--------h-HhhHhhhccCCCCCcEEEEEcCChhHHhhc---
Q 038448          219 QLV-DDHD---------------------LNLLQKYN--------D-WTNRSRLFEAGAPGSKIVFTTRNLGVAEKM---  264 (385)
Q Consensus       219 ~~~-~~~~---------------------~~~l~~~~--------~-w~~l~~~l~~~~~gs~IivTTR~~~va~~~---  264 (385)
                      ... ....                     +|+++...        . +..+...+.. .++.++|+|++.......+   
T Consensus       105 ~~~~~~~~~~~~~~~l~~~~~~~~~~vlvlDe~~~~~~~~~~~~~~~~~~L~~~~~~-~~~~~~il~g~~~~~l~~~l~~  183 (350)
T 2qen_A          105 TLEPRKLSLREVFRELNDLGEELGEFIVAFDEAQYLRFYGSRGGKELLALFAYAYDS-LPNLKIILTGSEVGLLHDFLKI  183 (350)
T ss_dssp             TSCGGGCCHHHHHHHHHHHHHHHSCEEEEEETGGGGGGBTTTTTHHHHHHHHHHHHH-CTTEEEEEEESSHHHHHHHHCT
T ss_pred             eeccccchHHHHHHHHHHHHhccCCEEEEEeCHHHHhccCccchhhHHHHHHHHHHh-cCCeEEEEECCcHHHHHHHHhh
Confidence            000 0011                     11111111        1 1222222221 2477899999876542211   


Q ss_pred             --------CC-CCcccCCCCChhhHHhhhhccccCCCCCCCCccHHHHHHHHHHHcCCChHHHHHHHHH
Q 038448          265 --------GP-LPAYPLKELSNDDCLSVFSPHSLGEKDFSTHPSLKEIGEKIVKKCNGLPLVAKSLGGL  324 (385)
Q Consensus       265 --------~~-~~~~~l~~L~~~~a~~Lf~~~a~~~~~~~~~~~l~~~~~~i~~~c~glPLAi~~~~~~  324 (385)
                              +. ...+.+.+|+.+++.+++.... .......   -.+.+..|+..|+|.|+++..++..
T Consensus       184 ~~~~~~l~~~~~~~i~l~pl~~~e~~~~l~~~~-~~~~~~~---~~~~~~~i~~~tgG~P~~l~~~~~~  248 (350)
T 2qen_A          184 TDYESPLYGRIAGEVLVKPFDKDTSVEFLKRGF-REVNLDV---PENEIEEAVELLDGIPGWLVVFGVE  248 (350)
T ss_dssp             TCTTSTTTTCCCEEEECCCCCHHHHHHHHHHHH-HTTTCCC---CHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             cCCCCccccCccceeeCCCCCHHHHHHHHHHHH-HHcCCCC---CHHHHHHHHHHhCCCHHHHHHHHHH
Confidence                    11 1368899999999999987642 1111111   1356788999999999999887753

>2fna_A Conserved hypothetical protein; structural genomics, joint center for structural genomics, J protein structure initiative, PSI-2; HET: MSE ADP; 2.00A {Sulfolobus solfataricus} SCOP: a.4.5.11 c.37.1.20

Probab=98.75  E-value=2.9e-08  Score=92.76  Aligned_cols=72  Identities=17%  Similarity=0.258  Sum_probs=48.4

Q ss_pred             CCcEEEEEcCChhHHhhc----------C-C-CCcccCCCCChhhHHhhhhccccCCCCCCCCccHHHHHHHHHHHcCCC
Q 038448          247 PGSKIVFTTRNLGVAEKM----------G-P-LPAYPLKELSNDDCLSVFSPHSLGEKDFSTHPSLKEIGEKIVKKCNGL  314 (385)
Q Consensus       247 ~gs~IivTTR~~~va~~~----------~-~-~~~~~l~~L~~~~a~~Lf~~~a~~~~~~~~~~~l~~~~~~i~~~c~gl  314 (385)
                      .+.++|+|++.......+          . . ...+.+.+|+.+++.+++.... ...... ....    ..|+..|+|.
T Consensus       169 ~~~~~i~~g~~~~~l~~~l~~~~~~~~l~~r~~~~i~l~~l~~~e~~~~l~~~~-~~~~~~-~~~~----~~i~~~t~G~  242 (357)
T 2fna_A          169 KRIKFIMSGSEMGLLYDYLRVEDPESPLFGRAFSTVELKPFSREEAIEFLRRGF-QEADID-FKDY----EVVYEKIGGI  242 (357)
T ss_dssp             TTEEEEEEESSHHHHHHHTTTTCTTSTTTTCCCEEEEECCCCHHHHHHHHHHHH-HHHTCC-CCCH----HHHHHHHCSC
T ss_pred             CCeEEEEEcCchHHHHHHHhccCCCCccccCccceeecCCCCHHHHHHHHHHHH-HHcCCC-CCcH----HHHHHHhCCC
Confidence            467899999986542211          1 1 1368899999999999997642 110111 1121    7899999999


Q ss_pred             hHHHHHHHHH
Q 038448          315 PLVAKSLGGL  324 (385)
Q Consensus       315 PLAi~~~~~~  324 (385)
                      |+++..++..
T Consensus       243 P~~l~~~~~~  252 (357)
T 2fna_A          243 PGWLTYFGFI  252 (357)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            9999887654

>1w5s_A Origin recognition complex subunit 2 ORC2; replication, CDC6, DNA replication initiation, DNA BIND protein, AAA+ ATPase; HET: ADP; 2.4A {Aeropyrum pernix} SCOP: a.4.5.11 c.37.1.20 PDB: 1w5t_A*

Probab=98.73  E-value=7.6e-08  Score=92.01  Aligned_cols=156  Identities=16%  Similarity=0.108  Sum_probs=90.3

Q ss_pred             eEEEE--EcCCCCcHHHHHHHHhcccccc---cccc-ceEEEEecCCCCHHHHHHHHHHHhhcCCCCCccc----hHHhh
Q 038448          161 SVIPI--IGTGRIGKTTLAQLAYSDVRVH---NHFD-LKAWTCVSEDFDIIRVTKSILKSIASDQLVDDHD----LNLLQ  230 (385)
Q Consensus       161 ~vi~I--~G~gGiGKTtLA~~v~~~~~~~---~~F~-~~~wv~vs~~~~~~~~~~~il~~l~~~~~~~~~~----~~~l~  230 (385)
                      ..+.|  +|++|+||||||+.+++.....   ..|+ ..+|++.....+...++..++.+++.........    ...+.
T Consensus        51 ~~~li~i~G~~G~GKT~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~l~  130 (412)
T 1w5s_A           51 VNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVNAFNAPNLYTILSLIVRQTGYPIQVRGAPALDILKALV  130 (412)
T ss_dssp             EEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEEEGGGCCSHHHHHHHHHHHHTCCCCCTTCCHHHHHHHHH
T ss_pred             CEEEEeCcCcCCCCHHHHHHHHHHHHHHHHhccCCceeEEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHH
Confidence            45556  9999999999999999853211   0122 3567777666788888888888876532211111    11110


Q ss_pred             --------------ch------------hhHhhHhhhccCC---C--CCcEEEEEcCChhHHhhc--------CC-CCcc
Q 038448          231 --------------KY------------NDWTNRSRLFEAG---A--PGSKIVFTTRNLGVAEKM--------GP-LPAY  270 (385)
Q Consensus       231 --------------~~------------~~w~~l~~~l~~~---~--~gs~IivTTR~~~va~~~--------~~-~~~~  270 (385)
                                    ++            +.+..+...+...   .  ....||+||+...+...+        .. ...+
T Consensus       131 ~~l~~~~~~~llvlDe~~~l~~~~~~~~~~l~~l~~~~~~~~~~~~~~~v~lI~~~~~~~~~~~l~~~~~~~~~~~~~~i  210 (412)
T 1w5s_A          131 DNLYVENHYLLVILDEFQSMLSSPRIAAEDLYTLLRVHEEIPSRDGVNRIGFLLVASDVRALSYMREKIPQVESQIGFKL  210 (412)
T ss_dssp             HHHHHHTCEEEEEEESTHHHHSCTTSCHHHHHHHHTHHHHSCCTTSCCBEEEEEEEEETHHHHHHHHHCHHHHTTCSEEE
T ss_pred             HHHHhcCCeEEEEEeCHHHHhhccCcchHHHHHHHHHHHhcccCCCCceEEEEEEeccccHHHHHhhhcchhhhhcCCee
Confidence                          11            2222222222211   1  233478788765533211        11 1228


Q ss_pred             cCCCCChhhHHhhhhccc---cCCCCCCCCccHHHHHHHHHHHcC------CChHHHHHH
Q 038448          271 PLKELSNDDCLSVFSPHS---LGEKDFSTHPSLKEIGEKIVKKCN------GLPLVAKSL  321 (385)
Q Consensus       271 ~l~~L~~~~a~~Lf~~~a---~~~~~~~~~~~l~~~~~~i~~~c~------glPLAi~~~  321 (385)
                      .+.+|+.++.+++|...+   +...  .   --.+....|++.|+      |.|..+..+
T Consensus       211 ~l~~l~~~e~~~ll~~~~~~~~~~~--~---~~~~~~~~i~~~~~~~~~~~G~p~~~~~l  265 (412)
T 1w5s_A          211 HLPAYKSRELYTILEQRAELGLRDT--V---WEPRHLELISDVYGEDKGGDGSARRAIVA  265 (412)
T ss_dssp             ECCCCCHHHHHHHHHHHHHHHBCTT--S---CCHHHHHHHHHHHCGGGTSCCCHHHHHHH
T ss_pred             eeCCCCHHHHHHHHHHHHHhcCCCC--C---CChHHHHHHHHHHHHhccCCCcHHHHHHH
Confidence            999999999999997543   2211  1   11456778999999      999654433

>1njg_A DNA polymerase III subunit gamma; rossman-like fold, AAA+ ATPase domains, sensor 1, sensor 2, transferase; HET: DNA; 2.20A {Escherichia coli} SCOP: c.37.1.20 PDB: 1njf_A*

Probab=98.73  E-value=1e-07  Score=83.61  Aligned_cols=160  Identities=13%  Similarity=0.070  Sum_probs=94.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcccccccc-------------------ccceEEEEecCCCCHHHHHHHHHHHhhcCCCC
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSDVRVHNH-------------------FDLKAWTCVSEDFDIIRVTKSILKSIASDQLV  221 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~-------------------F~~~~wv~vs~~~~~~~~~~~il~~l~~~~~~  221 (385)
                      ..+.|+|++|+||||||+.+++.......                   +.....+.... ......+..++..+......
T Consensus        46 ~~~ll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~  124 (250)
T 1njg_A           46 HAYLFSGTRGVGKTSIARLLAKGLNCETGITATPCGVCDNCREIEQGRFVDLIEIDAAS-RTKVEDTRDLLDNVQYAPAR  124 (250)
T ss_dssp             SEEEEECSTTSCHHHHHHHHHHHHHCTTCSCSSCCSCSHHHHHHHTTCCSSEEEEETTC-GGGHHHHHHHHHSCCCSCSS
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCcccHHHHHHhccCCcceEEecCcc-cccHHHHHHHHHHhhhchhc
Confidence            58899999999999999999865321111                   11112222221 12334455566555322110


Q ss_pred             ---CccchHHhh--chhhHhhHhhhccCCCCCcEEEEEcCChhHH-hh-cCCCCcccCCCCChhhHHhhhhccccCCCCC
Q 038448          222 ---DDHDLNLLQ--KYNDWTNRSRLFEAGAPGSKIVFTTRNLGVA-EK-MGPLPAYPLKELSNDDCLSVFSPHSLGEKDF  294 (385)
Q Consensus       222 ---~~~~~~~l~--~~~~w~~l~~~l~~~~~gs~IivTTR~~~va-~~-~~~~~~~~l~~L~~~~a~~Lf~~~a~~~~~~  294 (385)
                         ..--+++++  ....++.+...+.....+..+|+||+..... .. ......+.+.+++.++..+++...+..... 
T Consensus       125 ~~~~vlviDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~t~~~~~~~~~l~~r~~~i~l~~l~~~e~~~~l~~~~~~~~~-  203 (250)
T 1njg_A          125 GRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTILSRCLQFHLKALDVEQIRHQLEHILNEEHI-  203 (250)
T ss_dssp             SSSEEEEEETGGGSCHHHHHHHHHHHHSCCTTEEEEEEESCGGGSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHTTC-
T ss_pred             CCceEEEEECcccccHHHHHHHHHHHhcCCCceEEEEEeCChHhCCHHHHHHhhhccCCCCCHHHHHHHHHHHHHhcCC-
Confidence               111123333  3445666666665555678888888764321 11 122356899999999999999876532211 


Q ss_pred             CCCccHHHHHHHHHHHcCCChHHHHHHHHHh
Q 038448          295 STHPSLKEIGEKIVKKCNGLPLVAKSLGGLL  325 (385)
Q Consensus       295 ~~~~~l~~~~~~i~~~c~glPLAi~~~~~~L  325 (385)
                      .   --.+....|++.|+|.|..+..+...+
T Consensus       204 ~---~~~~~~~~l~~~~~G~~~~~~~~~~~~  231 (250)
T 1njg_A          204 A---HEPRALQLLARAAEGSLRDALSLTDQA  231 (250)
T ss_dssp             C---BCHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             C---CCHHHHHHHHHHcCCCHHHHHHHHHHH
Confidence            1   113567789999999999988876554

>2chg_A Replication factor C small subunit; DNA-binding protein, DNA replication, clamp loader, AAA+ ATPase, ATP-binding, nucleotide-binding; HET: ANP; 2.1A {Archaeoglobus fulgidus}

Probab=98.64  E-value=2.8e-07  Score=79.76  Aligned_cols=158  Identities=13%  Similarity=0.001  Sum_probs=88.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcccccccccc-ceEEEEecCCCCHHHHHHHHHHHhhcCC-----CCCccchHHhh--chh
Q 038448          162 VIPIIGTGRIGKTTLAQLAYSDVRVHNHFD-LKAWTCVSEDFDIIRVTKSILKSIASDQ-----LVDDHDLNLLQ--KYN  233 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~-~~~wv~vs~~~~~~~~~~~il~~l~~~~-----~~~~~~~~~l~--~~~  233 (385)
                      .+.|+|++|+|||+||+.+++... ...+. ..+.++.+...+...+... +..+....     ....--+++++  ...
T Consensus        40 ~~ll~G~~G~GKT~l~~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~vliiDe~~~l~~~  117 (226)
T 2chg_A           40 HLLFSGPPGTGKTATAIALARDLF-GENWRDNFIEMNASDERGIDVVRHK-IKEFARTAPIGGAPFKIIFLDEADALTAD  117 (226)
T ss_dssp             CEEEECSTTSSHHHHHHHHHHHHH-GGGGGGGEEEEETTCTTCHHHHHHH-HHHHHTSCCSTTCSCEEEEEETGGGSCHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHh-ccccccceEEeccccccChHHHHHH-HHHHhcccCCCccCceEEEEeChhhcCHH
Confidence            489999999999999999987421 11222 2333444444444333333 33322211     00111123322  223


Q ss_pred             hHhhHhhhccCCCCCcEEEEEcCChhHH-h-hcCCCCcccCCCCChhhHHhhhhccccCCCCCCCCccHHHHHHHHHHHc
Q 038448          234 DWTNRSRLFEAGAPGSKIVFTTRNLGVA-E-KMGPLPAYPLKELSNDDCLSVFSPHSLGEKDFSTHPSLKEIGEKIVKKC  311 (385)
Q Consensus       234 ~w~~l~~~l~~~~~gs~IivTTR~~~va-~-~~~~~~~~~l~~L~~~~a~~Lf~~~a~~~~~~~~~~~l~~~~~~i~~~c  311 (385)
                      .++.+...+.....+..+|+||+..... . .......+.+.+++.++...++...+..... .   --.+....|++.+
T Consensus       118 ~~~~l~~~l~~~~~~~~~i~~~~~~~~~~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~-~---~~~~~~~~l~~~~  193 (226)
T 2chg_A          118 AQAALRRTMEMYSKSCRFILSCNYVSRIIEPIQSRCAVFRFKPVPKEAMKKRLLEICEKEGV-K---ITEDGLEALIYIS  193 (226)
T ss_dssp             HHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHHTC-C---BCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCCCCeEEEEeCChhhcCHHHHHhCceeecCCCCHHHHHHHHHHHHHHcCC-C---CCHHHHHHHHHHc
Confidence            3445555555445677888888765321 1 1112236889999999999988876532111 1   1135667788999


Q ss_pred             CCChHHHHHHHHHh
Q 038448          312 NGLPLVAKSLGGLL  325 (385)
Q Consensus       312 ~glPLAi~~~~~~L  325 (385)
                      +|.|..+..+...+
T Consensus       194 ~g~~r~l~~~l~~~  207 (226)
T 2chg_A          194 GGDFRKAINALQGA  207 (226)
T ss_dssp             TTCHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHH
Confidence            99998665544433

>2qby_B CDC6 homolog 3, cell division control protein 6 homolog 3; winged-helix domain, helix-turn-helix, AAA+ ATPase domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A {Sulfolobus solfataricus}

Probab=98.50  E-value=9.8e-07  Score=83.42  Aligned_cols=157  Identities=12%  Similarity=0.048  Sum_probs=88.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcccccc----cc--ccceEEEEecCCC-CHHHHHHHHHHHhhcCCCCC---------
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSDVRVH----NH--FDLKAWTCVSEDF-DIIRVTKSILKSIASDQLVD---------  222 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~----~~--F~~~~wv~vs~~~-~~~~~~~~il~~l~~~~~~~---------  222 (385)
                      ..+.+.|+|++|+||||||+.+++...-.    ..  ....+|++.+... +...++..++.++.+.....         
T Consensus        44 ~~~~vll~G~~G~GKT~la~~l~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~  123 (384)
T 2qby_B           44 VKFSNLFLGLTGTGKTFVSKYIFNEIEEVKKEDEEYKDVKQAYVNCREVGGTPQAVLSSLAGKLTGFSVPKHGINLGEYI  123 (384)
T ss_dssp             CCCEEEEEECTTSSHHHHHHHHHHHHHHHHHHSSSSTTCEEEEEEHHHHCSCHHHHHHHHHHHHHCSCCCSSSSCTHHHH
T ss_pred             CCCcEEEECCCCCCHHHHHHHHHHHHHHHhhhhcCCCCceEEEEECccCCCCHHHHHHHHHHHhcCCCCCCCCCCHHHHH
Confidence            44689999999999999999998752111    01  2345677766655 67777777777763221100         


Q ss_pred             ------------ccchHHhhch--hhHhhH-hhhccCCCCCcEEEEEcCChhHHhhc------CCCCcccCCCCChhhHH
Q 038448          223 ------------DHDLNLLQKY--NDWTNR-SRLFEAGAPGSKIVFTTRNLGVAEKM------GPLPAYPLKELSNDDCL  281 (385)
Q Consensus       223 ------------~~~~~~l~~~--~~w~~l-~~~l~~~~~gs~IivTTR~~~va~~~------~~~~~~~l~~L~~~~a~  281 (385)
                                  .--+++++..  ..+... ...+.....+..||+||+.......+      .....+.+.+++.++..
T Consensus       124 ~~l~~~l~~~~~vlilDEi~~l~~~~~~~~~l~~l~~~~~~~~iI~~t~~~~~~~~l~~~l~sr~~~~i~l~~l~~~~~~  203 (384)
T 2qby_B          124 DKIKNGTRNIRAIIYLDEVDTLVKRRGGDIVLYQLLRSDANISVIMISNDINVRDYMEPRVLSSLGPSVIFKPYDAEQLK  203 (384)
T ss_dssp             HHHHHHHSSSCEEEEEETTHHHHHSTTSHHHHHHHHTSSSCEEEEEECSSTTTTTTSCHHHHHTCCCEEEECCCCHHHHH
T ss_pred             HHHHHHhccCCCEEEEECHHHhccCCCCceeHHHHhcCCcceEEEEEECCCchHhhhCHHHHhcCCCeEEECCCCHHHHH
Confidence                        0001111110  101112 22222222677889999865321111      11137899999999999


Q ss_pred             hhhhccc---cCCCCCCCCccHHHHHHHHHHHcC---CChH-HHHH
Q 038448          282 SVFSPHS---LGEKDFSTHPSLKEIGEKIVKKCN---GLPL-VAKS  320 (385)
Q Consensus       282 ~Lf~~~a---~~~~~~~~~~~l~~~~~~i~~~c~---glPL-Ai~~  320 (385)
                      .+|...+   |...  ..++   +....|++.|+   |.|. |+..
T Consensus       204 ~il~~~~~~~~~~~--~~~~---~~~~~i~~~~~~~~G~~r~a~~~  244 (384)
T 2qby_B          204 FILSKYAEYGLIKG--TYDD---EILSYIAAISAKEHGDARKAVNL  244 (384)
T ss_dssp             HHHHHHHHHTSCTT--SCCS---HHHHHHHHHHHTTCCCHHHHHHH
T ss_pred             HHHHHHHHhhcccC--CcCH---HHHHHHHHHHHhccCCHHHHHHH
Confidence            9998764   2211  1222   34566777776   8776 4433

>1fnn_A CDC6P, cell division control protein 6; ORC1, AAA protein, DNA replication initation factor, cell cycle control factor; HET: ADP; 2.00A {Pyrobaculum aerophilum} SCOP: a.4.5.11 c.37.1.20

Probab=98.45  E-value=3e-06  Score=80.14  Aligned_cols=154  Identities=11%  Similarity=0.023  Sum_probs=91.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhccccccccc-cceEEEEecCCCCHHHHHHHHHHHhhcCCCCCccc-------------
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSDVRVHNHF-DLKAWTCVSEDFDIIRVTKSILKSIASDQLVDDHD-------------  225 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F-~~~~wv~vs~~~~~~~~~~~il~~l~~~~~~~~~~-------------  225 (385)
                      .+.+.|+|++|+|||||++.+++.  ..... ...+|++.+...+...++..++..++.........             
T Consensus        44 ~~~~li~G~~G~GKTtl~~~l~~~--~~~~~~~~~~~i~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~l~~~l~  121 (389)
T 1fnn_A           44 YPRATLLGRPGTGKTVTLRKLWEL--YKDKTTARFVYINGFIYRNFTAIIGEIARSLNIPFPRRGLSRDEFLALLVEHLR  121 (389)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHH--HTTSCCCEEEEEETTTCCSHHHHHHHHHHHTTCCCCSSCCCHHHHHHHHHHHHH
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHH--HhhhcCeeEEEEeCccCCCHHHHHHHHHHHhCccCCCCCCCHHHHHHHHHHHHh
Confidence            348999999999999999999875  22221 23567776676777788888888775432111101             


Q ss_pred             ---------hHHhh--chhhHhhHhhhccCC-C---CCcEEEEEcCChhHHhhcC-------CCCcccCCCCChhhHHhh
Q 038448          226 ---------LNLLQ--KYNDWTNRSRLFEAG-A---PGSKIVFTTRNLGVAEKMG-------PLPAYPLKELSNDDCLSV  283 (385)
Q Consensus       226 ---------~~~l~--~~~~w~~l~~~l~~~-~---~gs~IivTTR~~~va~~~~-------~~~~~~l~~L~~~~a~~L  283 (385)
                               +|+++  +......+...+... .   .+..||+||+.......+.       ....+.+.+++.++...+
T Consensus       122 ~~~~~~vlilDE~~~l~~~~~~~L~~~~~~~~~~~~~~~~iI~~~~~~~~~~~l~~~~~~r~~~~~i~~~pl~~~~~~~~  201 (389)
T 1fnn_A          122 ERDLYMFLVLDDAFNLAPDILSTFIRLGQEADKLGAFRIALVIVGHNDAVLNNLDPSTRGIMGKYVIRFSPYTKDQIFDI  201 (389)
T ss_dssp             HTTCCEEEEEETGGGSCHHHHHHHHHHTTCHHHHSSCCEEEEEEESSTHHHHTSCHHHHHHHTTCEEECCCCBHHHHHHH
T ss_pred             hcCCeEEEEEECccccchHHHHHHHHHHHhCCCCCcCCEEEEEEECCchHHHHhCHHhhhcCCCceEEeCCCCHHHHHHH
Confidence                     11111  122233333333221 1   4667888887765443322       113689999999999998


Q ss_pred             hhccccCC-CCCCCCccHHHHHHHHHHHc---------CCChHHH
Q 038448          284 FSPHSLGE-KDFSTHPSLKEIGEKIVKKC---------NGLPLVA  318 (385)
Q Consensus       284 f~~~a~~~-~~~~~~~~l~~~~~~i~~~c---------~glPLAi  318 (385)
                      +...+... ...   .--.+....|++.+         +|.|-.+
T Consensus       202 l~~~~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~~~G~~r~~  243 (389)
T 1fnn_A          202 LLDRAKAGLAEG---SYSEDILQMIADITGAQTPLDTNRGDARLA  243 (389)
T ss_dssp             HHHHHHHHBCTT---SSCHHHHHHHHHHHSBSSTTCTTSCCHHHH
T ss_pred             HHHHHHhhcCCC---CCCHHHHHHHHHHHhhcccCCCCCCcHHHH
Confidence            87764210 011   11245677888888         7876443

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=98.44  E-value=1.6e-06  Score=81.84  Aligned_cols=167  Identities=13%  Similarity=0.090  Sum_probs=90.8

Q ss_pred             hhHHHHHHHHhcCCCCCCCCceEEEEEcCCCCcHHHHHHHHhcccccccc------ccceEEEEecCCCCHHHHHHHHHH
Q 038448          140 KEKEETVKLLLRDDLRTDDGLSVIPIIGTGRIGKTTLAQLAYSDVRVHNH------FDLKAWTCVSEDFDIIRVTKSILK  213 (385)
Q Consensus       140 ~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~------F~~~~wv~vs~~~~~~~~~~~il~  213 (385)
                      .+.+.+.+++....  .......+.|+|++|+||||||+.+++..  ...      -...+|++.....+...++..++.
T Consensus        26 ~~~~~l~~~l~~~~--~~~~~~~vll~G~~G~GKT~l~~~~~~~~--~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~l~~  101 (387)
T 2v1u_A           26 AELRRLAEVLAPAL--RGEKPSNALLYGLTGTGKTAVARLVLRRL--EARASSLGVLVKPIYVNARHRETPYRVASAIAE  101 (387)
T ss_dssp             HHHHHHHHTTGGGT--SSCCCCCEEECBCTTSSHHHHHHHHHHHH--HHHHHHHTCCEEEEEEETTTSCSHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHH--cCCCCCcEEEECCCCCCHHHHHHHHHHHH--HHHHhccCCCeEEEEEECCcCCCHHHHHHHHHH
Confidence            34445555553221  12345688999999999999999998752  221      123567777766677777777777


Q ss_pred             HhhcCCCCCccc----------------------hHHhhch--h--hHhhHhhhcc---CC--CCCcEEEEEcCChhH--
Q 038448          214 SIASDQLVDDHD----------------------LNLLQKY--N--DWTNRSRLFE---AG--APGSKIVFTTRNLGV--  260 (385)
Q Consensus       214 ~l~~~~~~~~~~----------------------~~~l~~~--~--~w~~l~~~l~---~~--~~gs~IivTTR~~~v--  260 (385)
                      +++.........                      +|+++..  .  ..+.+...+.   ..  ..+..+|.||+....  
T Consensus       102 ~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDEi~~l~~~~~~~~~l~~l~~~~~~~~~~~~~~~I~~t~~~~~~~  181 (387)
T 2v1u_A          102 AVGVRVPFTGLSVGEVYERLVKRLSRLRGIYIIVLDEIDFLPKRPGGQDLLYRITRINQELGDRVWVSLVGITNSLGFVE  181 (387)
T ss_dssp             HHSCCCCSSCCCHHHHHHHHHHHHTTSCSEEEEEEETTTHHHHSTTHHHHHHHHHHGGGCC-----CEEEEECSCSTTSS
T ss_pred             HhCCCCCCCCCCHHHHHHHHHHHHhccCCeEEEEEccHhhhcccCCCChHHHhHhhchhhcCCCceEEEEEEECCCchHh
Confidence            664422111000                      1111110  0  1122222221   11  345677888876532  


Q ss_pred             ------HhhcCCCCcccCCCCChhhHHhhhhccc---cCCCCCCCCccHHHHHHHHHHHcC---CChH
Q 038448          261 ------AEKMGPLPAYPLKELSNDDCLSVFSPHS---LGEKDFSTHPSLKEIGEKIVKKCN---GLPL  316 (385)
Q Consensus       261 ------a~~~~~~~~~~l~~L~~~~a~~Lf~~~a---~~~~~~~~~~~l~~~~~~i~~~c~---glPL  316 (385)
                            ...+. ...+.+.+++.++...++...+   +....  ..+   +....+++.++   |.|-
T Consensus       182 ~l~~~l~~r~~-~~~i~l~~l~~~~~~~il~~~~~~~~~~~~--~~~---~~~~~l~~~~~~~~G~~r  243 (387)
T 2v1u_A          182 NLEPRVKSSLG-EVELVFPPYTAPQLRDILETRAEEAFNPGV--LDP---DVVPLCAALAAREHGDAR  243 (387)
T ss_dssp             SSCHHHHTTTT-SEECCBCCCCHHHHHHHHHHHHHHHBCTTT--BCS---SHHHHHHHHHHSSSCCHH
T ss_pred             hhCHHHHhcCC-CeEEeeCCCCHHHHHHHHHHHHHhhccCCC--CCH---HHHHHHHHHHHHhccCHH
Confidence                  11111 1368899999999999998764   22211  122   34556777777   9983

>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=98.44  E-value=1.5e-07  Score=87.01  Aligned_cols=154  Identities=15%  Similarity=0.038  Sum_probs=78.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecCCCCHHHHHHHHHHHhhcCCCCCccchHHhh--chhhHhh
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDFDIIRVTKSILKSIASDQLVDDHDLNLLQ--KYNDWTN  237 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~il~~l~~~~~~~~~~~~~l~--~~~~w~~  237 (385)
                      ...+.|+|++|+|||+||+.+++.  ...   ...+++.+.......+...+...+...   ..--++++.  .......
T Consensus        38 ~~~vll~G~~GtGKT~la~~i~~~--~~~---~~~~~~~~~~~~~~~l~~~l~~~~~~~---~~l~lDEi~~l~~~~~~~  109 (324)
T 1hqc_A           38 LEHLLLFGPPGLGKTTLAHVIAHE--LGV---NLRVTSGPAIEKPGDLAAILANSLEEG---DILFIDEIHRLSRQAEEH  109 (324)
T ss_dssp             CCCCEEECCTTCCCHHHHHHHHHH--HTC---CEEEECTTTCCSHHHHHHHHTTTCCTT---CEEEETTTTSCCHHHHHH
T ss_pred             CCcEEEECCCCCCHHHHHHHHHHH--hCC---CEEEEeccccCChHHHHHHHHHhccCC---CEEEEECCcccccchHHH
Confidence            356889999999999999999874  222   223454443333333332211101111   111122222  1111222


Q ss_pred             HhhhccCC------------------CCCcEEEEEcCChh-HHhhcC-C-CCcccCCCCChhhHHhhhhccccCCCCCCC
Q 038448          238 RSRLFEAG------------------APGSKIVFTTRNLG-VAEKMG-P-LPAYPLKELSNDDCLSVFSPHSLGEKDFST  296 (385)
Q Consensus       238 l~~~l~~~------------------~~gs~IivTTR~~~-va~~~~-~-~~~~~l~~L~~~~a~~Lf~~~a~~~~~~~~  296 (385)
                      +...+...                  .++..+|.||.... +...+. . ...+.+.+++.++...++...+.... ...
T Consensus       110 L~~~l~~~~~~~v~~~~~~~~~~~~~~~~~~~i~~t~~~~~~~~~l~~R~~~~i~l~~~~~~e~~~~l~~~~~~~~-~~~  188 (324)
T 1hqc_A          110 LYPAMEDFVMDIVIGQGPAARTIRLELPRFTLIGATTRPGLITAPLLSRFGIVEHLEYYTPEELAQGVMRDARLLG-VRI  188 (324)
T ss_dssp             HHHHHHHSEEEECCSSSSSCCCEEEECCCCEEEEEESCCSSCSCSTTTTCSCEEECCCCCHHHHHHHHHHHHHTTT-CCC
T ss_pred             HHHHHHhhhhHHhccccccccccccCCCCEEEEEeCCCcccCCHHHHhcccEEEecCCCCHHHHHHHHHHHHHhcC-CCC
Confidence            22221110                  12345676665432 111111 1 14688999999998888876643211 111


Q ss_pred             CccHHHHHHHHHHHcCCChHHHHHHHHHh
Q 038448          297 HPSLKEIGEKIVKKCNGLPLVAKSLGGLL  325 (385)
Q Consensus       297 ~~~l~~~~~~i~~~c~glPLAi~~~~~~L  325 (385)
                         -.+....++..|+|.|-.+..+...+
T Consensus       189 ---~~~~~~~l~~~~~G~~r~l~~~l~~~  214 (324)
T 1hqc_A          189 ---TEEAALEIGRRSRGTMRVAKRLFRRV  214 (324)
T ss_dssp             ---CHHHHHHHHHHSCSCHHHHHHHHHHH
T ss_pred             ---CHHHHHHHHHHccCCHHHHHHHHHHH
Confidence               13556778888999997776655443

>2qby_A CDC6 homolog 1, cell division control protein 6 homolog 1; winged-helix domain, helix-turn-helix, AAA+ ATPase domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A {Sulfolobus solfataricus}

Probab=98.43  E-value=8e-07  Score=83.82  Aligned_cols=155  Identities=14%  Similarity=0.087  Sum_probs=83.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhccccccccc---cceEEEEecCCCCHHHHHHHHHHHhhcCCC---------------
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSDVRVHNHF---DLKAWTCVSEDFDIIRVTKSILKSIASDQL---------------  220 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F---~~~~wv~vs~~~~~~~~~~~il~~l~~~~~---------------  220 (385)
                      ....+.|+|++|+||||||+.+++.  ....+   ...+|++.....+...++..++.+++....               
T Consensus        44 ~~~~vli~G~~G~GKTtl~~~l~~~--~~~~~~~~~~~~~i~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~l~~  121 (386)
T 2qby_A           44 KPNNIFIYGLTGTGKTAVVKFVLSK--LHKKFLGKFKHVYINTRQIDTPYRVLADLLESLDVKVPFTGLSIAELYRRLVK  121 (386)
T ss_dssp             CCCCEEEEECTTSSHHHHHHHHHHH--HHHHTCSSCEEEEEEHHHHCSHHHHHHHHTTTTSCCCCSSSCCHHHHHHHHHH
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHH--HHHHhcCCceEEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHH
Confidence            4568999999999999999999875  33332   235677655444444444444443322110               


Q ss_pred             -------C---CccchHHhhc---hhhHhhHhhhccC-CCCCcEEEEEcCChhHHhhcCC-------CCcccCCCCChhh
Q 038448          221 -------V---DDHDLNLLQK---YNDWTNRSRLFEA-GAPGSKIVFTTRNLGVAEKMGP-------LPAYPLKELSNDD  279 (385)
Q Consensus       221 -------~---~~~~~~~l~~---~~~w~~l~~~l~~-~~~gs~IivTTR~~~va~~~~~-------~~~~~l~~L~~~~  279 (385)
                             .   ..++.+.+..   .+.+..+...+.. ...+..+|+||+.......+..       ...+.+.+++.++
T Consensus       122 ~l~~~~~~~vlilDE~~~l~~~~~~~~l~~l~~~~~~~~~~~~~~I~~~~~~~~~~~~~~~~~~r~~~~~i~l~~l~~~~  201 (386)
T 2qby_A          122 AVRDYGSQVVIVLDEIDAFVKKYNDDILYKLSRINSEVNKSKISFIGITNDVKFVDLLDPRVKSSLSEEEIIFPPYNAEE  201 (386)
T ss_dssp             HHHTCCSCEEEEEETHHHHHHSSCSTHHHHHHHHHHSCCC--EEEEEEESCGGGGGGCTTHHHHTTTTEEEEECCCCHHH
T ss_pred             HHhccCCeEEEEEcChhhhhccCcCHHHHHHhhchhhcCCCeEEEEEEECCCChHhhhCHHHhccCCCeeEEeCCCCHHH
Confidence                   0   1111222111   2223333333321 2335567888886644322211       1368999999999


Q ss_pred             HHhhhhccccC-CCCCCCCccHHHHHHHHHHHcC---CChHHH
Q 038448          280 CLSVFSPHSLG-EKDFSTHPSLKEIGEKIVKKCN---GLPLVA  318 (385)
Q Consensus       280 a~~Lf~~~a~~-~~~~~~~~~l~~~~~~i~~~c~---glPLAi  318 (385)
                      ...++...+.. .......   .+....+++.++   |.|..+
T Consensus       202 ~~~il~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~G~~r~~  241 (386)
T 2qby_A          202 LEDILTKRAQMAFKPGVLP---DNVIKLCAALAAREHGDARRA  241 (386)
T ss_dssp             HHHHHHHHHHHHBCSSCSC---HHHHHHHHHHHHHTTCCHHHH
T ss_pred             HHHHHHHHHHhhccCCCCC---HHHHHHHHHHHHHhcCCHHHH
Confidence            99999875321 0011111   345566677776   888743

>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=98.37  E-value=1.1e-06  Score=80.78  Aligned_cols=157  Identities=17%  Similarity=0.092  Sum_probs=88.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcccccccccc-ceEEEEecCCCCHHHHHHHHHHHhhcC--C--C--CCccchHHhh--ch
Q 038448          162 VIPIIGTGRIGKTTLAQLAYSDVRVHNHFD-LKAWTCVSEDFDIIRVTKSILKSIASD--Q--L--VDDHDLNLLQ--KY  232 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~-~~~wv~vs~~~~~~~~~~~il~~l~~~--~--~--~~~~~~~~l~--~~  232 (385)
                      .+.++|++|+||||+|+.+++... ...+. ..++++.+...+. ..+.+++..+...  .  .  ...--+++++  ..
T Consensus        44 ~~ll~G~~G~GKt~la~~l~~~l~-~~~~~~~~~~~~~~~~~~~-~~i~~~~~~~~~~~~~~~~~~~~viiiDe~~~l~~  121 (323)
T 1sxj_B           44 HMIISGMPGIGKTTSVHCLAHELL-GRSYADGVLELNASDDRGI-DVVRNQIKHFAQKKLHLPPGKHKIVILDEADSMTA  121 (323)
T ss_dssp             CEEEECSTTSSHHHHHHHHHHHHH-GGGHHHHEEEECTTSCCSH-HHHHTHHHHHHHBCCCCCTTCCEEEEEESGGGSCH
T ss_pred             eEEEECcCCCCHHHHHHHHHHHhc-CCcccCCEEEecCccccCh-HHHHHHHHHHHhccccCCCCCceEEEEECcccCCH
Confidence            389999999999999999987521 11121 2344544443343 3344445444311  0  0  0111122222  22


Q ss_pred             hhHhhHhhhccCCCCCcEEEEEcCChhH-Hhh-cCCCCcccCCCCChhhHHhhhhccccCCCCCCCCccHHHHHHHHHHH
Q 038448          233 NDWTNRSRLFEAGAPGSKIVFTTRNLGV-AEK-MGPLPAYPLKELSNDDCLSVFSPHSLGEKDFSTHPSLKEIGEKIVKK  310 (385)
Q Consensus       233 ~~w~~l~~~l~~~~~gs~IivTTR~~~v-a~~-~~~~~~~~l~~L~~~~a~~Lf~~~a~~~~~~~~~~~l~~~~~~i~~~  310 (385)
                      ..++.+...+.....++.+|+||....- ... ......+.+.+++.++...++...+.... ..   --.+....|++.
T Consensus       122 ~~~~~L~~~le~~~~~~~~il~~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~-~~---~~~~~~~~l~~~  197 (323)
T 1sxj_B          122 GAQQALRRTMELYSNSTRFAFACNQSNKIIEPLQSQCAILRYSKLSDEDVLKRLLQIIKLED-VK---YTNDGLEAIIFT  197 (323)
T ss_dssp             HHHHTTHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHHT-CC---BCHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccCCCceEEEEeCChhhchhHHHhhceEEeecCCCHHHHHHHHHHHHHHcC-CC---CCHHHHHHHHHH
Confidence            3445555555544567788888865431 111 12224789999999999999887542111 01   113566789999


Q ss_pred             cCCChH-HHHHHHHH
Q 038448          311 CNGLPL-VAKSLGGL  324 (385)
Q Consensus       311 c~glPL-Ai~~~~~~  324 (385)
                      |+|.|. |+..+...
T Consensus       198 ~~G~~r~a~~~l~~~  212 (323)
T 1sxj_B          198 AEGDMRQAINNLQST  212 (323)
T ss_dssp             HTTCHHHHHHHHHHH
T ss_pred             cCCCHHHHHHHHHHH
Confidence            999995 45544443

>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=98.02  E-value=1.6e-05  Score=73.05  Aligned_cols=157  Identities=14%  Similarity=0.063  Sum_probs=84.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhccccccccc-cceEEEEecCCCCHHHHHHHHHHHhhcCC-----CCCccchHHhh--ch
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSDVRVHNHF-DLKAWTCVSEDFDIIRVTKSILKSIASDQ-----LVDDHDLNLLQ--KY  232 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F-~~~~wv~vs~~~~~~~~~~~il~~l~~~~-----~~~~~~~~~l~--~~  232 (385)
                      ..+.++|++|+||||+|+.+++... ...+ ...+.+..+...+. ..+...+..+....     ....--++++.  ..
T Consensus        47 ~~~ll~G~~G~GKT~la~~l~~~l~-~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~vliiDe~~~l~~  124 (327)
T 1iqp_A           47 PHLLFAGPPGVGKTTAALALARELF-GENWRHNFLELNASDERGI-NVIREKVKEFARTKPIGGASFKIIFLDEADALTQ  124 (327)
T ss_dssp             CEEEEESCTTSSHHHHHHHHHHHHH-GGGHHHHEEEEETTCHHHH-HTTHHHHHHHHHSCCGGGCSCEEEEEETGGGSCH
T ss_pred             CeEEEECcCCCCHHHHHHHHHHHhc-CCcccCceEEeeccccCch-HHHHHHHHHHHhhCCcCCCCCeEEEEeCCCcCCH
Confidence            3489999999999999999987521 1111 12233333322111 11222222221110     00111122222  23


Q ss_pred             hhHhhHhhhccCCCCCcEEEEEcCChhH-Hhhc-CCCCcccCCCCChhhHHhhhhccccCCCCCCCCccHHHHHHHHHHH
Q 038448          233 NDWTNRSRLFEAGAPGSKIVFTTRNLGV-AEKM-GPLPAYPLKELSNDDCLSVFSPHSLGEKDFSTHPSLKEIGEKIVKK  310 (385)
Q Consensus       233 ~~w~~l~~~l~~~~~gs~IivTTR~~~v-a~~~-~~~~~~~l~~L~~~~a~~Lf~~~a~~~~~~~~~~~l~~~~~~i~~~  310 (385)
                      +.++.+...+.....++++|+||....- ...+ .....+.+.+++.++...++...+....-    .--.+....|++.
T Consensus       125 ~~~~~L~~~le~~~~~~~~i~~~~~~~~l~~~l~sr~~~~~~~~l~~~~~~~~l~~~~~~~~~----~~~~~~~~~l~~~  200 (327)
T 1iqp_A          125 DAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQSRCAIFRFRPLRDEDIAKRLRYIAENEGL----ELTEEGLQAILYI  200 (327)
T ss_dssp             HHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHTEEEEECCCCCHHHHHHHHHHHHHTTTC----EECHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCCCCeEEEEeCCccccCHHHHhhCcEEEecCCCHHHHHHHHHHHHHhcCC----CCCHHHHHHHHHH
Confidence            3455566555554567788888876431 1111 11136889999999999888766432111    1113566788999


Q ss_pred             cCCChHHHHHHHH
Q 038448          311 CNGLPLVAKSLGG  323 (385)
Q Consensus       311 c~glPLAi~~~~~  323 (385)
                      ++|.|..+..+..
T Consensus       201 ~~g~~r~~~~~l~  213 (327)
T 1iqp_A          201 AEGDMRRAINILQ  213 (327)
T ss_dssp             HTTCHHHHHHHHH
T ss_pred             CCCCHHHHHHHHH
Confidence            9999986655443

>3bos_A Putative DNA replication factor; P-loop containing nucleoside triphosphate hydrolases, struct genomics; HET: MSE CDP; 1.75A {Shewanella amazonensis} PDB: 3sc3_A

Probab=97.97  E-value=6.7e-06  Score=72.02  Aligned_cols=156  Identities=12%  Similarity=0.153  Sum_probs=81.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecCCCCHHHHHHHHHHHhhcCCCCCccchHHhhchhhH-hhH
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDFDIIRVTKSILKSIASDQLVDDHDLNLLQKYNDW-TNR  238 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~il~~l~~~~~~~~~~~~~l~~~~~w-~~l  238 (385)
                      ...+.|+|++|+||||||+.+++.  .........|++.+...+.   +..++..+.....-..++.+.+.....| +.+
T Consensus        52 ~~~~ll~G~~G~GKT~la~~l~~~--~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~vliiDe~~~~~~~~~~~~~l  126 (242)
T 3bos_A           52 VQAIYLWGPVKSGRTHLIHAACAR--ANELERRSFYIPLGIHASI---STALLEGLEQFDLICIDDVDAVAGHPLWEEAI  126 (242)
T ss_dssp             CSEEEEECSTTSSHHHHHHHHHHH--HHHTTCCEEEEEGGGGGGS---CGGGGTTGGGSSEEEEETGGGGTTCHHHHHHH
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHH--HHHcCCeEEEEEHHHHHHH---HHHHHHhccCCCEEEEeccccccCCHHHHHHH
Confidence            467889999999999999999875  2222334567765542110   1111111211111012223332222222 222


Q ss_pred             hhhccC-CCCCc-EEEEEcCChh---------HHhhcCCCCcccCCCCChhhHHhhhhccccCCCCCCCCccHHHHHHHH
Q 038448          239 SRLFEA-GAPGS-KIVFTTRNLG---------VAEKMGPLPAYPLKELSNDDCLSVFSPHSLGEKDFSTHPSLKEIGEKI  307 (385)
Q Consensus       239 ~~~l~~-~~~gs-~IivTTR~~~---------va~~~~~~~~~~l~~L~~~~a~~Lf~~~a~~~~~~~~~~~l~~~~~~i  307 (385)
                      ...+.. ...+. ++|+||+...         +...+.....+.+.+++.++...++...+.... ...   -.+....|
T Consensus       127 ~~~l~~~~~~~~~~ii~~~~~~~~~~~~~~~~l~~r~~~~~~i~l~~~~~~~~~~~l~~~~~~~~-~~~---~~~~~~~l  202 (242)
T 3bos_A          127 FDLYNRVAEQKRGSLIVSASASPMEAGFVLPDLVSRMHWGLTYQLQPMMDDEKLAALQRRAAMRG-LQL---PEDVGRFL  202 (242)
T ss_dssp             HHHHHHHHHHCSCEEEEEESSCTTTTTCCCHHHHHHHHHSEEEECCCCCGGGHHHHHHHHHHHTT-CCC---CHHHHHHH
T ss_pred             HHHHHHHHHcCCCeEEEEcCCCHHHHHHhhhhhhhHhhcCceEEeCCCCHHHHHHHHHHHHHHcC-CCC---CHHHHHHH
Confidence            222211 01122 4777776322         222221225688999999999998877652111 111   14566788


Q ss_pred             HHHcCCChHHHHHHHHH
Q 038448          308 VKKCNGLPLVAKSLGGL  324 (385)
Q Consensus       308 ~~~c~glPLAi~~~~~~  324 (385)
                      ++.++|.+-.+..+...
T Consensus       203 ~~~~~g~~r~l~~~l~~  219 (242)
T 3bos_A          203 LNRMARDLRTLFDVLDR  219 (242)
T ss_dssp             HHHTTTCHHHHHHHHHH
T ss_pred             HHHccCCHHHHHHHHHH
Confidence            89999988766654443

>2chq_A Replication factor C small subunit; DNA-binding protein, DNA replication, clamp loader, AAA+ ATP ATP-binding, nucleotide-binding; HET: ANP; 3.5A {Archaeoglobus fulgidus} PDB: 2chv_A

Probab=97.72  E-value=0.0001  Score=67.35  Aligned_cols=157  Identities=11%  Similarity=0.021  Sum_probs=83.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcccccccccc-ceEEEEecCCCC---HHHHHHHHHHHhhcC-CCCCccchHHhh--chh
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSDVRVHNHFD-LKAWTCVSEDFD---IIRVTKSILKSIASD-QLVDDHDLNLLQ--KYN  233 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~-~~~wv~vs~~~~---~~~~~~~il~~l~~~-~~~~~~~~~~l~--~~~  233 (385)
                      ..+.++|++|+|||++|+.+.+... ...+. ..+.++.+....   ....+.......... .....--+++..  ...
T Consensus        39 ~~~ll~G~~G~GKt~la~~l~~~l~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~  117 (319)
T 2chq_A           39 PHLLFSGPPGTGKTATAIALARDLF-GENWRDNFIEMNASDERGIDVVRHKIKEFARTAPIGGAPFKIIFLDEADALTAD  117 (319)
T ss_dssp             CCEEEESSSSSSHHHHHHHHHHHHH-TTCHHHHCEEEETTSTTCTTTSSHHHHHHHHSCCSSSCCCEEEEEETGGGSCHH
T ss_pred             CeEEEECcCCcCHHHHHHHHHHHhc-CCcccCCeEEEeCccccChHHHHHHHHHHHhcCCCCCCCceEEEEeCCCcCCHH
Confidence            3489999999999999999887420 11111 123344433222   222333332111110 000111122222  223


Q ss_pred             hHhhHhhhccCCCCCcEEEEEcCChh-HHhh-cCCCCcccCCCCChhhHHhhhhccccCCCCCCCCccHHHHHHHHHHHc
Q 038448          234 DWTNRSRLFEAGAPGSKIVFTTRNLG-VAEK-MGPLPAYPLKELSNDDCLSVFSPHSLGEKDFSTHPSLKEIGEKIVKKC  311 (385)
Q Consensus       234 ~w~~l~~~l~~~~~gs~IivTTR~~~-va~~-~~~~~~~~l~~L~~~~a~~Lf~~~a~~~~~~~~~~~l~~~~~~i~~~c  311 (385)
                      ..+.+...+.....++.+|+||.... +... ......+.+.+++.++...++...+.... ..   --.+....++..+
T Consensus       118 ~~~~L~~~le~~~~~~~~i~~~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~-~~---i~~~~l~~l~~~~  193 (319)
T 2chq_A          118 AQAALRRTMEMYSKSCRFILSCNYVSRIIEPIQSRCAVFRFKPVPKEAMKKRLLEICEKEG-VK---ITEDGLEALIYIS  193 (319)
T ss_dssp             HHHTTGGGTSSSSSSEEEEEEESCGGGSCHHHHTTCEEEECCCCCHHHHHHHHHHHHHTTC-CC---BCHHHHHHHHHTT
T ss_pred             HHHHHHHHHHhcCCCCeEEEEeCChhhcchHHHhhCeEEEecCCCHHHHHHHHHHHHHHcC-CC---CCHHHHHHHHHHc
Confidence            34556656655456778888876543 1111 12224689999999999888876542211 11   1135567788899


Q ss_pred             CCChHHHHHHH
Q 038448          312 NGLPLVAKSLG  322 (385)
Q Consensus       312 ~glPLAi~~~~  322 (385)
                      +|.|..+....
T Consensus       194 ~G~~r~~~~~l  204 (319)
T 2chq_A          194 GGDFRKAINAL  204 (319)
T ss_dssp             TTCHHHHHHHH
T ss_pred             CCCHHHHHHHH
Confidence            99987655443

>2z4s_A Chromosomal replication initiator protein DNAA; AAA+ ATPase, domain III (ATPase domain), ATP-binding, cytoplasm, DNA replication; HET: ADP; 3.00A {Thermotoga maritima} PDB: 2z4r_A*

Probab=97.69  E-value=6.2e-05  Score=72.55  Aligned_cols=149  Identities=13%  Similarity=0.055  Sum_probs=80.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhcccccccccc--ceEEEEecCCCCHHHHHHHHHHHhhcC-----------CC--CCcc
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFD--LKAWTCVSEDFDIIRVTKSILKSIASD-----------QL--VDDH  224 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~--~~~wv~vs~~~~~~~~~~~il~~l~~~-----------~~--~~~~  224 (385)
                      ...+.|+|++|+||||||+.+++.  ....|.  ..++++...      +..++...+...           ..  --.+
T Consensus       130 ~~~lll~Gp~G~GKTtLa~aia~~--l~~~~~~~~v~~v~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~~vL~ID  201 (440)
T 2z4s_A          130 YNPLFIYGGVGLGKTHLLQSIGNY--VVQNEPDLRVMYITSEK------FLNDLVDSMKEGKLNEFREKYRKKVDILLID  201 (440)
T ss_dssp             SCCEEEECSSSSSHHHHHHHHHHH--HHHHCCSSCEEEEEHHH------HHHHHHHHHHTTCHHHHHHHHTTTCSEEEEE
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHH--HHHhCCCCeEEEeeHHH------HHHHHHHHHHcccHHHHHHHhcCCCCEEEEe
Confidence            567899999999999999999885  333332  234554332      223333222211           11  0112


Q ss_pred             chHHhhch-hhHhhHhhhccC-CCCCcEEEEEcCCh---------hHHhhcCCCCcccCCCCChhhHHhhhhccccCCCC
Q 038448          225 DLNLLQKY-NDWTNRSRLFEA-GAPGSKIVFTTRNL---------GVAEKMGPLPAYPLKELSNDDCLSVFSPHSLGEKD  293 (385)
Q Consensus       225 ~~~~l~~~-~~w~~l~~~l~~-~~~gs~IivTTR~~---------~va~~~~~~~~~~l~~L~~~~a~~Lf~~~a~~~~~  293 (385)
                      +.+.+... ...+.+...+.. ...|..||+||...         .+...+.....+.+.+++.++-..++...+.... 
T Consensus       202 Ei~~l~~~~~~q~~l~~~l~~l~~~~~~iIitt~~~~~~l~~l~~~L~sR~~~g~~i~l~~p~~e~r~~iL~~~~~~~~-  280 (440)
T 2z4s_A          202 DVQFLIGKTGVQTELFHTFNELHDSGKQIVICSDREPQKLSEFQDRLVSRFQMGLVAKLEPPDEETRKSIARKMLEIEH-  280 (440)
T ss_dssp             CGGGGSSCHHHHHHHHHHHHHHHTTTCEEEEEESSCGGGCSSCCHHHHHHHHSSBCCBCCCCCHHHHHHHHHHHHHHHT-
T ss_pred             CcccccCChHHHHHHHHHHHHHHHCCCeEEEEECCCHHHHHHHHHHHHhhccCCeEEEeCCCCHHHHHHHHHHHHHHcC-
Confidence            22222221 122223333321 23567888888752         2333343345688999999999988877652111 


Q ss_pred             CCCCccHHHHHHHHHHHcCCChHHHHH
Q 038448          294 FSTHPSLKEIGEKIVKKCNGLPLVAKS  320 (385)
Q Consensus       294 ~~~~~~l~~~~~~i~~~c~glPLAi~~  320 (385)
                      ...++   +....|+..+.|.+-.+.-
T Consensus       281 ~~i~~---e~l~~la~~~~gn~R~l~~  304 (440)
T 2z4s_A          281 GELPE---EVLNFVAENVDDNLRRLRG  304 (440)
T ss_dssp             CCCCT---THHHHHHHHCCSCHHHHHH
T ss_pred             CCCCH---HHHHHHHHhcCCCHHHHHH
Confidence            11122   3356677888887755443

>1jr3_A DNA polymerase III subunit gamma; processivity, processivity clamp, clamp loader, AAA+ ATPase, transferase; HET: DNA; 2.70A {Escherichia coli} SCOP: a.80.1.1 c.37.1.20 PDB: 1xxh_B* 3glh_B* 3glf_B* 3gli_B* 3glg_B* 1xxi_B*

Probab=97.68  E-value=0.00025  Score=66.40  Aligned_cols=158  Identities=13%  Similarity=0.105  Sum_probs=85.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcccccccc-------------------ccceEEEEecCCCCHHHHHHHHHHHhhcCCCC
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSDVRVHNH-------------------FDLKAWTCVSEDFDIIRVTKSILKSIASDQLV  221 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~-------------------F~~~~wv~vs~~~~~~~~~~~il~~l~~~~~~  221 (385)
                      ..+.|+|++|+||||+|+.+.+.......                   +...+.+..+.... ...+..++..+......
T Consensus        39 ~~~ll~G~~G~GKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~  117 (373)
T 1jr3_A           39 HAYLFSGTRGVGKTSIARLLAKGLNCETGITATPCGVCDNCREIEQGRFVDLIEIDAASRTK-VEDTRDLLDNVQYAPAR  117 (373)
T ss_dssp             SEEEEESCTTSSHHHHHHHHHHHHSCTTCSCSSCCSSSHHHHHHHTSCCSSCEEEETTCSCC-SSCHHHHHHHTTSCCSS
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCcccHHHHHHhccCCCceEEecccccCC-HHHHHHHHHHHhhcccc
Confidence            57889999999999999988764211110                   00123333222111 11233444444322110


Q ss_pred             ---CccchHHhh--chhhHhhHhhhccCCCCCcEEEEEcCChh-HHhh-cCCCCcccCCCCChhhHHhhhhccccCCCCC
Q 038448          222 ---DDHDLNLLQ--KYNDWTNRSRLFEAGAPGSKIVFTTRNLG-VAEK-MGPLPAYPLKELSNDDCLSVFSPHSLGEKDF  294 (385)
Q Consensus       222 ---~~~~~~~l~--~~~~w~~l~~~l~~~~~gs~IivTTR~~~-va~~-~~~~~~~~l~~L~~~~a~~Lf~~~a~~~~~~  294 (385)
                         ..--+++++  ....++.+...+.....+..+|++|.... +... ......+.+.+++.++...++...+-... .
T Consensus       118 ~~~~vliiDe~~~l~~~~~~~Ll~~le~~~~~~~~Il~~~~~~~l~~~l~sr~~~i~~~~l~~~~~~~~l~~~~~~~~-~  196 (373)
T 1jr3_A          118 GRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTILSRCLQFHLKALDVEQIRHQLEHILNEEH-I  196 (373)
T ss_dssp             SSSEEEEEECGGGSCHHHHHHHHHHHHSCCSSEEEEEEESCGGGSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHHT-C
T ss_pred             CCeEEEEEECcchhcHHHHHHHHHHHhcCCCceEEEEEeCChHhCcHHHHhheeEeeCCCCCHHHHHHHHHHHHHHcC-C
Confidence               011122222  23345556666655455667777776432 1111 12225688999999999888876542111 1


Q ss_pred             CCCccHHHHHHHHHHHcCCChHHHHHHHH
Q 038448          295 STHPSLKEIGEKIVKKCNGLPLVAKSLGG  323 (385)
Q Consensus       295 ~~~~~l~~~~~~i~~~c~glPLAi~~~~~  323 (385)
                      .   --.+....|++.++|.|..+..+..
T Consensus       197 ~---~~~~a~~~l~~~~~G~~r~~~~~l~  222 (373)
T 1jr3_A          197 A---HEPRALQLLARAAEGSLRDALSLTD  222 (373)
T ss_dssp             C---BCHHHHHHHHHHSSSCHHHHHHHHH
T ss_pred             C---CCHHHHHHHHHHCCCCHHHHHHHHH
Confidence            1   1134567899999999987766543

>1sxj_D Activator 1 41 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=97.50  E-value=0.00039  Score=64.51  Aligned_cols=173  Identities=13%  Similarity=0.066  Sum_probs=88.1

Q ss_pred             hhhHHHHHHHHhcCCCCCCCCceEEEEEcCCCCcHHHHHHHHhcccccccccc-ceEEEEecCCCCHHHHHHHHHHHhhc
Q 038448          139 DKEKEETVKLLLRDDLRTDDGLSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFD-LKAWTCVSEDFDIIRVTKSILKSIAS  217 (385)
Q Consensus       139 ~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~-~~~wv~vs~~~~~~~~~~~il~~l~~  217 (385)
                      +..++.+..++...      ....+.++|++|+||||+|+.+.+.......+. ....++.+....... +.+.+..+..
T Consensus        43 ~~~~~~l~~~l~~~------~~~~~ll~G~~G~GKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~  115 (353)
T 1sxj_D           43 DHAVTVLKKTLKSA------NLPHMLFYGPPGTGKTSTILALTKELYGPDLMKSRILELNASDERGISI-VREKVKNFAR  115 (353)
T ss_dssp             CTTHHHHHHHTTCT------TCCCEEEECSTTSSHHHHHHHHHHHHHHHHHHTTSEEEECSSSCCCHHH-HTTHHHHHHH
T ss_pred             HHHHHHHHHHHhcC------CCCEEEEECCCCCCHHHHHHHHHHHhCCCcccccceEEEccccccchHH-HHHHHHHHhh
Confidence            33445555555332      223388999999999999999987521111121 123333333223322 2222222221


Q ss_pred             CC---------------CCCccchHHhh--chhhHhhHhhhccCCCCCcEEEEEcCChh-HHhhc-CCCCcccCCCCChh
Q 038448          218 DQ---------------LVDDHDLNLLQ--KYNDWTNRSRLFEAGAPGSKIVFTTRNLG-VAEKM-GPLPAYPLKELSND  278 (385)
Q Consensus       218 ~~---------------~~~~~~~~~l~--~~~~w~~l~~~l~~~~~gs~IivTTR~~~-va~~~-~~~~~~~l~~L~~~  278 (385)
                      ..               ....--++++.  .......+...+.......++|++|.... +...+ .....+.+.+++.+
T Consensus       116 ~~~~~~~~~~~~~~~~~~~~vliiDE~~~l~~~~~~~Ll~~le~~~~~~~~il~~~~~~~l~~~l~sR~~~i~~~~~~~~  195 (353)
T 1sxj_D          116 LTVSKPSKHDLENYPCPPYKIIILDEADSMTADAQSALRRTMETYSGVTRFCLICNYVTRIIDPLASQCSKFRFKALDAS  195 (353)
T ss_dssp             SCCCCCCTTHHHHSCCCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHHSEEEECCCCCHH
T ss_pred             hcccccchhhcccCCCCCceEEEEECCCccCHHHHHHHHHHHHhcCCCceEEEEeCchhhCcchhhccCceEEeCCCCHH
Confidence            10               00011122222  22233445544444445567777775432 11111 11136789999999


Q ss_pred             hHHhhhhccccCCCCCCCCccHHHHHHHHHHHcCCChHHHHHHH
Q 038448          279 DCLSVFSPHSLGEKDFSTHPSLKEIGEKIVKKCNGLPLVAKSLG  322 (385)
Q Consensus       279 ~a~~Lf~~~a~~~~~~~~~~~l~~~~~~i~~~c~glPLAi~~~~  322 (385)
                      +....+...+.... ...+   .+....|++.++|.|-.+..+.
T Consensus       196 ~~~~~l~~~~~~~~-~~i~---~~~l~~l~~~~~G~~r~~~~~l  235 (353)
T 1sxj_D          196 NAIDRLRFISEQEN-VKCD---DGVLERILDISAGDLRRGITLL  235 (353)
T ss_dssp             HHHHHHHHHHHTTT-CCCC---HHHHHHHHHHTSSCHHHHHHHH
T ss_pred             HHHHHHHHHHHHhC-CCCC---HHHHHHHHHHcCCCHHHHHHHH
Confidence            98888876542211 1111   4567889999999998655443

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=97.48  E-value=0.00014  Score=60.87  Aligned_cols=38  Identities=24%  Similarity=0.297  Sum_probs=27.5

Q ss_pred             hhHHHHHHHHhcCCCCCCCCceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          140 KEKEETVKLLLRDDLRTDDGLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       140 ~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ...+.+.+++..      .....+.|+|++|+|||+||+.+++.
T Consensus        29 ~~~~~l~~~l~~------~~~~~~ll~G~~G~GKT~l~~~~~~~   66 (195)
T 1jbk_A           29 EEIRRTIQVLQR------RTKNNPVLIGEPGVGKTAIVEGLAQR   66 (195)
T ss_dssp             HHHHHHHHHHTS------SSSCEEEEECCTTSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhc------CCCCceEEECCCCCCHHHHHHHHHHH
Confidence            344555555533      23356789999999999999998874

>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=97.48  E-value=0.0019  Score=59.61  Aligned_cols=150  Identities=9%  Similarity=0.015  Sum_probs=85.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhcccccc--------------------ccccceEEEEec---CCCCHHHHHHHHHHHhh
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSDVRVH--------------------NHFDLKAWTCVS---EDFDIIRVTKSILKSIA  216 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~--------------------~~F~~~~wv~vs---~~~~~~~~~~~il~~l~  216 (385)
                      ...+.++|++|+|||++|+.+.....-.                    .+++ ..++...   ..... +..+++.+.+.
T Consensus        24 ~~a~L~~G~~G~GKt~~a~~la~~l~~~~~~~~~~c~~c~~c~~~~~~~~~d-~~~~~~~~~~~~~~i-~~ir~l~~~~~  101 (334)
T 1a5t_A           24 HHALLIQALPGMGDDALIYALSRYLLCQQPQGHKSCGHCRGCQLMQAGTHPD-YYTLAPEKGKNTLGV-DAVREVTEKLN  101 (334)
T ss_dssp             CSEEEEECCTTSCHHHHHHHHHHHHTCSSCBTTBCCSCSHHHHHHHHTCCTT-EEEECCCTTCSSBCH-HHHHHHHHHTT
T ss_pred             ceeEEEECCCCchHHHHHHHHHHHHhCCCCCCCCCCCCCHHHHHHhcCCCCC-EEEEeccccCCCCCH-HHHHHHHHHHh
Confidence            4678999999999999998886532100                    1122 3445432   22333 33456666664


Q ss_pred             cCCCCC---ccchHHhh--chhhHhhHhhhccCCCCCcEEEEEcCChh-HHhhc-CCCCcccCCCCChhhHHhhhhcccc
Q 038448          217 SDQLVD---DHDLNLLQ--KYNDWTNRSRLFEAGAPGSKIVFTTRNLG-VAEKM-GPLPAYPLKELSNDDCLSVFSPHSL  289 (385)
Q Consensus       217 ~~~~~~---~~~~~~l~--~~~~w~~l~~~l~~~~~gs~IivTTR~~~-va~~~-~~~~~~~l~~L~~~~a~~Lf~~~a~  289 (385)
                      ......   .--+++..  ..+..+.+...+.....++.+|++|.+.. +...+ +....+.+.+++.++....+.... 
T Consensus       102 ~~~~~~~~kvviIdead~l~~~a~naLLk~lEep~~~~~~Il~t~~~~~l~~ti~SRc~~~~~~~~~~~~~~~~L~~~~-  180 (334)
T 1a5t_A          102 EHARLGGAKVVWVTDAALLTDAAANALLKTLEEPPAETWFFLATREPERLLATLRSRCRLHYLAPPPEQYAVTWLSREV-  180 (334)
T ss_dssp             SCCTTSSCEEEEESCGGGBCHHHHHHHHHHHTSCCTTEEEEEEESCGGGSCHHHHTTSEEEECCCCCHHHHHHHHHHHC-
T ss_pred             hccccCCcEEEEECchhhcCHHHHHHHHHHhcCCCCCeEEEEEeCChHhCcHHHhhcceeeeCCCCCHHHHHHHHHHhc-
Confidence            332110   01112111  23344556666655455677777776543 32222 222568999999999988887664 


Q ss_pred             CCCCCCCCccHHHHHHHHHHHcCCChHHHHH
Q 038448          290 GEKDFSTHPSLKEIGEKIVKKCNGLPLVAKS  320 (385)
Q Consensus       290 ~~~~~~~~~~l~~~~~~i~~~c~glPLAi~~  320 (385)
                         .  ..   .+.+..+++.++|.|..+..
T Consensus       181 ---~--~~---~~~~~~l~~~s~G~~r~a~~  203 (334)
T 1a5t_A          181 ---T--MS---QDALLAALRLSAGSPGAALA  203 (334)
T ss_dssp             ---C--CC---HHHHHHHHHHTTTCHHHHHH
T ss_pred             ---C--CC---HHHHHHHHHHcCCCHHHHHH
Confidence               1  11   24457788999999965543

>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR complex, HMR, HML, TELO AAA+ domain, structural, nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}

Probab=97.43  E-value=0.00057  Score=62.50  Aligned_cols=77  Identities=9%  Similarity=-0.034  Sum_probs=49.2

Q ss_pred             hhhHHHHHHHHhcCCCCCCCCceEEEEEcCCCCcHHHHHHHHhccccccc------cccceEEEEecCCCCHHHHHHHHH
Q 038448          139 DKEKEETVKLLLRDDLRTDDGLSVIPIIGTGRIGKTTLAQLAYSDVRVHN------HFDLKAWTCVSEDFDIIRVTKSIL  212 (385)
Q Consensus       139 ~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~------~F~~~~wv~vs~~~~~~~~~~~il  212 (385)
                      +++.+.|...|....  ..+....+-|+|++|+|||++++.+.+......      .| ..+.++...-.+...++..|+
T Consensus        26 e~E~~~i~~~L~~~i--~~~~~~~lli~GpPGTGKT~~v~~v~~~L~~~~~~~~~~~~-~~v~INc~~~~t~~~~~~~I~  102 (318)
T 3te6_A           26 VEDFTRIFLPIYDSL--MSSQNKLFYITNADDSTKFQLVNDVMDELITSSARKELPIF-DYIHIDALELAGMDALYEKIW  102 (318)
T ss_dssp             HHHHHHHHHHHHHHH--HTTCCCEEEEECCCSHHHHHHHHHHHHHHHHTTTTTSSCCE-EEEEEETTCCC--HHHHHHHH
T ss_pred             HHHHHHHHHHHHHHh--cCCCCCeEEEECCCCCCHHHHHHHHHHHHHHHhhhccCCce-EEEEEeccccCCHHHHHHHHH
Confidence            555566655554321  123557889999999999999999998632111      12 244555555567778888888


Q ss_pred             HHhhcC
Q 038448          213 KSIASD  218 (385)
Q Consensus       213 ~~l~~~  218 (385)
                      .++.+.
T Consensus       103 ~~L~g~  108 (318)
T 3te6_A          103 FAISKE  108 (318)
T ss_dssp             HHHSCC
T ss_pred             HHhcCC
Confidence            888654

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=97.34  E-value=0.0012  Score=60.00  Aligned_cols=128  Identities=11%  Similarity=0.031  Sum_probs=66.6

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHhcccccccccc--ceEEEEecCC----C-CHHHHHHHHHHHhhcCCCCCccchHHhh
Q 038448          158 DGLSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFD--LKAWTCVSED----F-DIIRVTKSILKSIASDQLVDDHDLNLLQ  230 (385)
Q Consensus       158 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~--~~~wv~vs~~----~-~~~~~~~~il~~l~~~~~~~~~~~~~l~  230 (385)
                      .....+.|+|++|+|||+||+.+.+.........  ..+.++.+.-    + ........++......-. ..++.+.+-
T Consensus        65 ~~~~~vll~G~~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~~~~~~~~~~~~~~~vl-~iDEid~l~  143 (309)
T 3syl_A           65 TPTLHMSFTGNPGTGKTTVALKMAGLLHRLGYVRKGHLVSVTRDDLVGQYIGHTAPKTKEVLKRAMGGVL-FIDEAYYLY  143 (309)
T ss_dssp             CCCCEEEEEECTTSSHHHHHHHHHHHHHHTTSSSSCCEEEECGGGTCCSSTTCHHHHHHHHHHHHTTSEE-EEETGGGSC
T ss_pred             CCCceEEEECCCCCCHHHHHHHHHHHHHhcCCcCCCcEEEEcHHHhhhhcccccHHHHHHHHHhcCCCEE-EEEChhhhc
Confidence            3456789999999999999998776421111111  1223332211    1 122233444444322111 223333221


Q ss_pred             --------chhhHhhHhhhccCCCCCcEEEEEcCChhH----------HhhcCCCCcccCCCCChhhHHhhhhccc
Q 038448          231 --------KYNDWTNRSRLFEAGAPGSKIVFTTRNLGV----------AEKMGPLPAYPLKELSNDDCLSVFSPHS  288 (385)
Q Consensus       231 --------~~~~w~~l~~~l~~~~~gs~IivTTR~~~v----------a~~~~~~~~~~l~~L~~~~a~~Lf~~~a  288 (385)
                              .......+...+.....+..||.||.....          ...+  ...+.+.+++.++-..++...+
T Consensus       144 ~~~~~~~~~~~~~~~Ll~~l~~~~~~~~~i~~~~~~~~~~~~~~~~~l~~R~--~~~i~~~~~~~~~~~~il~~~l  217 (309)
T 3syl_A          144 RPDNERDYGQEAIEILLQVMENNRDDLVVILAGYADRMENFFQSNPGFRSRI--AHHIEFPDYSDEELFEIAGHML  217 (309)
T ss_dssp             CCC---CCTHHHHHHHHHHHHHCTTTCEEEEEECHHHHHHHHHHSTTHHHHE--EEEEEECCCCHHHHHHHHHHHH
T ss_pred             cCCCcccccHHHHHHHHHHHhcCCCCEEEEEeCChHHHHHHHhhCHHHHHhC--CeEEEcCCcCHHHHHHHHHHHH
Confidence                    223334455555544556678888864332          2221  1467888888888888776654

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=97.19  E-value=0.0012  Score=60.91  Aligned_cols=153  Identities=16%  Similarity=0.114  Sum_probs=76.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecCCCCHHHHHHHHHHHhhcCCCCCccchHHhhchhhHhhH
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDFDIIRVTKSILKSIASDQLVDDHDLNLLQKYNDWTNR  238 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~il~~l~~~~~~~~~~~~~l~~~~~w~~l  238 (385)
                      ....|.|+|++|+|||+||+.+.+.  ....|   +.++.+..... .-+..++........-..++++.+. ......+
T Consensus        54 ~~~~vll~G~~GtGKT~la~~ia~~--~~~~~---~~~~~~~~~~~-~~~~~~~~~~~~~~vl~lDEi~~l~-~~~~~~L  126 (338)
T 3pfi_A           54 CLDHILFSGPAGLGKTTLANIISYE--MSANI---KTTAAPMIEKS-GDLAAILTNLSEGDILFIDEIHRLS-PAIEEVL  126 (338)
T ss_dssp             CCCCEEEECSTTSSHHHHHHHHHHH--TTCCE---EEEEGGGCCSH-HHHHHHHHTCCTTCEEEEETGGGCC-HHHHHHH
T ss_pred             CCCeEEEECcCCCCHHHHHHHHHHH--hCCCe---EEecchhccch-hHHHHHHHhccCCCEEEEechhhcC-HHHHHHH
Confidence            3456899999999999999999774  22222   22332222222 2233333332211110112222211 1122222


Q ss_pred             hhhccCC------------------CCCcEEEEEcCChhH-Hhhc--CCCCcccCCCCChhhHHhhhhccccCCCCCCCC
Q 038448          239 SRLFEAG------------------APGSKIVFTTRNLGV-AEKM--GPLPAYPLKELSNDDCLSVFSPHSLGEKDFSTH  297 (385)
Q Consensus       239 ~~~l~~~------------------~~gs~IivTTR~~~v-a~~~--~~~~~~~l~~L~~~~a~~Lf~~~a~~~~~~~~~  297 (385)
                      ...+...                  .++..+|.||..... ...+  .....+.+.+++.++...++...+-... .   
T Consensus       127 l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~i~atn~~~~l~~~L~~R~~~~i~l~~~~~~e~~~il~~~~~~~~-~---  202 (338)
T 3pfi_A          127 YPAMEDYRLDIIIGSGPAAQTIKIDLPKFTLIGATTRAGMLSNPLRDRFGMQFRLEFYKDSELALILQKAALKLN-K---  202 (338)
T ss_dssp             HHHHHTSCC---------CCCCCCCCCCCEEEEEESCGGGSCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHTT-C---
T ss_pred             HHHHHhccchhhcccCccccceecCCCCeEEEEeCCCccccCHHHHhhcCEEeeCCCcCHHHHHHHHHHHHHhcC-C---
Confidence            2222111                  112456666654321 1111  1124689999999999888876642211 1   


Q ss_pred             ccHHHHHHHHHHHcCCChHHHHHHH
Q 038448          298 PSLKEIGEKIVKKCNGLPLVAKSLG  322 (385)
Q Consensus       298 ~~l~~~~~~i~~~c~glPLAi~~~~  322 (385)
                      .--.+....|++.+.|.|-.+..+.
T Consensus       203 ~~~~~~~~~l~~~~~G~~r~l~~~l  227 (338)
T 3pfi_A          203 TCEEKAALEIAKRSRSTPRIALRLL  227 (338)
T ss_dssp             EECHHHHHHHHHTTTTCHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHCcCHHHHHHHH
Confidence            1124566778888999985544433

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=97.15  E-value=0.0011  Score=59.68  Aligned_cols=154  Identities=16%  Similarity=0.131  Sum_probs=78.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecCC---C--CHHHHHHHHHHHhhcCCC--CCccchHHhh-
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSED---F--DIIRVTKSILKSIASDQL--VDDHDLNLLQ-  230 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~---~--~~~~~~~~il~~l~~~~~--~~~~~~~~l~-  230 (385)
                      ...-+.|+|++|+|||+||+.+++.  ....|   +.++.+.-   +  .....+..++........  -..++++.+. 
T Consensus        50 ~~~~~ll~G~~GtGKT~la~~la~~--~~~~~---~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vl~iDEid~l~~  124 (285)
T 3h4m_A           50 PPKGILLYGPPGTGKTLLAKAVATE--TNATF---IRVVGSELVKKFIGEGASLVKDIFKLAKEKAPSIIFIDEIDAIAA  124 (285)
T ss_dssp             CCSEEEEESSSSSSHHHHHHHHHHH--TTCEE---EEEEGGGGCCCSTTHHHHHHHHHHHHHHHTCSEEEEEETTHHHHB
T ss_pred             CCCeEEEECCCCCcHHHHHHHHHHH--hCCCE---EEEehHHHHHhccchHHHHHHHHHHHHHHcCCeEEEEECHHHhcc
Confidence            3456899999999999999999875  22222   22332221   1  123444455544433221  0223333331 


Q ss_pred             ---------ch---hhHhhHhhhcc--CCCCCcEEEEEcCChhHHh--hcC---CCCcccCCCCChhhHHhhhhccccCC
Q 038448          231 ---------KY---NDWTNRSRLFE--AGAPGSKIVFTTRNLGVAE--KMG---PLPAYPLKELSNDDCLSVFSPHSLGE  291 (385)
Q Consensus       231 ---------~~---~~w~~l~~~l~--~~~~gs~IivTTR~~~va~--~~~---~~~~~~l~~L~~~~a~~Lf~~~a~~~  291 (385)
                               ..   .....+...+.  ....+..||.||.......  ...   ....+.+..++.++..++|...+...
T Consensus       125 ~~~~~~~~~~~~~~~~l~~ll~~~~~~~~~~~~~vI~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~il~~~~~~~  204 (285)
T 3h4m_A          125 KRTDALTGGDREVQRTLMQLLAEMDGFDARGDVKIIGATNRPDILDPAILRPGRFDRIIEVPAPDEKGRLEILKIHTRKM  204 (285)
T ss_dssp             CCSSSCCGGGGHHHHHHHHHHHHHHTTCSSSSEEEEEECSCGGGBCHHHHSTTSEEEEEECCCCCHHHHHHHHHHHHTTS
T ss_pred             cCccccCCccHHHHHHHHHHHHHhhCCCCCCCEEEEEeCCCchhcCHHHcCCCcCCeEEEECCCCHHHHHHHHHHHHhcC
Confidence                     11   11122222222  1233566777887543221  111   11358899999999999988765322


Q ss_pred             CCCCCCccHHHHHHHHHHHcCC-ChHHHHHHH
Q 038448          292 KDFSTHPSLKEIGEKIVKKCNG-LPLVAKSLG  322 (385)
Q Consensus       292 ~~~~~~~~l~~~~~~i~~~c~g-lPLAi~~~~  322 (385)
                      . ......    ...++..+.| .|-.+..+.
T Consensus       205 ~-~~~~~~----~~~l~~~~~g~~~~~i~~l~  231 (285)
T 3h4m_A          205 N-LAEDVN----LEEIAKMTEGCVGAELKAIC  231 (285)
T ss_dssp             C-BCTTCC----HHHHHHHCTTCCHHHHHHHH
T ss_pred             C-CCCcCC----HHHHHHHcCCCCHHHHHHHH
Confidence            1 111122    3557777777 454555443

>1sxj_A Activator 1 95 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=97.14  E-value=0.0019  Score=63.45  Aligned_cols=152  Identities=12%  Similarity=0.116  Sum_probs=76.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecCCCCHHHHHHHHHHHhhcCC-----------------CC
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDFDIIRVTKSILKSIASDQ-----------------LV  221 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~il~~l~~~~-----------------~~  221 (385)
                      ..+.+.|+|++|+||||+|+.+.+..    .+. .+.++.+..... .++...+.......                 ..
T Consensus        76 ~~~~lLL~GppGtGKTtla~~la~~l----~~~-~i~in~s~~~~~-~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~  149 (516)
T 1sxj_A           76 VFRAAMLYGPPGIGKTTAAHLVAQEL----GYD-ILEQNASDVRSK-TLLNAGVKNALDNMSVVGYFKHNEEAQNLNGKH  149 (516)
T ss_dssp             SCSEEEEECSTTSSHHHHHHHHHHHT----TCE-EEEECTTSCCCH-HHHHHTGGGGTTBCCSTTTTTC----CCSSTTS
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHc----CCC-EEEEeCCCcchH-HHHHHHHHHHhccccHHHHHhhhhhhhhccCCC
Confidence            35789999999999999999998852    121 233444443332 23333222211100                 00


Q ss_pred             ---CccchHHhhc--hhhHhhHhhhccCCCCCcEEEEEcCChh---HHhhcCCCCcccCCCCChhhHHhhhhccccCCCC
Q 038448          222 ---DDHDLNLLQK--YNDWTNRSRLFEAGAPGSKIVFTTRNLG---VAEKMGPLPAYPLKELSNDDCLSVFSPHSLGEKD  293 (385)
Q Consensus       222 ---~~~~~~~l~~--~~~w~~l~~~l~~~~~gs~IivTTR~~~---va~~~~~~~~~~l~~L~~~~a~~Lf~~~a~~~~~  293 (385)
                         ..++.+.+..  ...+..+...+..  .+..||+++.+..   +.........+.+.+++.++...++...+....-
T Consensus       150 ~vliIDEid~l~~~~~~~l~~L~~~l~~--~~~~iIli~~~~~~~~l~~l~~r~~~i~f~~~~~~~~~~~L~~i~~~~~~  227 (516)
T 1sxj_A          150 FVIIMDEVDGMSGGDRGGVGQLAQFCRK--TSTPLILICNERNLPKMRPFDRVCLDIQFRRPDANSIKSRLMTIAIREKF  227 (516)
T ss_dssp             EEEEECSGGGCCTTSTTHHHHHHHHHHH--CSSCEEEEESCTTSSTTGGGTTTSEEEECCCCCHHHHHHHHHHHHHHHTC
T ss_pred             eEEEEECCCccchhhHHHHHHHHHHHHh--cCCCEEEEEcCCCCccchhhHhceEEEEeCCCCHHHHHHHHHHHHHHcCC
Confidence               0111121111  1123334433332  2334666554322   2221112245789999999988887765432111


Q ss_pred             CCCCccHHHHHHHHHHHcCC-ChHHHHHHH
Q 038448          294 FSTHPSLKEIGEKIVKKCNG-LPLVAKSLG  322 (385)
Q Consensus       294 ~~~~~~l~~~~~~i~~~c~g-lPLAi~~~~  322 (385)
                       ..++   +....|++.++| ++-++..+.
T Consensus       228 -~i~~---~~l~~la~~s~GdiR~~i~~L~  253 (516)
T 1sxj_A          228 -KLDP---NVIDRLIQTTRGDIRQVINLLS  253 (516)
T ss_dssp             -CCCT---THHHHHHHHTTTCHHHHHHHHT
T ss_pred             -CCCH---HHHHHHHHHcCCcHHHHHHHHH
Confidence             1112   345678888988 555555543

>1l8q_A Chromosomal replication initiator protein DNAA; AAA+, helix-turn-helix, nucleotide-binding, DNA binding, REP initiation, DNA binding protein; HET: ADP; 2.70A {Aquifex aeolicus} SCOP: a.4.12.2 c.37.1.20 PDB: 3r8f_A* 2hcb_A*

Probab=97.07  E-value=0.0015  Score=60.05  Aligned_cols=143  Identities=12%  Similarity=0.104  Sum_probs=72.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecCCCCHHHHHHHHHHHhhc------------CCCCCccchH
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDFDIIRVTKSILKSIAS------------DQLVDDHDLN  227 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~il~~l~~------------~~~~~~~~~~  227 (385)
                      ...+.|+|++|+||||||+.+++..  ...-...++++..      .+...+...+..            ...--.++++
T Consensus        37 ~~~lll~G~~GtGKT~la~~i~~~~--~~~~~~~~~i~~~------~~~~~~~~~~~~~~~~~~~~~~~~~~vL~iDEi~  108 (324)
T 1l8q_A           37 YNPIFIYGSVGTGKTHLLQAAGNEA--KKRGYRVIYSSAD------DFAQAMVEHLKKGTINEFRNMYKSVDLLLLDDVQ  108 (324)
T ss_dssp             CSSEEEECSSSSSHHHHHHHHHHHH--HHTTCCEEEEEHH------HHHHHHHHHHHHTCHHHHHHHHHTCSEEEEECGG
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHHH--HHCCCEEEEEEHH------HHHHHHHHHHHcCcHHHHHHHhcCCCEEEEcCcc
Confidence            4678899999999999999998752  1111123455432      222222222211            1100112222


Q ss_pred             HhhchhhH-hhHhhhccC-CCCCcEEEEEcCCh---------hHHhhcCCCCcccCCCCChhhHHhhhhccccCCCCCCC
Q 038448          228 LLQKYNDW-TNRSRLFEA-GAPGSKIVFTTRNL---------GVAEKMGPLPAYPLKELSNDDCLSVFSPHSLGEKDFST  296 (385)
Q Consensus       228 ~l~~~~~w-~~l~~~l~~-~~~gs~IivTTR~~---------~va~~~~~~~~~~l~~L~~~~a~~Lf~~~a~~~~~~~~  296 (385)
                      .+.....+ +.+...+.. ...|..||+||...         .+...+.....+.+.+ +.++...++...+.... ...
T Consensus       109 ~l~~~~~~~~~l~~~l~~~~~~~~~iii~~~~~~~~l~~l~~~L~sR~~~~~~i~l~~-~~~e~~~il~~~~~~~~-~~l  186 (324)
T 1l8q_A          109 FLSGKERTQIEFFHIFNTLYLLEKQIILASDRHPQKLDGVSDRLVSRFEGGILVEIEL-DNKTRFKIIKEKLKEFN-LEL  186 (324)
T ss_dssp             GGTTCHHHHHHHHHHHHHHHHTTCEEEEEESSCGGGCTTSCHHHHHHHHTSEEEECCC-CHHHHHHHHHHHHHHTT-CCC
T ss_pred             cccCChHHHHHHHHHHHHHHHCCCeEEEEecCChHHHHHhhhHhhhcccCceEEEeCC-CHHHHHHHHHHHHHhcC-CCC
Confidence            22221122 223333221 12456788887632         2222333334588999 99998888877653211 111


Q ss_pred             CccHHHHHHHHHHHcCCChH
Q 038448          297 HPSLKEIGEKIVKKCNGLPL  316 (385)
Q Consensus       297 ~~~l~~~~~~i~~~c~glPL  316 (385)
                      +   .+....|++.+ |.+-
T Consensus       187 ~---~~~l~~l~~~~-g~~r  202 (324)
T 1l8q_A          187 R---KEVIDYLLENT-KNVR  202 (324)
T ss_dssp             C---HHHHHHHHHHC-SSHH
T ss_pred             C---HHHHHHHHHhC-CCHH
Confidence            1   34566677777 6543

>1sxj_E Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=97.05  E-value=0.0024  Score=59.26  Aligned_cols=87  Identities=13%  Similarity=0.116  Sum_probs=50.3

Q ss_pred             hHhhHhhhccCCCCCcEEEEEcCChh-HHhhc-CCCCcccCCCCChhhHHhhhhccccCCCCCCCCccHHHHHHHHHHHc
Q 038448          234 DWTNRSRLFEAGAPGSKIVFTTRNLG-VAEKM-GPLPAYPLKELSNDDCLSVFSPHSLGEKDFSTHPSLKEIGEKIVKKC  311 (385)
Q Consensus       234 ~w~~l~~~l~~~~~gs~IivTTR~~~-va~~~-~~~~~~~l~~L~~~~a~~Lf~~~a~~~~~~~~~~~l~~~~~~i~~~c  311 (385)
                      ..+.+...+.....++.+|++|.+.. +...+ .....+.+.+++.++....+...+-...- ..+  -.+....|++.+
T Consensus       150 ~~~~L~~~le~~~~~~~~Il~t~~~~~l~~~l~sR~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~--~~~~l~~i~~~~  226 (354)
T 1sxj_E          150 AQAALRRTMEKYSKNIRLIMVCDSMSPIIAPIKSQCLLIRCPAPSDSEISTILSDVVTNERI-QLE--TKDILKRIAQAS  226 (354)
T ss_dssp             HHHHHHHHHHHSTTTEEEEEEESCSCSSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHHTC-EEC--CSHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhcCCCEEEEEeCCHHHHHHHHHhhceEEecCCcCHHHHHHHHHHHHHHcCC-CCC--cHHHHHHHHHHc
Confidence            34445544443345677887776532 22212 22256889999999998888765421111 111  024567788999


Q ss_pred             CCChHHHHHHHH
Q 038448          312 NGLPLVAKSLGG  323 (385)
Q Consensus       312 ~glPLAi~~~~~  323 (385)
                      +|.+-.+..+..
T Consensus       227 ~G~~r~a~~~l~  238 (354)
T 1sxj_E          227 NGNLRVSLLMLE  238 (354)
T ss_dssp             TTCHHHHHHHHT
T ss_pred             CCCHHHHHHHHH
Confidence            998866555443

>1d2n_A N-ethylmaleimide-sensitive fusion protein; hexamerization domain, ATPase, transport; HET: ANP; 1.75A {Cricetulus griseus} SCOP: c.37.1.20 PDB: 1nsf_A*

Probab=96.99  E-value=0.0039  Score=55.57  Aligned_cols=143  Identities=17%  Similarity=0.176  Sum_probs=70.7

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecCCC---CH---HHHHHHHHHHhhcCCC--CCccchHHh
Q 038448          158 DGLSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDF---DI---IRVTKSILKSIASDQL--VDDHDLNLL  229 (385)
Q Consensus       158 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~---~~---~~~~~~il~~l~~~~~--~~~~~~~~l  229 (385)
                      .....+.|+|++|+|||+||+.+.+.  ....|   +.++.+..+   ..   ...+..++........  -..++++.+
T Consensus        62 ~~~~~vLl~G~~GtGKT~la~~ia~~--~~~~~---~~i~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~vl~iDEid~l  136 (272)
T 1d2n_A           62 TPLVSVLLEGPPHSGKTALAAKIAEE--SNFPF---IKICSPDKMIGFSETAKCQAMKKIFDDAYKSQLSCVVVDDIERL  136 (272)
T ss_dssp             CSEEEEEEECSTTSSHHHHHHHHHHH--HTCSE---EEEECGGGCTTCCHHHHHHHHHHHHHHHHTSSEEEEEECCHHHH
T ss_pred             CCCeEEEEECCCCCcHHHHHHHHHHH--hCCCE---EEEeCHHHhcCCchHHHHHHHHHHHHHHHhcCCcEEEEEChhhh
Confidence            35678899999999999999999874  22121   222222111   11   1233344443322111  023344443


Q ss_pred             h---------chhhHhhHhhhccC---CCCCcEEEEEcCChhHHhhc---CC-CCcccCCCCCh-hhHHhhhhccccCCC
Q 038448          230 Q---------KYNDWTNRSRLFEA---GAPGSKIVFTTRNLGVAEKM---GP-LPAYPLKELSN-DDCLSVFSPHSLGEK  292 (385)
Q Consensus       230 ~---------~~~~w~~l~~~l~~---~~~gs~IivTTR~~~va~~~---~~-~~~~~l~~L~~-~~a~~Lf~~~a~~~~  292 (385)
                      .         .......+...+..   ......||.||.........   +. ...+.+.+++. ++-..++....    
T Consensus       137 ~~~~~~~~~~~~~~l~~L~~~~~~~~~~~~~~~ii~ttn~~~~l~~~~l~~rf~~~i~~p~l~~r~~i~~i~~~~~----  212 (272)
T 1d2n_A          137 LDYVPIGPRFSNLVLQALLVLLKKAPPQGRKLLIIGTTSRKDVLQEMEMLNAFSTTIHVPNIATGEQLLEALELLG----  212 (272)
T ss_dssp             TTCBTTTTBCCHHHHHHHHHHTTCCCSTTCEEEEEEEESCHHHHHHTTCTTTSSEEEECCCEEEHHHHHHHHHHHT----
T ss_pred             hccCCCChhHHHHHHHHHHHHhcCccCCCCCEEEEEecCChhhcchhhhhcccceEEcCCCccHHHHHHHHHHhcC----
Confidence            1         11112223332221   22233467778776554431   11 24577888887 55555554421    


Q ss_pred             CCCCCccHHHHHHHHHHHcCCC
Q 038448          293 DFSTHPSLKEIGEKIVKKCNGL  314 (385)
Q Consensus       293 ~~~~~~~l~~~~~~i~~~c~gl  314 (385)
                      .  ..   .+....|++.+.|.
T Consensus       213 ~--~~---~~~~~~l~~~~~g~  229 (272)
T 1d2n_A          213 N--FK---DKERTTIAQQVKGK  229 (272)
T ss_dssp             C--SC---HHHHHHHHHHHTTS
T ss_pred             C--CC---HHHHHHHHHHhcCC
Confidence            1  11   34466788888773

>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli}

Probab=96.95  E-value=0.0032  Score=60.60  Aligned_cols=157  Identities=16%  Similarity=0.074  Sum_probs=76.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecCC-CCHHHHHHHHHHHhhc---CCCCCccchHHhh--ch
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSED-FDIIRVTKSILKSIAS---DQLVDDHDLNLLQ--KY  232 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~-~~~~~~~~~il~~l~~---~~~~~~~~~~~l~--~~  232 (385)
                      .+..+.|+|++|+||||||+.+.+.  ....|     +.++.. ..... ++.++.....   ......--++++.  ..
T Consensus        49 ~~~~vLL~GppGtGKTtlAr~ia~~--~~~~f-----~~l~a~~~~~~~-ir~~~~~a~~~~~~~~~~iLfIDEI~~l~~  120 (447)
T 3pvs_A           49 HLHSMILWGPPGTGKTTLAEVIARY--ANADV-----ERISAVTSGVKE-IREAIERARQNRNAGRRTILFVDEVHRFNK  120 (447)
T ss_dssp             CCCEEEEECSTTSSHHHHHHHHHHH--TTCEE-----EEEETTTCCHHH-HHHHHHHHHHHHHTTCCEEEEEETTTCC--
T ss_pred             CCcEEEEECCCCCcHHHHHHHHHHH--hCCCe-----EEEEeccCCHHH-HHHHHHHHHHhhhcCCCcEEEEeChhhhCH
Confidence            3467899999999999999999875  32222     333322 22222 2333322211   0100111122222  11


Q ss_pred             hhHhhHhhhccCCCCCcEEEE-EcCChh--HH-hhcCCCCcccCCCCChhhHHhhhhccccCCCCC---CCCccHHHHHH
Q 038448          233 NDWTNRSRLFEAGAPGSKIVF-TTRNLG--VA-EKMGPLPAYPLKELSNDDCLSVFSPHSLGEKDF---STHPSLKEIGE  305 (385)
Q Consensus       233 ~~w~~l~~~l~~~~~gs~Iiv-TTR~~~--va-~~~~~~~~~~l~~L~~~~a~~Lf~~~a~~~~~~---~~~~~l~~~~~  305 (385)
                      ...+.+...+..  ....+|. ||.+..  +. ........+.+.+++.++...++...+-.....   ....--.+...
T Consensus       121 ~~q~~LL~~le~--~~v~lI~att~n~~~~l~~aL~sR~~v~~l~~l~~edi~~il~~~l~~~~~~~~~~~~~i~~~al~  198 (447)
T 3pvs_A          121 SQQDAFLPHIED--GTITFIGATTENPSFELNSALLSRARVYLLKSLSTEDIEQVLTQAMEDKTRGYGGQDIVLPDETRR  198 (447)
T ss_dssp             ----CCHHHHHT--TSCEEEEEESSCGGGSSCHHHHTTEEEEECCCCCHHHHHHHHHHHHHCTTTSSTTSSEECCHHHHH
T ss_pred             HHHHHHHHHHhc--CceEEEecCCCCcccccCHHHhCceeEEeeCCcCHHHHHHHHHHHHHHHhhhhccccCcCCHHHHH
Confidence            223334444433  1223333 555432  11 111222468899999999888877654221000   01111245667


Q ss_pred             HHHHHcCCChHHHHHHHHHh
Q 038448          306 KIVKKCNGLPLVAKSLGGLL  325 (385)
Q Consensus       306 ~i~~~c~glPLAi~~~~~~L  325 (385)
                      .|++.++|.+-.+..+...+
T Consensus       199 ~L~~~~~Gd~R~lln~Le~a  218 (447)
T 3pvs_A          199 AIAELVNGDARRALNTLEMM  218 (447)
T ss_dssp             HHHHHHCSCHHHHHHHHHHH
T ss_pred             HHHHHCCCCHHHHHHHHHHH
Confidence            78888999876665544443

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=96.92  E-value=0.003  Score=50.64  Aligned_cols=23  Identities=17%  Similarity=0.082  Sum_probs=20.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .-|.|+|.+|+|||++|+.+++.
T Consensus        25 ~~vll~G~~GtGKt~lA~~i~~~   47 (145)
T 3n70_A           25 IAVWLYGAPGTGRMTGARYLHQF   47 (145)
T ss_dssp             SCEEEESSTTSSHHHHHHHHHHS
T ss_pred             CCEEEECCCCCCHHHHHHHHHHh
Confidence            34679999999999999999875

>2qz4_A Paraplegin; AAA+, SPG7, protease, ADP, structural genomics, structural G consortium, SGC, ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.22A {Homo sapiens}

Probab=96.88  E-value=0.0075  Score=53.14  Aligned_cols=150  Identities=11%  Similarity=0.014  Sum_probs=71.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecCCC-----CHHHHHHHHHHHhhcCCCC--CccchHHhh-
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDF-----DIIRVTKSILKSIASDQLV--DDHDLNLLQ-  230 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~-----~~~~~~~~il~~l~~~~~~--~~~~~~~l~-  230 (385)
                      ..+-+.|+|++|+|||+||+.+++.  ....   .+.++.+.-.     .....+..++.........  ..++++.+. 
T Consensus        38 ~~~~vll~G~~GtGKT~la~~la~~--~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~vl~iDeid~l~~  112 (262)
T 2qz4_A           38 VPKGALLLGPPGCGKTLLAKAVATE--AQVP---FLAMAGAEFVEVIGGLGAARVRSLFKEARARAPCIVYIDEIDAVGK  112 (262)
T ss_dssp             CCCEEEEESCTTSSHHHHHHHHHHH--HTCC---EEEEETTTTSSSSTTHHHHHHHHHHHHHHHTCSEEEEEECC-----
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHH--hCCC---EEEechHHHHhhccChhHHHHHHHHHHHHhcCCeEEEEeCcchhhc
Confidence            3456889999999999999999874  2222   2333333211     1123334444443322110  122222221 


Q ss_pred             -------------chhhHhhHhhhccC--CCCCcEEEEEcCChhHH-hh-cC---CCCcccCCCCChhhHHhhhhccccC
Q 038448          231 -------------KYNDWTNRSRLFEA--GAPGSKIVFTTRNLGVA-EK-MG---PLPAYPLKELSNDDCLSVFSPHSLG  290 (385)
Q Consensus       231 -------------~~~~w~~l~~~l~~--~~~gs~IivTTR~~~va-~~-~~---~~~~~~l~~L~~~~a~~Lf~~~a~~  290 (385)
                                   .......+...+..  ...+..||.||...... .. ..   -...+.+..++.++-.+++...+..
T Consensus       113 ~~~~~~~~~~~~~~~~~l~~ll~~~~~~~~~~~~~vi~~tn~~~~ld~~l~~~~R~~~~i~i~~p~~~~r~~il~~~~~~  192 (262)
T 2qz4_A          113 KRSTTMSGFSNTEEEQTLNQLLVEMDGMGTTDHVIVLASTNRADILDGALMRPGRLDRHVFIDLPTLQERREIFEQHLKS  192 (262)
T ss_dssp             --------------CHHHHHHHHHHHTCCTTCCEEEEEEESCGGGGGSGGGSTTSCCEEEECCSCCHHHHHHHHHHHHHH
T ss_pred             cccccccCccchhHHHHHHHHHHHhhCcCCCCCEEEEecCCChhhcCHHHhcCCcCCeEEEeCCcCHHHHHHHHHHHHHh
Confidence                         00111222222222  12345566677654321 11 11   1245678888888888887765422


Q ss_pred             CCCCCCCccHHHHHHHHHHHcCCChH
Q 038448          291 EKDFSTHPSLKEIGEKIVKKCNGLPL  316 (385)
Q Consensus       291 ~~~~~~~~~l~~~~~~i~~~c~glPL  316 (385)
                      .. .  ..........+++.+.|.+-
T Consensus       193 ~~-~--~~~~~~~~~~l~~~~~g~~~  215 (262)
T 2qz4_A          193 LK-L--TQSSTFYSQRLAELTPGFSG  215 (262)
T ss_dssp             TT-C--CBTHHHHHHHHHHTCTTCCH
T ss_pred             CC-C--CcchhhHHHHHHHHCCCCCH
Confidence            11 1  11112234667777777643

>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=96.80  E-value=0.0066  Score=55.99  Aligned_cols=52  Identities=15%  Similarity=0.100  Sum_probs=35.4

Q ss_pred             cccCCCCChhhHHhhhhccccCCCCCCCCccHHHHHHHHHHHcCCChHHHHHHHHH
Q 038448          269 AYPLKELSNDDCLSVFSPHSLGEKDFSTHPSLKEIGEKIVKKCNGLPLVAKSLGGL  324 (385)
Q Consensus       269 ~~~l~~L~~~~a~~Lf~~~a~~~~~~~~~~~l~~~~~~i~~~c~glPLAi~~~~~~  324 (385)
                      .+.+++.+.++-..++.+.+-... .   .--.+.+..|++.+.|.|-.+..+...
T Consensus       174 ~~~Ld~~~~~~l~~iL~~~~~~~~-~---~~~~~~~~~ia~~~~G~~R~a~~ll~~  225 (334)
T 1in4_A          174 ILELDFYTVKELKEIIKRAASLMD-V---EIEDAAAEMIAKRSRGTPRIAIRLTKR  225 (334)
T ss_dssp             EEECCCCCHHHHHHHHHHHHHHTT-C---CBCHHHHHHHHHTSTTCHHHHHHHHHH
T ss_pred             eeeCCCCCHHHHHHHHHHHHHHcC-C---CcCHHHHHHHHHhcCCChHHHHHHHHH
Confidence            478999999999998887652111 1   112456888999999999755544433

>2gno_A DNA polymerase III, gamma subunit-related protein; structural genomics, joint center for structural genomics, J protein structure initiative; HET: DNA; 2.00A {Thermotoga maritima} SCOP: a.80.1.1 c.37.1.20

Probab=96.79  E-value=0.0041  Score=56.63  Aligned_cols=127  Identities=9%  Similarity=-0.092  Sum_probs=76.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhccc-cccccccceEEEEecC-CCCHHHHHHHHHHHhhcCCCCC---ccchHHhh--ch
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSDV-RVHNHFDLKAWTCVSE-DFDIIRVTKSILKSIASDQLVD---DHDLNLLQ--KY  232 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~~-~~~~~F~~~~wv~vs~-~~~~~~~~~~il~~l~~~~~~~---~~~~~~l~--~~  232 (385)
                      ...+.++|++|.||||+|..+.+.- .....+....++..+. ...+. ..++++..+.......   .--+++..  ..
T Consensus        18 ~~~~Lf~Gp~G~GKtt~a~~la~~~~~~~~~~~d~~~l~~~~~~~~id-~ir~li~~~~~~p~~~~~kvviIdead~lt~   96 (305)
T 2gno_A           18 GISILINGEDLSYPREVSLELPEYVEKFPPKASDVLEIDPEGENIGID-DIRTIKDFLNYSPELYTRKYVIVHDCERMTQ   96 (305)
T ss_dssp             SEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTTEEEECCSSSCBCHH-HHHHHHHHHTSCCSSSSSEEEEETTGGGBCH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHhCchhhccCCCEEEEcCCcCCCCHH-HHHHHHHHHhhccccCCceEEEeccHHHhCH
Confidence            5789999999999999999987631 0111122345565543 33333 3455666664333211   11112222  34


Q ss_pred             hhHhhHhhhccCCCCCcEEEEEcCCh-hHHhhcCCCCcccCCCCChhhHHhhhhccc
Q 038448          233 NDWTNRSRLFEAGAPGSKIVFTTRNL-GVAEKMGPLPAYPLKELSNDDCLSVFSPHS  288 (385)
Q Consensus       233 ~~w~~l~~~l~~~~~gs~IivTTR~~-~va~~~~~~~~~~l~~L~~~~a~~Lf~~~a  288 (385)
                      ...+.+...+....+.+.+|++|.+. .+...+... .+++.+++.++....+....
T Consensus        97 ~a~naLLk~LEep~~~t~fIl~t~~~~kl~~tI~SR-~~~f~~l~~~~i~~~L~~~~  152 (305)
T 2gno_A           97 QAANAFLKALEEPPEYAVIVLNTRRWHYLLPTIKSR-VFRVVVNVPKEFRDLVKEKI  152 (305)
T ss_dssp             HHHHHTHHHHHSCCTTEEEEEEESCGGGSCHHHHTT-SEEEECCCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCCCCeEEEEEECChHhChHHHHce-eEeCCCCCHHHHHHHHHHHh
Confidence            45566777776555677777766543 444444455 89999999999888776654

>3eie_A Vacuolar protein sorting-associated protein 4; AAA ATPase, ATP-binding cassette, ATP-binding, endosome, MEM nucleotide-binding; 2.70A {Saccharomyces cerevisiae} PDB: 3eih_A* 2rko_A 3mhv_C

Probab=96.78  E-value=0.015  Score=53.20  Aligned_cols=151  Identities=12%  Similarity=0.012  Sum_probs=76.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecC---CC--CHHHHHHHHHHHhhcCCCC--CccchHHhhc-
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSE---DF--DIIRVTKSILKSIASDQLV--DDHDLNLLQK-  231 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~---~~--~~~~~~~~il~~l~~~~~~--~~~~~~~l~~-  231 (385)
                      .+-|.++|++|+|||+||+.+++.  ....|   +.++.+.   .+  .....++.++.........  ..++++.+.. 
T Consensus        51 ~~~vLl~GppGtGKT~la~aia~~--~~~~~---~~v~~~~l~~~~~g~~~~~~~~~f~~a~~~~~~vl~iDEid~l~~~  125 (322)
T 3eie_A           51 TSGILLYGPPGTGKSYLAKAVATE--ANSTF---FSVSSSDLVSKWMGESEKLVKQLFAMARENKPSIIFIDQVDALTGT  125 (322)
T ss_dssp             CCEEEEECSSSSCHHHHHHHHHHH--HTCEE---EEEEHHHHHTTTGGGHHHHHHHHHHHHHHTSSEEEEEECGGGGSCC
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHH--HCCCE---EEEchHHHhhcccchHHHHHHHHHHHHHhcCCeEEEechhhhhhcc
Confidence            467899999999999999999874  22222   2233221   11  2334445555444332210  1223332221 


Q ss_pred             ---------hhhHhhHhhhcc---CCCCCcEEEEEcCChhH-----HhhcCCCCcccCCCCChhhHHhhhhccccCCCCC
Q 038448          232 ---------YNDWTNRSRLFE---AGAPGSKIVFTTRNLGV-----AEKMGPLPAYPLKELSNDDCLSVFSPHSLGEKDF  294 (385)
Q Consensus       232 ---------~~~w~~l~~~l~---~~~~gs~IivTTR~~~v-----a~~~~~~~~~~l~~L~~~~a~~Lf~~~a~~~~~~  294 (385)
                               ......+...+.   ....+..||.||.....     ...  -...+.+...+.++-..+|...+.... .
T Consensus       126 ~~~~~~~~~~~~~~~ll~~l~~~~~~~~~v~vi~atn~~~~ld~al~~R--f~~~i~~~~p~~~~r~~il~~~~~~~~-~  202 (322)
T 3eie_A          126 RGEGESEASRRIKTELLVQMNGVGNDSQGVLVLGATNIPWQLDSAIRRR--FERRIYIPLPDLAARTTMFEINVGDTP-C  202 (322)
T ss_dssp             ------CCTHHHHHHHHHHHGGGGTSCCCEEEEEEESCGGGSCHHHHHH--CCEEEECCCCCHHHHHHHHHHHHTTCC-C
T ss_pred             CCCCcchHHHHHHHHHHHHhccccccCCceEEEEecCChhhCCHHHHcc--cCeEEEeCCCCHHHHHHHHHHHhccCC-C
Confidence                     111222322222   22345556667765322     222  224567788888888888877653211 1


Q ss_pred             CCCccHHHHHHHHHHHcCCC-hHHHHHH
Q 038448          295 STHPSLKEIGEKIVKKCNGL-PLVAKSL  321 (385)
Q Consensus       295 ~~~~~l~~~~~~i~~~c~gl-PLAi~~~  321 (385)
                      ..   -......|++.+.|. +-.|..+
T Consensus       203 ~~---~~~~l~~la~~t~g~sg~di~~l  227 (322)
T 3eie_A          203 VL---TKEDYRTLGAMTEGYSGSDIAVV  227 (322)
T ss_dssp             CC---CHHHHHHHHHTTTTCCHHHHHHH
T ss_pred             CC---CHHHHHHHHHHcCCCCHHHHHHH
Confidence            11   123456788888774 4444443

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=96.76  E-value=0.0081  Score=55.93  Aligned_cols=50  Identities=10%  Similarity=-0.050  Sum_probs=32.3

Q ss_pred             CcccCCCCChhhHHhhhhccccCCCCCCCCccHHHHHHHHHHHcC-CChHHHHHH
Q 038448          268 PAYPLKELSNDDCLSVFSPHSLGEKDFSTHPSLKEIGEKIVKKCN-GLPLVAKSL  321 (385)
Q Consensus       268 ~~~~l~~L~~~~a~~Lf~~~a~~~~~~~~~~~l~~~~~~i~~~c~-glPLAi~~~  321 (385)
                      ..+.+.+++.++...++...+-... ..   --.+....|++.+. |.|-.+..+
T Consensus       252 ~~i~~~~~~~~e~~~il~~~~~~~~-~~---~~~~~l~~l~~~~~~G~~r~~~~l  302 (368)
T 3uk6_A          252 LIVSTTPYSEKDTKQILRIRCEEED-VE---MSEDAYTVLTRIGLETSLRYAIQL  302 (368)
T ss_dssp             EEEEECCCCHHHHHHHHHHHHHHTT-CC---BCHHHHHHHHHHHHHSCHHHHHHH
T ss_pred             cEEEecCCCHHHHHHHHHHHHHHcC-CC---CCHHHHHHHHHHhcCCCHHHHHHH
Confidence            3478999999999998886643211 11   12456677888887 766554443

>1sxj_C Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=96.66  E-value=0.011  Score=54.42  Aligned_cols=150  Identities=11%  Similarity=0.107  Sum_probs=75.3

Q ss_pred             EEEEcCCCCcHHHHHHHHhcccccccccc-ceEEEEecCCCCHHHHHHHHHHHhhcCC--C---CCccchHHhh--chhh
Q 038448          163 IPIIGTGRIGKTTLAQLAYSDVRVHNHFD-LKAWTCVSEDFDIIRVTKSILKSIASDQ--L---VDDHDLNLLQ--KYND  234 (385)
Q Consensus       163 i~I~G~gGiGKTtLA~~v~~~~~~~~~F~-~~~wv~vs~~~~~~~~~~~il~~l~~~~--~---~~~~~~~~l~--~~~~  234 (385)
                      +.++|++|+||||+|+.+..... ...+. ...-++.+....... .++++..+....  .   ...--+++..  ..+.
T Consensus        49 ~ll~Gp~G~GKTtla~~la~~l~-~~~~~~~~~~~~~~~~~~~~~-ir~~i~~~~~~~~~~~~~~~viiiDe~~~l~~~~  126 (340)
T 1sxj_C           49 LLFYGPPGTGKTSTIVALAREIY-GKNYSNMVLELNASDDRGIDV-VRNQIKDFASTRQIFSKGFKLIILDEADAMTNAA  126 (340)
T ss_dssp             EEEECSSSSSHHHHHHHHHHHHH-TTSHHHHEEEECTTSCCSHHH-HHTHHHHHHHBCCSSSCSCEEEEETTGGGSCHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHc-CCCccceEEEEcCcccccHHH-HHHHHHHHHhhcccCCCCceEEEEeCCCCCCHHH
Confidence            88999999999999999877421 11111 122333333333333 233333332111  0   0111122221  2233


Q ss_pred             HhhHhhhccCCCCCcEEEEEcCChh-HHhhc-CCCCcccCCCCChhhHHhhhhccccCCCCCCCCccHHHHHHHHHHHcC
Q 038448          235 WTNRSRLFEAGAPGSKIVFTTRNLG-VAEKM-GPLPAYPLKELSNDDCLSVFSPHSLGEKDFSTHPSLKEIGEKIVKKCN  312 (385)
Q Consensus       235 w~~l~~~l~~~~~gs~IivTTR~~~-va~~~-~~~~~~~l~~L~~~~a~~Lf~~~a~~~~~~~~~~~l~~~~~~i~~~c~  312 (385)
                      .+.+...+......+.+|++|.... +...+ +....+.+.+++.++....+...+-.. .....   ......|+..++
T Consensus       127 ~~~L~~~le~~~~~~~~il~~n~~~~i~~~i~sR~~~~~~~~l~~~~~~~~l~~~~~~~-~~~i~---~~~~~~i~~~s~  202 (340)
T 1sxj_C          127 QNALRRVIERYTKNTRFCVLANYAHKLTPALLSQCTRFRFQPLPQEAIERRIANVLVHE-KLKLS---PNAEKALIELSN  202 (340)
T ss_dssp             HHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHTT-TCCBC---HHHHHHHHHHHT
T ss_pred             HHHHHHHHhcCCCCeEEEEEecCccccchhHHhhceeEeccCCCHHHHHHHHHHHHHHc-CCCCC---HHHHHHHHHHcC
Confidence            4445444443345667777765432 11111 112357889999888877666543111 11111   345677888889


Q ss_pred             CChHHH
Q 038448          313 GLPLVA  318 (385)
Q Consensus       313 glPLAi  318 (385)
                      |.+--+
T Consensus       203 G~~r~~  208 (340)
T 1sxj_C          203 GDMRRV  208 (340)
T ss_dssp             TCHHHH
T ss_pred             CCHHHH
Confidence            887643

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=96.65  E-value=0.014  Score=53.43  Aligned_cols=153  Identities=12%  Similarity=0.023  Sum_probs=75.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecCCC-----CHHHHHHHHHHHhhcCCCC--CccchHHhh-
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDF-----DIIRVTKSILKSIASDQLV--DDHDLNLLQ-  230 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~-----~~~~~~~~il~~l~~~~~~--~~~~~~~l~-  230 (385)
                      ..+-|.++|++|+|||+||+.+++... ...|   +.++.+.-.     .....++.++.........  ..++++.+. 
T Consensus        44 ~~~~iLL~GppGtGKT~la~ala~~~~-~~~~---~~i~~~~l~~~~~g~~~~~~~~lf~~a~~~~~~vl~iDEid~l~~  119 (322)
T 1xwi_A           44 PWRGILLFGPPGTGKSYLAKAVATEAN-NSTF---FSISSSDLVSKWLGESEKLVKNLFQLARENKPSIIFIDEIDSLCG  119 (322)
T ss_dssp             CCSEEEEESSSSSCHHHHHHHHHHHTT-SCEE---EEEECCSSCCSSCCSCHHHHHHHHHHHHHTSSEEEEEETTTGGGC
T ss_pred             CCceEEEECCCCccHHHHHHHHHHHcC-CCcE---EEEEhHHHHhhhhhHHHHHHHHHHHHHHhcCCcEEEeecHHHhcc
Confidence            346788999999999999999987420 1112   223322211     2344555555544322210  122233321 


Q ss_pred             -----ch----hhHhhHhhhccC---CCCCcEEEEEcCChh-----HHhhcCCCCcccCCCCChhhHHhhhhccccCCCC
Q 038448          231 -----KY----NDWTNRSRLFEA---GAPGSKIVFTTRNLG-----VAEKMGPLPAYPLKELSNDDCLSVFSPHSLGEKD  293 (385)
Q Consensus       231 -----~~----~~w~~l~~~l~~---~~~gs~IivTTR~~~-----va~~~~~~~~~~l~~L~~~~a~~Lf~~~a~~~~~  293 (385)
                           ..    .....+...+..   ...+..||.||....     +.+  .....+.+...+.++-..+|....-. ..
T Consensus       120 ~~~~~~~~~~~~~~~~ll~~ld~~~~~~~~v~vI~atn~~~~ld~al~r--Rf~~~i~i~~P~~~~r~~il~~~l~~-~~  196 (322)
T 1xwi_A          120 SRSENESEAARRIKTEFLVQMQGVGVDNDGILVLGATNIPWVLDSAIRR--RFEKRIYIPLPEPHARAAMFKLHLGT-TQ  196 (322)
T ss_dssp             CSSSCCTTHHHHHHHHHHHHHHCSSSCCTTEEEEEEESCTTTSCHHHHH--TCCEEEECCCCCHHHHHHHHHHHHTT-CC
T ss_pred             ccccccchHHHHHHHHHHHHHhcccccCCCEEEEEecCCcccCCHHHHh--hcCeEEEeCCcCHHHHHHHHHHHHhc-CC
Confidence                 00    111222222221   123444555665432     222  22245678888888888887765421 11


Q ss_pred             CCCCccHHHHHHHHHHHcCCC-hHHHHHH
Q 038448          294 FSTHPSLKEIGEKIVKKCNGL-PLVAKSL  321 (385)
Q Consensus       294 ~~~~~~l~~~~~~i~~~c~gl-PLAi~~~  321 (385)
                      ...   -......|++.+.|. +-.|..+
T Consensus       197 ~~l---~~~~l~~la~~t~G~sgadl~~l  222 (322)
T 1xwi_A          197 NSL---TEADFRELGRKTDGYSGADISII  222 (322)
T ss_dssp             BCC---CHHHHHHHHHTCTTCCHHHHHHH
T ss_pred             CCC---CHHHHHHHHHHcCCCCHHHHHHH
Confidence            111   134567788888886 4334443

>3d8b_A Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, structural genomics consortium, ATP- hydrolase, magnesium, metal-binding, nucleotide-binding; HET: ADP; 2.00A {Homo sapiens}

Probab=96.62  E-value=0.02  Score=53.28  Aligned_cols=156  Identities=12%  Similarity=-0.015  Sum_probs=78.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecCCCC-----HHHHHHHHHHHhhcCCC--CCccchHHhh-
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDFD-----IIRVTKSILKSIASDQL--VDDHDLNLLQ-  230 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~-----~~~~~~~il~~l~~~~~--~~~~~~~~l~-  230 (385)
                      ..+.|.|+|++|+|||+||+.+++.  ....   .+.++.+.-..     .....+.++........  ...++++.+. 
T Consensus       116 ~~~~vLl~GppGtGKT~la~aia~~--~~~~---~~~i~~~~l~~~~~g~~~~~~~~~~~~a~~~~~~vl~iDEid~l~~  190 (357)
T 3d8b_A          116 PPKGILLFGPPGTGKTLIGKCIASQ--SGAT---FFSISASSLTSKWVGEGEKMVRALFAVARCQQPAVIFIDEIDSLLS  190 (357)
T ss_dssp             CCSEEEEESSTTSSHHHHHHHHHHH--TTCE---EEEEEGGGGCCSSTTHHHHHHHHHHHHHHHTCSEEEEEETHHHHTB
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHH--cCCe---EEEEehHHhhccccchHHHHHHHHHHHHHhcCCeEEEEeCchhhhc
Confidence            3567899999999999999999874  2222   23444333211     23444444444332221  0223333331 


Q ss_pred             ---------chhhHhhHhhhccC----CCCCcEEEEEcCChh-HHhhc--CCCCcccCCCCChhhHHhhhhccccCCCCC
Q 038448          231 ---------KYNDWTNRSRLFEA----GAPGSKIVFTTRNLG-VAEKM--GPLPAYPLKELSNDDCLSVFSPHSLGEKDF  294 (385)
Q Consensus       231 ---------~~~~w~~l~~~l~~----~~~gs~IivTTR~~~-va~~~--~~~~~~~l~~L~~~~a~~Lf~~~a~~~~~~  294 (385)
                               .......+...+..    ...+..||.||.... +...+  .....+.+...+.++...++...+-... .
T Consensus       191 ~~~~~~~~~~~~~~~~lL~~l~~~~~~~~~~v~vI~atn~~~~l~~~l~~Rf~~~i~i~~p~~~~r~~il~~~~~~~~-~  269 (357)
T 3d8b_A          191 QRGDGEHESSRRIKTEFLVQLDGATTSSEDRILVVGATNRPQEIDEAARRRLVKRLYIPLPEASARKQIVINLMSKEQ-C  269 (357)
T ss_dssp             C------CHHHHHHHHHHHHHHC----CCCCEEEEEEESCGGGBCHHHHTTCCEEEECCCCCHHHHHHHHHHHHHTSC-B
T ss_pred             cCCCCcchHHHHHHHHHHHHHhcccccCCCCEEEEEecCChhhCCHHHHhhCceEEEeCCcCHHHHHHHHHHHHhhcC-C
Confidence                     11112233333321    122344555665432 11111  1123567888888887777765542111 1


Q ss_pred             CCCccHHHHHHHHHHHcCC-ChHHHHHHHH
Q 038448          295 STHPSLKEIGEKIVKKCNG-LPLVAKSLGG  323 (385)
Q Consensus       295 ~~~~~l~~~~~~i~~~c~g-lPLAi~~~~~  323 (385)
                      ..   .......|++.+.| .|-.+..+..
T Consensus       270 ~l---~~~~l~~la~~t~G~s~~dl~~l~~  296 (357)
T 3d8b_A          270 CL---SEEEIEQIVQQSDAFSGADMTQLCR  296 (357)
T ss_dssp             CC---CHHHHHHHHHHTTTCCHHHHHHHHH
T ss_pred             Cc---cHHHHHHHHHHcCCCCHHHHHHHHH
Confidence            11   13456778888888 5555655544

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=96.61  E-value=0.0017  Score=53.83  Aligned_cols=39  Identities=21%  Similarity=0.282  Sum_probs=27.7

Q ss_pred             hhhHHHHHHHHhcCCCCCCCCceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          139 DKEKEETVKLLLRDDLRTDDGLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       139 ~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      +.+.+.+.+.+..      .....+.|+|++|+|||+||+.+.+.
T Consensus        28 ~~~~~~l~~~l~~------~~~~~vll~G~~G~GKT~la~~~~~~   66 (187)
T 2p65_A           28 DTEIRRAIQILSR------RTKNNPILLGDPGVGKTAIVEGLAIK   66 (187)
T ss_dssp             HHHHHHHHHHHTS------SSSCEEEEESCGGGCHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHhC------CCCCceEEECCCCCCHHHHHHHHHHH
Confidence            3344555566533      23356789999999999999998774

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=96.54  E-value=0.0032  Score=53.31  Aligned_cols=36  Identities=17%  Similarity=0.084  Sum_probs=27.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEe
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCV  198 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v  198 (385)
                      ..+.|+|++|+|||+||+.+++.  .......++|++.
T Consensus        55 ~~~~l~G~~GtGKT~la~~i~~~--~~~~~~~~~~~~~   90 (202)
T 2w58_A           55 KGLYLHGSFGVGKTYLLAAIANE--LAKRNVSSLIVYV   90 (202)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHH--HHTTTCCEEEEEH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH--HHHcCCeEEEEEh
Confidence            67889999999999999999985  3333344566654

>4b4t_J 26S protease regulatory subunit 8 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=96.52  E-value=0.016  Score=54.50  Aligned_cols=147  Identities=14%  Similarity=0.095  Sum_probs=74.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecCCC-----CHHHHHHHHHHHhhcCCCC--CccchHHhh-
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDF-----DIIRVTKSILKSIASDQLV--DDHDLNLLQ-  230 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~-----~~~~~~~~il~~l~~~~~~--~~~~~~~l~-  230 (385)
                      .++=|.++|++|.|||.||+++.+.  ....|   +.++.+.-.     .....++.++.......+.  ..+.++.+- 
T Consensus       181 ~prGvLL~GPPGTGKTllAkAiA~e--~~~~f---~~v~~s~l~sk~vGese~~vr~lF~~Ar~~aP~IIFiDEiDai~~  255 (405)
T 4b4t_J          181 QPKGVILYGPPGTGKTLLARAVAHH--TDCKF---IRVSGAELVQKYIGEGSRMVRELFVMAREHAPSIIFMDEIDSIGS  255 (405)
T ss_dssp             CCCCEEEESCSSSSHHHHHHHHHHH--HTCEE---EEEEGGGGSCSSTTHHHHHHHHHHHHHHHTCSEEEEEESSSCCTT
T ss_pred             CCCceEEeCCCCCCHHHHHHHHHHh--hCCCc---eEEEhHHhhccccchHHHHHHHHHHHHHHhCCceEeeecchhhcc
Confidence            3466889999999999999999985  33333   334433321     1344555555554333221  111111111 


Q ss_pred             --------ch----hhHhhHhhhccC--CCCCcEEEEEcCChhHH-----hhcCCCCcccCCCCChhhHHhhhhccccCC
Q 038448          231 --------KY----NDWTNRSRLFEA--GAPGSKIVFTTRNLGVA-----EKMGPLPAYPLKELSNDDCLSVFSPHSLGE  291 (385)
Q Consensus       231 --------~~----~~w~~l~~~l~~--~~~gs~IivTTR~~~va-----~~~~~~~~~~l~~L~~~~a~~Lf~~~a~~~  291 (385)
                              ..    .....+...+..  ...+-.||.||...+..     +.-.-...+.+...+.++-.++|..+.- .
T Consensus       256 ~R~~~~~~~~~~~~~~l~~lL~~lDg~~~~~~V~vIaATNrpd~LDpAllRpGRfD~~I~i~lPd~~~R~~Il~~~~~-~  334 (405)
T 4b4t_J          256 TRVEGSGGGDSEVQRTMLELLNQLDGFETSKNIKIIMATNRLDILDPALLRPGRIDRKIEFPPPSVAARAEILRIHSR-K  334 (405)
T ss_dssp             SCSCSSSGGGGHHHHHHHHHHHHHHTTTCCCCEEEEEEESCSSSSCHHHHSTTSSCCEEECCCCCHHHHHHHHHHHHT-T
T ss_pred             CCCCCCCCCcHHHHHHHHHHHHhhhccCCCCCeEEEeccCChhhCCHhHcCCCcCceEEEcCCcCHHHHHHHHHHHhc-C
Confidence                    00    111222222222  23344566677654332     1112335678888888887888865532 1


Q ss_pred             CCCCCCccHHHHHHHHHHHcCCCh
Q 038448          292 KDFSTHPSLKEIGEKIVKKCNGLP  315 (385)
Q Consensus       292 ~~~~~~~~l~~~~~~i~~~c~glP  315 (385)
                      ......-+    ...|++.+.|+-
T Consensus       335 ~~l~~dvd----l~~lA~~t~G~S  354 (405)
T 4b4t_J          335 MNLTRGIN----LRKVAEKMNGCS  354 (405)
T ss_dssp             SBCCSSCC----HHHHHHHCCSCC
T ss_pred             CCCCccCC----HHHHHHHCCCCC
Confidence            11111123    345677787753

>3u61_B DNA polymerase accessory protein 44; AAA+, ATP hydrolase, clamp loader, sliding clamp, primer-TEM DNA, DNA binding protein-DNA complex; HET: DNA ADP 08T; 3.20A {Enterobacteria phage T4} PDB: 3u5z_B* 3u60_B*

Probab=96.48  E-value=0.022  Score=52.06  Aligned_cols=147  Identities=15%  Similarity=0.114  Sum_probs=74.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecCCCCHHHHHHHHHHHhhcCCC----C---CccchHHhhch
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDFDIIRVTKSILKSIASDQL----V---DDHDLNLLQKY  232 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~il~~l~~~~~----~---~~~~~~~l~~~  232 (385)
                      ..++.+.|++|+|||++|+.+.+.  ..   ...+.++.+. .. ...+..++........    .   ..++.+.+...
T Consensus        48 ~~~~L~~G~~G~GKT~la~~la~~--l~---~~~~~i~~~~-~~-~~~i~~~~~~~~~~~~~~~~~~vliiDEi~~l~~~  120 (324)
T 3u61_B           48 PHIILHSPSPGTGKTTVAKALCHD--VN---ADMMFVNGSD-CK-IDFVRGPLTNFASAASFDGRQKVIVIDEFDRSGLA  120 (324)
T ss_dssp             CSEEEECSSTTSSHHHHHHHHHHH--TT---EEEEEEETTT-CC-HHHHHTHHHHHHHBCCCSSCEEEEEEESCCCGGGH
T ss_pred             CeEEEeeCcCCCCHHHHHHHHHHH--hC---CCEEEEcccc-cC-HHHHHHHHHHHHhhcccCCCCeEEEEECCcccCcH
Confidence            367788888999999999999875  22   1234455443 23 3333443333222111    0   01112222112


Q ss_pred             hhHhhHhhhccCCCCCcEEEEEcCChh-----HHhhcCCCCcccCCCCChhhHHhh-------hhccccCCCCCCCCccH
Q 038448          233 NDWTNRSRLFEAGAPGSKIVFTTRNLG-----VAEKMGPLPAYPLKELSNDDCLSV-------FSPHSLGEKDFSTHPSL  300 (385)
Q Consensus       233 ~~w~~l~~~l~~~~~gs~IivTTR~~~-----va~~~~~~~~~~l~~L~~~~a~~L-------f~~~a~~~~~~~~~~~l  300 (385)
                      +..+.+...+.....+.++|+||....     +...+   ..+.+.+++.++-..+       +...+.. .....++  
T Consensus       121 ~~~~~L~~~le~~~~~~~iI~~~n~~~~l~~~l~sR~---~~i~~~~~~~~e~~~il~~~~~~l~~~~~~-~~~~~~~--  194 (324)
T 3u61_B          121 ESQRHLRSFMEAYSSNCSIIITANNIDGIIKPLQSRC---RVITFGQPTDEDKIEMMKQMIRRLTEICKH-EGIAIAD--  194 (324)
T ss_dssp             HHHHHHHHHHHHHGGGCEEEEEESSGGGSCTTHHHHS---EEEECCCCCHHHHHHHHHHHHHHHHHHHHH-HTCCBSC--
T ss_pred             HHHHHHHHHHHhCCCCcEEEEEeCCccccCHHHHhhC---cEEEeCCCCHHHHHHHHHHHHHHHHHHHHH-cCCCCCc--
Confidence            333444444433334567888887543     22222   3688889998774222       2222111 1111111  


Q ss_pred             HHHHHHHHHHcCCChHHHH
Q 038448          301 KEIGEKIVKKCNGLPLVAK  319 (385)
Q Consensus       301 ~~~~~~i~~~c~glPLAi~  319 (385)
                      .+....|++.++|.+-.+.
T Consensus       195 ~~~~~~l~~~~~gd~R~a~  213 (324)
T 3u61_B          195 MKVVAALVKKNFPDFRKTI  213 (324)
T ss_dssp             HHHHHHHHHHTCSCTTHHH
T ss_pred             HHHHHHHHHhCCCCHHHHH
Confidence            2566778888988765433

>2qp9_X Vacuolar protein sorting-associated protein 4; ATPase domain, beta domain, C-terminal helix, ATP-binding, E nucleotide-binding; 2.90A {Saccharomyces cerevisiae} PDB: 2qpa_A*

Probab=96.43  E-value=0.012  Score=54.85  Aligned_cols=151  Identities=12%  Similarity=0.020  Sum_probs=73.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecC---CC--CHHHHHHHHHHHhhcCCC--CCccchHHhhc-
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSE---DF--DIIRVTKSILKSIASDQL--VDDHDLNLLQK-  231 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~---~~--~~~~~~~~il~~l~~~~~--~~~~~~~~l~~-  231 (385)
                      .+-|.|+|++|+|||+||+.+++.  ....|   +.++.+.   .+  .....++.++........  ...++++.+.. 
T Consensus        84 ~~~iLL~GppGtGKT~la~ala~~--~~~~~---~~v~~~~l~~~~~g~~~~~~~~~f~~a~~~~~~vl~iDEid~l~~~  158 (355)
T 2qp9_X           84 TSGILLYGPPGTGKSYLAKAVATE--ANSTF---FSVSSSDLVSKWMGESEKLVKQLFAMARENKPSIIFIDQVDALTGT  158 (355)
T ss_dssp             CCCEEEECSTTSCHHHHHHHHHHH--HTCEE---EEEEHHHHHSCC---CHHHHHHHHHHHHHTSSEEEEEECGGGGTC-
T ss_pred             CceEEEECCCCCcHHHHHHHHHHH--hCCCE---EEeeHHHHhhhhcchHHHHHHHHHHHHHHcCCeEEEEechHhhccc
Confidence            355889999999999999999885  22222   2232211   10  123344444444322111  01223332221 


Q ss_pred             ---------hhhHhhHhhhcc---CCCCCcEEEEEcCChh-----HHhhcCCCCcccCCCCChhhHHhhhhccccCCCCC
Q 038448          232 ---------YNDWTNRSRLFE---AGAPGSKIVFTTRNLG-----VAEKMGPLPAYPLKELSNDDCLSVFSPHSLGEKDF  294 (385)
Q Consensus       232 ---------~~~w~~l~~~l~---~~~~gs~IivTTR~~~-----va~~~~~~~~~~l~~L~~~~a~~Lf~~~a~~~~~~  294 (385)
                               ......+...+.   ....+..||.||....     +..  .....+.+...+.++-..+|...+... ..
T Consensus       159 r~~~~~~~~~~~~~~ll~~l~~~~~~~~~v~vI~atn~~~~ld~al~r--Rf~~~i~i~~P~~~~r~~il~~~l~~~-~~  235 (355)
T 2qp9_X          159 RGEGESEASRRIKTELLVQMNGVGNDSQGVLVLGATNIPWQLDSAIRR--RFERRIYIPLPDLAARTTMFEINVGDT-PS  235 (355)
T ss_dssp             -----CTHHHHHHHHHHHHHHHCC---CCEEEEEEESCGGGSCHHHHH--TCCEEEECCCCCHHHHHHHHHHHHTTS-CB
T ss_pred             CCCCcchHHHHHHHHHHHHhhcccccCCCeEEEeecCCcccCCHHHHc--ccCEEEEeCCcCHHHHHHHHHHHHhhC-CC
Confidence                     001122222222   1233455666665442     222  222456788888888888887654221 11


Q ss_pred             CCCccHHHHHHHHHHHcCCC-hHHHHHH
Q 038448          295 STHPSLKEIGEKIVKKCNGL-PLVAKSL  321 (385)
Q Consensus       295 ~~~~~l~~~~~~i~~~c~gl-PLAi~~~  321 (385)
                      ...   ......|++.+.|. |-.|..+
T Consensus       236 ~~~---~~~l~~la~~t~G~sg~dl~~l  260 (355)
T 2qp9_X          236 VLT---KEDYRTLGAMTEGYSGSDIAVV  260 (355)
T ss_dssp             CCC---HHHHHHHHHHTTTCCHHHHHHH
T ss_pred             CCC---HHHHHHHHHHcCCCCHHHHHHH
Confidence            111   33456788888884 4334443

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=96.36  E-value=0.0048  Score=52.40  Aligned_cols=37  Identities=35%  Similarity=0.318  Sum_probs=27.3

Q ss_pred             HHHHHHHhcCCCCCCCCceEEEEEcCCCCcHHHHHHHHhc
Q 038448          143 EETVKLLLRDDLRTDDGLSVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       143 ~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      +.+.+.+....   .....+|+|+|.+|+|||||++.+..
T Consensus         8 ~~l~~~~~~~~---~~~~~~i~i~G~~GsGKstl~~~l~~   44 (201)
T 1rz3_A            8 DFLCKTILAIK---TAGRLVLGIDGLSRSGKTTLANQLSQ   44 (201)
T ss_dssp             HHHHHHHHTSC---CSSSEEEEEEECTTSSHHHHHHHHHH
T ss_pred             HHHHHHHHHhc---cCCCeEEEEECCCCCCHHHHHHHHHH
Confidence            44555555432   23457999999999999999998875

>3lw7_A Adenylate kinase related protein (ADKA-like); AMP, PSI, MCSG, structural genomics, midwest center for structural genomics; HET: AMP; 2.30A {Sulfolobus solfataricus} PDB: 3h0k_A

Probab=96.32  E-value=0.002  Score=52.96  Aligned_cols=20  Identities=40%  Similarity=0.502  Sum_probs=18.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHH
Q 038448          161 SVIPIIGTGRIGKTTLAQLA  180 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v  180 (385)
                      .+|.|.|++|+||||+|+.+
T Consensus         2 ~~I~l~G~~GsGKsT~a~~L   21 (179)
T 3lw7_A            2 KVILITGMPGSGKSEFAKLL   21 (179)
T ss_dssp             CEEEEECCTTSCHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHH
Confidence            47999999999999999999

>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=96.28  E-value=0.0034  Score=52.20  Aligned_cols=24  Identities=25%  Similarity=0.336  Sum_probs=21.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      -..+.|+|++|+|||||++.+++.
T Consensus        38 g~~~~l~G~~G~GKTtL~~~i~~~   61 (180)
T 3ec2_A           38 GKGLTFVGSPGVGKTHLAVATLKA   61 (180)
T ss_dssp             CCEEEECCSSSSSHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHH
Confidence            368899999999999999999875

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=96.27  E-value=0.0036  Score=53.43  Aligned_cols=25  Identities=24%  Similarity=0.379  Sum_probs=22.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .-.+|+|+|..|.|||||++.+..-
T Consensus        21 ~g~~v~I~G~sGsGKSTl~~~l~~~   45 (208)
T 3c8u_A           21 GRQLVALSGAPGSGKSTLSNPLAAA   45 (208)
T ss_dssp             SCEEEEEECCTTSCTHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHH
Confidence            4579999999999999999988763

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=96.19  E-value=0.012  Score=55.93  Aligned_cols=25  Identities=20%  Similarity=0.194  Sum_probs=22.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .++=|.++|++|.|||+||+++.+.
T Consensus       205 ~prGiLL~GPPGtGKT~lakAiA~~  229 (428)
T 4b4t_K          205 PPRGVLLYGPPGTGKTMLVKAVANS  229 (428)
T ss_dssp             CCCEEEEESCTTTTHHHHHHHHHHH
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHH
Confidence            4567899999999999999999985

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=96.17  E-value=0.0058  Score=55.08  Aligned_cols=27  Identities=19%  Similarity=0.274  Sum_probs=23.0

Q ss_pred             CCCceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          157 DDGLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       157 ~~~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .....+|.|.|++|+||||+|+.+...
T Consensus        30 ~~~~~livl~G~sGsGKSTla~~L~~~   56 (287)
T 1gvn_B           30 VESPTAFLLGGQPGSGKTSLRSAIFEE   56 (287)
T ss_dssp             CSSCEEEEEECCTTSCTHHHHHHHHHH
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            345688999999999999999999763

>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=96.13  E-value=0.0028  Score=52.03  Aligned_cols=23  Identities=22%  Similarity=0.174  Sum_probs=20.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .+|.|.|++|+||||+|+.+...
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            47899999999999999998763

>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=96.12  E-value=0.0028  Score=52.47  Aligned_cols=23  Identities=22%  Similarity=0.251  Sum_probs=20.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .+|.|+|++|+||||+|+.+...
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            57899999999999999999874

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=96.11  E-value=0.0052  Score=54.24  Aligned_cols=28  Identities=21%  Similarity=0.293  Sum_probs=23.6

Q ss_pred             CCCCceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          156 TDDGLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       156 ~~~~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ......+|.|+|++|+||||+|+.+...
T Consensus        28 ~~~~~~~i~l~G~~GsGKSTla~~L~~~   55 (253)
T 2p5t_B           28 SSKQPIAILLGGQSGAGKTTIHRIKQKE   55 (253)
T ss_dssp             CCSSCEEEEEESCGGGTTHHHHHHHHHH
T ss_pred             cccCCeEEEEECCCCCCHHHHHHHHHHh
Confidence            3345689999999999999999998763

>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=96.11  E-value=0.0032  Score=52.74  Aligned_cols=24  Identities=21%  Similarity=0.224  Sum_probs=21.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      -.+++|+|++|+|||||++.+...
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            368999999999999999999874

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=96.09  E-value=0.0032  Score=52.10  Aligned_cols=22  Identities=32%  Similarity=0.339  Sum_probs=20.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      .+|.|.|++|+||||+|+.+..
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            5799999999999999999976

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=96.09  E-value=0.0028  Score=50.71  Aligned_cols=22  Identities=14%  Similarity=0.077  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcc
Q 038448          162 VIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      -|.|+|.+|+|||++|+.+++.
T Consensus        29 ~vll~G~~GtGKt~lA~~i~~~   50 (143)
T 3co5_A           29 PVFLTGEAGSPFETVARYFHKN   50 (143)
T ss_dssp             CEEEEEETTCCHHHHHGGGCCT
T ss_pred             cEEEECCCCccHHHHHHHHHHh
Confidence            4779999999999999999874

>4b4t_L 26S protease subunit RPT4; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=96.07  E-value=0.027  Score=53.71  Aligned_cols=147  Identities=14%  Similarity=0.169  Sum_probs=73.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecCCC-----CHHHHHHHHHHHhhcCCCC--CccchHHhh-
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDF-----DIIRVTKSILKSIASDQLV--DDHDLNLLQ-  230 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~-----~~~~~~~~il~~l~~~~~~--~~~~~~~l~-  230 (385)
                      .++=|.++|++|.|||+||+++.+.  ....|   +.++.+.-.     .....++.+........+.  ..+.++.+- 
T Consensus       214 ~prGvLL~GPPGtGKTllAkAiA~e--~~~~~---~~v~~s~l~sk~~Gese~~ir~~F~~A~~~~P~IifiDEiDai~~  288 (437)
T 4b4t_L          214 PPKGVLLYGPPGTGKTLLAKAVAAT--IGANF---IFSPASGIVDKYIGESARIIREMFAYAKEHEPCIIFMDEVDAIGG  288 (437)
T ss_dssp             CCCEEEEESCTTSSHHHHHHHHHHH--HTCEE---EEEEGGGTCCSSSSHHHHHHHHHHHHHHHSCSEEEEEECCCSSSC
T ss_pred             CCCeEEEECCCCCcHHHHHHHHHHH--hCCCE---EEEehhhhccccchHHHHHHHHHHHHHHhcCCceeeeeccccccc
Confidence            4577899999999999999999985  33222   334433321     1234455555544332221  011111111 


Q ss_pred             --------c----hhhHhhHhhhccC--CCCCcEEEEEcCChhHHhh--cCC---CCcccCCCCChhhHHhhhhccccCC
Q 038448          231 --------K----YNDWTNRSRLFEA--GAPGSKIVFTTRNLGVAEK--MGP---LPAYPLKELSNDDCLSVFSPHSLGE  291 (385)
Q Consensus       231 --------~----~~~w~~l~~~l~~--~~~gs~IivTTR~~~va~~--~~~---~~~~~l~~L~~~~a~~Lf~~~a~~~  291 (385)
                              .    ......+...+..  ...+..||.||........  ..+   ...+.+...+.++-..+|..+.-. 
T Consensus       289 ~R~~~~~~~~~~~~~~l~~lL~~lDg~~~~~~vivI~ATNrp~~LDpAllRpGRfD~~I~i~lPd~~~R~~Il~~~~~~-  367 (437)
T 4b4t_L          289 RRFSEGTSADREIQRTLMELLTQMDGFDNLGQTKIIMATNRPDTLDPALLRPGRLDRKVEIPLPNEAGRLEIFKIHTAK-  367 (437)
T ss_dssp             CCSSSCCSSTTHHHHHHHHHHHHHHSSSCTTSSEEEEEESSTTSSCTTTTSTTSEEEEECCCCCCHHHHHHHHHHHHHT-
T ss_pred             ccccCCCCcchHHHHHHHHHHHHhhcccCCCCeEEEEecCCchhhCHHHhCCCccceeeecCCcCHHHHHHHHHHHhcC-
Confidence                    0    0112223333322  2334567778875543321  112   235677777777777777654321 


Q ss_pred             CCCCCCccHHHHHHHHHHHcCCCh
Q 038448          292 KDFSTHPSLKEIGEKIVKKCNGLP  315 (385)
Q Consensus       292 ~~~~~~~~l~~~~~~i~~~c~glP  315 (385)
                      ......-++    ..|++.+.|+-
T Consensus       368 ~~~~~d~dl----~~lA~~t~G~s  387 (437)
T 4b4t_L          368 VKKTGEFDF----EAAVKMSDGFN  387 (437)
T ss_dssp             SCBCSCCCH----HHHHHTCCSCC
T ss_pred             CCCCcccCH----HHHHHhCCCCC
Confidence            111111233    45667777753

>2zan_A Vacuolar protein sorting-associating protein 4B; SKD1, VPS4B, AAA ATPase, ATP-binding, coiled coil, membrane, nucleotide-binding, phosphorylation; HET: ATP; 3.00A {Mus musculus} PDB: 2zam_A* 2zao_A* 2jqh_A 2jqk_A 1wr0_A 2jq9_A 2k3w_A 1yxr_A

Probab=96.03  E-value=0.048  Score=52.27  Aligned_cols=25  Identities=24%  Similarity=0.287  Sum_probs=22.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ..+-|.|+|++|+|||+||+.+++.
T Consensus       166 ~~~~vLL~GppGtGKT~lA~aia~~  190 (444)
T 2zan_A          166 PWRGILLFGPPGTGKSYLAKAVATE  190 (444)
T ss_dssp             CCSEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHH
Confidence            3467899999999999999999875

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=95.98  E-value=0.0038  Score=52.01  Aligned_cols=23  Identities=9%  Similarity=0.368  Sum_probs=20.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ++++|+|++|+|||||++.+...
T Consensus         6 ~~i~i~GpsGsGKSTL~~~L~~~   28 (180)
T 1kgd_A            6 KTLVLLGAHGVGRRHIKNTLITK   28 (180)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHhh
Confidence            68999999999999999998763

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=95.98  E-value=0.0035  Score=53.09  Aligned_cols=24  Identities=29%  Similarity=0.238  Sum_probs=21.4

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      -.+|.|+|++|+||||+++.+...
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            368999999999999999999863

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=95.95  E-value=0.0032  Score=51.83  Aligned_cols=23  Identities=22%  Similarity=0.289  Sum_probs=20.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .+|+|+|++|+|||||++.+...
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            57999999999999999999763

>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=95.94  E-value=0.006  Score=55.07  Aligned_cols=26  Identities=19%  Similarity=0.133  Sum_probs=22.6

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          158 DGLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       158 ~~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ....+|+|+|..|+||||||+.+...
T Consensus        29 ~~~~ii~I~G~sGsGKSTla~~L~~~   54 (290)
T 1odf_A           29 KCPLFIFFSGPQGSGKSFTSIQIYNH   54 (290)
T ss_dssp             CSCEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            45689999999999999999887653

>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=95.92  E-value=0.0038  Score=52.39  Aligned_cols=23  Identities=30%  Similarity=0.459  Sum_probs=20.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      +.|.|+|++|+|||||++.+...
T Consensus         2 RpIVi~GPSG~GK~Tl~~~L~~~   24 (186)
T 1ex7_A            2 RPIVISGPSGTGKSTLLKKLFAE   24 (186)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHh
Confidence            45789999999999999998764

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=95.84  E-value=0.0045  Score=51.58  Aligned_cols=24  Identities=29%  Similarity=0.257  Sum_probs=21.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .+.|.|+|++|+||||+|+.+...
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            357889999999999999999763

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens}

Probab=95.84  E-value=0.035  Score=52.16  Aligned_cols=155  Identities=12%  Similarity=0.036  Sum_probs=74.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecCCC-----CHHHHHHHHHHHhhcCCCC--CccchHHhh--
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDF-----DIIRVTKSILKSIASDQLV--DDHDLNLLQ--  230 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~-----~~~~~~~~il~~l~~~~~~--~~~~~~~l~--  230 (385)
                      .+-|.|+|.+|+|||+||+.+.+.  ....|   +.++.+.-.     .....+..++.........  ..++++.+.  
T Consensus       148 ~~~vLL~GppGtGKT~la~aia~~--~~~~~---~~v~~~~l~~~~~g~~~~~~~~~~~~a~~~~~~il~iDEid~l~~~  222 (389)
T 3vfd_A          148 ARGLLLFGPPGNGKTMLAKAVAAE--SNATF---FNISAASLTSKYVGEGEKLVRALFAVARELQPSIIFIDQVDSLLCE  222 (389)
T ss_dssp             CSEEEEESSTTSCHHHHHHHHHHH--TTCEE---EEECSCCC-------CHHHHHHHHHHHHHSSSEEEEEETGGGGC--
T ss_pred             CceEEEECCCCCCHHHHHHHHHHh--hcCcE---EEeeHHHhhccccchHHHHHHHHHHHHHhcCCeEEEEECchhhccc
Confidence            467899999999999999999874  22222   223322211     1223344444443332210  122333221  


Q ss_pred             --------chhhHhhHhhhcc---C-CCCCcEEEEEcCChhHH-hh-cC-CCCcccCCCCChhhHHhhhhccccCCCCCC
Q 038448          231 --------KYNDWTNRSRLFE---A-GAPGSKIVFTTRNLGVA-EK-MG-PLPAYPLKELSNDDCLSVFSPHSLGEKDFS  295 (385)
Q Consensus       231 --------~~~~w~~l~~~l~---~-~~~gs~IivTTR~~~va-~~-~~-~~~~~~l~~L~~~~a~~Lf~~~a~~~~~~~  295 (385)
                              .......+...+.   . ......||.||...... .. .. ....+.+...+.++-..++...+-....  
T Consensus       223 ~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~~~l~~~l~~R~~~~i~i~~p~~~~r~~il~~~~~~~~~--  300 (389)
T 3vfd_A          223 RREGEHDASRRLKTEFLIEFDGVQSAGDDRVLVMGATNRPQELDEAVLRRFIKRVYVSLPNEETRLLLLKNLLCKQGS--  300 (389)
T ss_dssp             ------CTHHHHHHHHHHHHHHHC-----CEEEEEEESCGGGCCHHHHTTCCEEEECCCCCHHHHHHHHHHHHTTSCC--
T ss_pred             CCCccchHHHHHHHHHHHHhhcccccCCCCEEEEEecCCchhcCHHHHcCcceEEEcCCcCHHHHHHHHHHHHHhcCC--
Confidence                    0111112222221   1 12234455566543211 11 11 1235778888888888888765422111  


Q ss_pred             CCccHHHHHHHHHHHcCCChH-HHHHHHH
Q 038448          296 THPSLKEIGEKIVKKCNGLPL-VAKSLGG  323 (385)
Q Consensus       296 ~~~~l~~~~~~i~~~c~glPL-Ai~~~~~  323 (385)
                        .-.......|++.+.|..- ++..+..
T Consensus       301 --~l~~~~~~~la~~~~g~~~~~l~~L~~  327 (389)
T 3vfd_A          301 --PLTQKELAQLARMTDGYSGSDLTALAK  327 (389)
T ss_dssp             --CSCHHHHHHHHHHTTTCCHHHHHHHHH
T ss_pred             --CCCHHHHHHHHHHcCCCCHHHHHHHHH
Confidence              1113456788888988544 5555443

>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=95.81  E-value=0.0054  Score=51.34  Aligned_cols=25  Identities=32%  Similarity=0.355  Sum_probs=21.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ...+|.|.|++|+||||+|+.+...
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            3478999999999999999998763

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=95.81  E-value=0.0048  Score=51.56  Aligned_cols=23  Identities=17%  Similarity=0.170  Sum_probs=20.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .+|.|.|++|+||||+|+.+...
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            47899999999999999999774

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=95.78  E-value=0.0041  Score=52.71  Aligned_cols=24  Identities=17%  Similarity=0.302  Sum_probs=21.4

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ..+|.|.|++|+||||+|+.+...
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            468999999999999999998764

>3uie_A Adenylyl-sulfate kinase 1, chloroplastic; rossmann fold, transferase-transferase complex; HET: ADX ANP; 1.79A {Arabidopsis thaliana} SCOP: c.37.1.0 PDB: 4fxp_A*

Probab=95.78  E-value=0.0063  Score=51.54  Aligned_cols=25  Identities=32%  Similarity=0.183  Sum_probs=22.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .-.+|.|+|++|.|||||++.+...
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            3479999999999999999998764

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=95.74  E-value=0.0053  Score=51.96  Aligned_cols=23  Identities=22%  Similarity=0.265  Sum_probs=20.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .+++|+|+.|+|||||++.+...
T Consensus         8 ~ii~l~Gp~GsGKSTl~~~L~~~   30 (205)
T 3tr0_A            8 NLFIISAPSGAGKTSLVRALVKA   30 (205)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHH
T ss_pred             cEEEEECcCCCCHHHHHHHHHhh
Confidence            58999999999999999998763

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=95.74  E-value=0.0052  Score=50.71  Aligned_cols=23  Identities=35%  Similarity=0.635  Sum_probs=20.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhc
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      -.+++|+|++|+|||||++.++.
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            36899999999999999998654

>1knq_A Gluconate kinase; ALFA/beta structure, transferase; 2.00A {Escherichia coli} SCOP: c.37.1.17 PDB: 1ko1_A 1ko4_A 1ko5_A* 1ko8_A* 1kof_A*

Probab=95.70  E-value=0.0077  Score=49.61  Aligned_cols=23  Identities=17%  Similarity=0.280  Sum_probs=20.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhc
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      -.+|+|+|++|+||||+++.+..
T Consensus         8 g~~i~l~G~~GsGKSTl~~~l~~   30 (175)
T 1knq_A            8 HHIYVLMGVSGSGKSAVASEVAH   30 (175)
T ss_dssp             SEEEEEECSTTSCHHHHHHHHHH
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHH
Confidence            46899999999999999999876

>4b4t_H 26S protease regulatory subunit 7 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=95.69  E-value=0.026  Score=53.95  Aligned_cols=147  Identities=13%  Similarity=0.101  Sum_probs=73.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecCC---C--CHHHHHHHHHHHhhcCCCC--CccchHHhh-
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSED---F--DIIRVTKSILKSIASDQLV--DDHDLNLLQ-  230 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~---~--~~~~~~~~il~~l~~~~~~--~~~~~~~l~-  230 (385)
                      .++=|.++|++|.|||+||+++.+.  ....|   +.++.+.-   +  .....++.++.......+.  ..+.++.+- 
T Consensus       242 pprGILLyGPPGTGKTlLAkAiA~e--~~~~f---i~vs~s~L~sk~vGesek~ir~lF~~Ar~~aP~IIfiDEiDai~~  316 (467)
T 4b4t_H          242 PPKGILLYGPPGTGKTLCARAVANR--TDATF---IRVIGSELVQKYVGEGARMVRELFEMARTKKACIIFFDEIDAVGG  316 (467)
T ss_dssp             CCSEEEECSCTTSSHHHHHHHHHHH--HTCEE---EEEEGGGGCCCSSSHHHHHHHHHHHHHHHTCSEEEEEECCTTTSB
T ss_pred             CCCceEeeCCCCCcHHHHHHHHHhc--cCCCe---EEEEhHHhhcccCCHHHHHHHHHHHHHHhcCCceEeecccccccc
Confidence            4577889999999999999999985  33333   33443221   1  1344555555544333221  111111111 


Q ss_pred             ------------chhhHhhHhhhccC--CCCCcEEEEEcCChhHHh--hc---CCCCcccCCCCChhhHHhhhhccccCC
Q 038448          231 ------------KYNDWTNRSRLFEA--GAPGSKIVFTTRNLGVAE--KM---GPLPAYPLKELSNDDCLSVFSPHSLGE  291 (385)
Q Consensus       231 ------------~~~~w~~l~~~l~~--~~~gs~IivTTR~~~va~--~~---~~~~~~~l~~L~~~~a~~Lf~~~a~~~  291 (385)
                                  .......+...+..  ...+--||.||.......  ..   .-...+.+...+.++-.++|..+.- .
T Consensus       317 ~R~~~~~~~~~~~~~~l~~lL~~lDg~~~~~~ViVIaATNrpd~LDpALlRpGRFD~~I~i~lPd~~~R~~Ilk~~l~-~  395 (467)
T 4b4t_H          317 ARFDDGAGGDNEVQRTMLELITQLDGFDPRGNIKVMFATNRPNTLDPALLRPGRIDRKVEFSLPDLEGRANIFRIHSK-S  395 (467)
T ss_dssp             CCSSSSCGGGGHHHHHHHHHHHHHHSSCCTTTEEEEEECSCTTSBCHHHHSTTTCCEEECCCCCCHHHHHHHHHHHHT-T
T ss_pred             cccCcCCCccHHHHHHHHHHHHHhhccCCCCcEEEEeCCCCcccCChhhhccccccEEEEeCCcCHHHHHHHHHHHhc-C
Confidence                        00111122222222  123334566775443321  11   1235677888888887888865542 1


Q ss_pred             CCCCCCccHHHHHHHHHHHcCCCh
Q 038448          292 KDFSTHPSLKEIGEKIVKKCNGLP  315 (385)
Q Consensus       292 ~~~~~~~~l~~~~~~i~~~c~glP  315 (385)
                      ......-++    ..|++.|.|+-
T Consensus       396 ~~l~~dvdl----~~LA~~T~GfS  415 (467)
T 4b4t_H          396 MSVERGIRW----ELISRLCPNST  415 (467)
T ss_dssp             SCBCSSCCH----HHHHHHCCSCC
T ss_pred             CCCCCCCCH----HHHHHHCCCCC
Confidence            111111233    45677887753

>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=95.68  E-value=0.013  Score=50.10  Aligned_cols=44  Identities=23%  Similarity=0.083  Sum_probs=32.2

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecCCCCHHHHH
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDFDIIRVT  208 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~  208 (385)
                      -.++.|+|.+|+|||||+..+..     ..-..++|++....++...+.
T Consensus        20 G~~~~i~G~~GsGKTtl~~~l~~-----~~~~~v~~i~~~~~~~~~~~~   63 (220)
T 2cvh_A           20 GVLTQVYGPYASGKTTLALQTGL-----LSGKKVAYVDTEGGFSPERLV   63 (220)
T ss_dssp             TSEEEEECSTTSSHHHHHHHHHH-----HHCSEEEEEESSCCCCHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHH-----HcCCcEEEEECCCCCCHHHHH
Confidence            36899999999999999999876     112357788776655554443

>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=95.68  E-value=0.0056  Score=51.10  Aligned_cols=23  Identities=35%  Similarity=0.533  Sum_probs=20.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .+|.|.|++|+||||+++.+...
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            58999999999999999998763

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=95.67  E-value=0.0064  Score=51.49  Aligned_cols=25  Identities=24%  Similarity=0.320  Sum_probs=21.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .-.+|+|+|++|+|||||++.+...
T Consensus        28 ~g~~i~l~G~~GsGKSTl~~~L~~~   52 (200)
T 4eun_A           28 PTRHVVVMGVSGSGKTTIAHGVADE   52 (200)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHh
Confidence            3478999999999999999999763

>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=95.64  E-value=0.0069  Score=51.12  Aligned_cols=25  Identities=36%  Similarity=0.331  Sum_probs=22.5

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHhc
Q 038448          158 DGLSVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       158 ~~~~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      ....+|+|+|+.|+||||+++.+..
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            3568999999999999999999976

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=95.64  E-value=0.0076  Score=50.99  Aligned_cols=26  Identities=35%  Similarity=0.405  Sum_probs=22.8

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          158 DGLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       158 ~~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ....+|.|.|++|+||||+|+.+...
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            45679999999999999999999763

>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=95.63  E-value=0.0067  Score=50.73  Aligned_cols=22  Identities=23%  Similarity=0.324  Sum_probs=20.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      .+++|+|++|+|||||++.+..
T Consensus         3 ~ii~l~G~~GaGKSTl~~~L~~   24 (189)
T 2bdt_A            3 KLYIITGPAGVGKSTTCKRLAA   24 (189)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCcHHHHHHHHhc
Confidence            4789999999999999999975

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=95.63  E-value=0.0071  Score=54.68  Aligned_cols=26  Identities=19%  Similarity=0.258  Sum_probs=22.9

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          158 DGLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       158 ~~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ..++.+.++|++|+|||+||+.+++.
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            45578889999999999999999985

>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=95.62  E-value=0.0057  Score=50.75  Aligned_cols=25  Identities=40%  Similarity=0.383  Sum_probs=21.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ..++|.|+|++|+||||+++.+...
T Consensus        10 ~~~~i~i~G~~GsGKst~~~~l~~~   34 (180)
T 3iij_A           10 LLPNILLTGTPGVGKTTLGKELASK   34 (180)
T ss_dssp             CCCCEEEECSTTSSHHHHHHHHHHH
T ss_pred             cCCeEEEEeCCCCCHHHHHHHHHHH
Confidence            3467889999999999999998764

>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=95.61  E-value=0.0073  Score=51.53  Aligned_cols=24  Identities=25%  Similarity=0.426  Sum_probs=21.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      -.+|+|+|++|+|||||++.+...
T Consensus         8 g~~i~l~GpsGsGKsTl~~~L~~~   31 (208)
T 3tau_A            8 GLLIVLSGPSGVGKGTVREAVFKD   31 (208)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHS
T ss_pred             CcEEEEECcCCCCHHHHHHHHHhh
Confidence            468999999999999999999864

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=95.61  E-value=0.0073  Score=51.48  Aligned_cols=24  Identities=46%  Similarity=0.333  Sum_probs=21.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      ...+|+|+|..|+|||||++.+..
T Consensus         5 ~~~~i~i~G~~GsGKSTl~~~l~~   28 (211)
T 3asz_A            5 KPFVIGIAGGTASGKTTLAQALAR   28 (211)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHH
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHH
Confidence            447899999999999999998876

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=95.58  E-value=0.0068  Score=50.68  Aligned_cols=23  Identities=22%  Similarity=0.221  Sum_probs=20.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .+|.|.|++|+||||+|+.+...
T Consensus         4 ~~I~l~G~~GsGKsT~a~~L~~~   26 (196)
T 1tev_A            4 LVVFVLGGPGAGKGTQCARIVEK   26 (196)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            68999999999999999988753

>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=95.57  E-value=0.0083  Score=51.00  Aligned_cols=25  Identities=36%  Similarity=0.319  Sum_probs=22.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ...+|+|+|++|+||||+++.+...
T Consensus        20 ~~~~i~i~G~~GsGKSTl~~~L~~~   44 (207)
T 2qt1_A           20 KTFIIGISGVTNSGKTTLAKNLQKH   44 (207)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHTT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHh
Confidence            4579999999999999999999763

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=95.56  E-value=0.0067  Score=49.68  Aligned_cols=26  Identities=27%  Similarity=0.225  Sum_probs=21.2

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          158 DGLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       158 ~~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ....+|.|.|++|+||||+|+.+...
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            35689999999999999999998763

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=95.56  E-value=0.0065  Score=51.27  Aligned_cols=22  Identities=32%  Similarity=0.368  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcc
Q 038448          162 VIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .|+|.|++|+||||+++.+...
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            6899999999999999999764

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=95.55  E-value=0.0049  Score=49.70  Aligned_cols=38  Identities=18%  Similarity=0.096  Sum_probs=27.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecC
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSE  200 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~  200 (385)
                      ..+.|+|..|+|||||++.+++.... ..+ ..++++...
T Consensus        37 ~~~~l~G~~G~GKTtL~~~i~~~~~~-~g~-~~~~~~~~~   74 (149)
T 2kjq_A           37 QFIYVWGEEGAGKSHLLQAWVAQALE-AGK-NAAYIDAAS   74 (149)
T ss_dssp             SEEEEESSSTTTTCHHHHHHHHHHHT-TTC-CEEEEETTT
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHHh-cCC-cEEEEcHHH
Confidence            57899999999999999999875321 111 256666543

>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups, carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}

Probab=95.55  E-value=0.03  Score=51.13  Aligned_cols=26  Identities=23%  Similarity=0.296  Sum_probs=22.8

Q ss_pred             CCCceEEEEEcCCCCcHHHHHHHHhc
Q 038448          157 DDGLSVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       157 ~~~~~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      ...+.+|+|.|..|+|||||++.+..
T Consensus        89 ~~~p~iigI~GpsGSGKSTl~~~L~~  114 (321)
T 3tqc_A           89 PKVPYIIGIAGSVAVGKSTTSRVLKA  114 (321)
T ss_dssp             CCCCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHH
Confidence            35678999999999999999988865

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=95.53  E-value=0.0058  Score=51.96  Aligned_cols=25  Identities=24%  Similarity=0.420  Sum_probs=21.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ...+|.|+|++|+|||||++.+...
T Consensus        11 ~~~~i~l~G~sGsGKsTl~~~L~~~   35 (204)
T 2qor_A           11 RIPPLVVCGPSGVGKGTLIKKVLSE   35 (204)
T ss_dssp             CCCCEEEECCTTSCHHHHHHHHHHH
T ss_pred             cCCEEEEECCCCCCHHHHHHHHHHh
Confidence            3468999999999999999999764

>1n0w_A DNA repair protein RAD51 homolog 1; DNA repair, homologous recombination, breast cancer susceptibility, RECA-like ATPase, protein complex; HET: DNA MSE; 1.70A {Homo sapiens} SCOP: c.37.1.11

Probab=95.52  E-value=0.024  Score=49.18  Aligned_cols=48  Identities=17%  Similarity=0.130  Sum_probs=33.2

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhccccccc----cccceEEEEecCCCCHHHH
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSDVRVHN----HFDLKAWTCVSEDFDIIRV  207 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~----~F~~~~wv~vs~~~~~~~~  207 (385)
                      -.++.|+|.+|+|||||+..+........    .-..++|++....++...+
T Consensus        24 G~~~~i~G~~GsGKTtl~~~l~~~~~~~~~~g~~~~~~~~i~~~~~~~~~~~   75 (243)
T 1n0w_A           24 GSITEMFGEFRTGKTQICHTLAVTCQLPIDRGGGEGKAMYIDTEGTFRPERL   75 (243)
T ss_dssp             TSEEEEECCTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSSCCCHHHH
T ss_pred             CeEEEEECCCCCcHHHHHHHHHHHHhCchhcCCCCCeEEEEECCCCcCHHHH
Confidence            36899999999999999998876321211    1246788887665554443

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=95.52  E-value=0.0077  Score=50.51  Aligned_cols=24  Identities=21%  Similarity=0.261  Sum_probs=21.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ..+|.|.|++|+||||+|+.+...
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            368999999999999999999763

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=95.51  E-value=0.006  Score=50.36  Aligned_cols=23  Identities=39%  Similarity=0.365  Sum_probs=20.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      +.|.|.|++|+||||+|+.+...
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            36899999999999999999763

>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=95.51  E-value=0.0075  Score=50.19  Aligned_cols=22  Identities=36%  Similarity=0.401  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcc
Q 038448          162 VIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .++|+|+.|+|||||++.+...
T Consensus         2 ~i~l~G~nGsGKTTLl~~l~g~   23 (178)
T 1ye8_A            2 KIIITGEPGVGKTTLVKKIVER   23 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            5899999999999999888754

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=95.51  E-value=0.0084  Score=50.73  Aligned_cols=23  Identities=26%  Similarity=0.479  Sum_probs=21.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .+|+|+|++|+|||||++.+...
T Consensus         7 ~~i~l~G~~GsGKSTl~~~L~~~   29 (207)
T 2j41_A            7 LLIVLSGPSGVGKGTVRKRIFED   29 (207)
T ss_dssp             CEEEEECSTTSCHHHHHHHHHHC
T ss_pred             CEEEEECCCCCCHHHHHHHHHHh
Confidence            68999999999999999998764

>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=95.50  E-value=0.009  Score=49.85  Aligned_cols=24  Identities=33%  Similarity=0.322  Sum_probs=21.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      ....|.|+|++|+||||+++.+..
T Consensus         9 ~~~~I~l~G~~GsGKSTv~~~La~   32 (184)
T 1y63_A            9 KGINILITGTPGTGKTSMAEMIAA   32 (184)
T ss_dssp             SSCEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHH
Confidence            346899999999999999999876

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=95.50  E-value=0.0071  Score=53.43  Aligned_cols=23  Identities=26%  Similarity=0.205  Sum_probs=20.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .+|.|+|++|+||||||+.+...
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            47899999999999999999764

>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=95.48  E-value=0.0071  Score=51.24  Aligned_cols=22  Identities=32%  Similarity=0.347  Sum_probs=20.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      .+|+|+|+.|+||||+++.+..
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            4799999999999999999876

>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=95.43  E-value=0.0063  Score=50.63  Aligned_cols=23  Identities=17%  Similarity=0.229  Sum_probs=20.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .+|.|+|++|+||||+|+.+...
T Consensus         3 ~~I~l~G~~GsGKsT~a~~La~~   25 (184)
T 2iyv_A            3 PKAVLVGLPGSGKSTIGRRLAKA   25 (184)
T ss_dssp             CSEEEECSTTSSHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH
Confidence            46899999999999999998763

>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=95.43  E-value=0.0088  Score=49.25  Aligned_cols=25  Identities=28%  Similarity=0.375  Sum_probs=21.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ..+++.|+|..|+|||||+..+...
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            4579999999999999999998764

>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=95.43  E-value=0.0075  Score=51.98  Aligned_cols=22  Identities=36%  Similarity=0.406  Sum_probs=20.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      .+|+|+|++|+||||+++.+..
T Consensus         6 ~~i~i~G~~GsGKSTl~~~L~~   27 (227)
T 1cke_A            6 PVITIDGPSGAGKGTLCKAMAE   27 (227)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            5899999999999999999875

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=95.43  E-value=0.007  Score=51.26  Aligned_cols=22  Identities=23%  Similarity=0.391  Sum_probs=20.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      ++++|+|+.|+|||||++.+..
T Consensus         5 ~~i~lvGpsGaGKSTLl~~L~~   26 (198)
T 1lvg_A            5 RPVVLSGPSGAGKSTLLKKLFQ   26 (198)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHh
Confidence            5789999999999999998875

>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=95.42  E-value=0.0096  Score=50.33  Aligned_cols=26  Identities=19%  Similarity=0.138  Sum_probs=22.1

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          158 DGLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       158 ~~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ....+|.|.|++|+||||+|+.+...
T Consensus        18 ~~~~~I~l~G~~GsGKST~a~~La~~   43 (201)
T 2cdn_A           18 GSHMRVLLLGPPGAGKGTQAVKLAEK   43 (201)
T ss_dssp             CSCCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            34468999999999999999998763

>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=95.42  E-value=0.0089  Score=50.73  Aligned_cols=22  Identities=32%  Similarity=0.366  Sum_probs=20.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      .+|+|+|+.|+||||+++.+..
T Consensus         3 ~~i~l~G~~GsGKST~~~~La~   24 (206)
T 1jjv_A            3 YIVGLTGGIGSGKTTIANLFTD   24 (206)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHT
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            4799999999999999999965

>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=95.41  E-value=0.0087  Score=52.48  Aligned_cols=23  Identities=30%  Similarity=0.257  Sum_probs=21.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhc
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      ..+|+|+|++|+|||||++.+..
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            47999999999999999999984

>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=95.38  E-value=0.0088  Score=53.02  Aligned_cols=24  Identities=21%  Similarity=0.292  Sum_probs=21.2

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ..+|.|.|++|+||||+|+.+...
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            468999999999999999998763

>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=95.37  E-value=0.011  Score=49.27  Aligned_cols=24  Identities=25%  Similarity=0.249  Sum_probs=21.4

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ..+|.|.|++|+||||+|+.+...
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            468999999999999999998763

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=95.37  E-value=0.0088  Score=49.74  Aligned_cols=22  Identities=23%  Similarity=0.224  Sum_probs=20.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      .+|.+.|++|+||||+++.+..
T Consensus         5 ~~I~l~G~~GsGKST~~~~La~   26 (186)
T 3cm0_A            5 QAVIFLGPPGAGKGTQASRLAQ   26 (186)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            5799999999999999999975

>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=95.34  E-value=0.0074  Score=49.51  Aligned_cols=23  Identities=22%  Similarity=0.228  Sum_probs=20.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .+|.|.|++|+||||+|+.+...
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            46899999999999999998763

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=95.34  E-value=0.0085  Score=50.36  Aligned_cols=23  Identities=30%  Similarity=0.300  Sum_probs=20.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .+|.|.|++|+||||+|+.+...
T Consensus        13 ~~I~l~G~~GsGKsT~a~~L~~~   35 (199)
T 2bwj_A           13 KIIFIIGGPGSGKGTQCEKLVEK   35 (199)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHH
Confidence            68999999999999999999763

>3umf_A Adenylate kinase; rossmann fold, transferase; 2.05A {Schistosoma mansoni}

Probab=95.32  E-value=0.01  Score=51.06  Aligned_cols=26  Identities=23%  Similarity=0.210  Sum_probs=23.2

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          158 DGLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       158 ~~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ...++|.|.|++|+||||.|+.+...
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            46789999999999999999999764

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=95.31  E-value=0.012  Score=49.09  Aligned_cols=25  Identities=28%  Similarity=0.112  Sum_probs=22.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ...+|.|.|++|+||||+++.+...
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            4578999999999999999998764

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=95.30  E-value=0.0093  Score=50.63  Aligned_cols=23  Identities=26%  Similarity=0.238  Sum_probs=21.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .+|.|.|++|+||||+|+.+...
T Consensus         5 ~~I~i~G~~GsGKsT~~~~L~~~   27 (213)
T 2plr_A            5 VLIAFEGIDGSGKSSQATLLKDW   27 (213)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHH
Confidence            68999999999999999999764

>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=95.24  E-value=0.011  Score=52.16  Aligned_cols=25  Identities=16%  Similarity=0.173  Sum_probs=21.8

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHhc
Q 038448          158 DGLSVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       158 ~~~~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      ....+|+|.|++|+||||+|+.+..
T Consensus        20 ~~~~iI~I~G~~GSGKST~a~~L~~   44 (252)
T 1uj2_A           20 GEPFLIGVSGGTASGKSSVCAKIVQ   44 (252)
T ss_dssp             -CCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCcEEEEEECCCCCCHHHHHHHHHH
Confidence            3567999999999999999998866

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=95.22  E-value=0.023  Score=58.42  Aligned_cols=45  Identities=20%  Similarity=0.244  Sum_probs=29.7

Q ss_pred             hhhHHHHHHHHhcCC---CCCCCCceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          139 DKEKEETVKLLLRDD---LRTDDGLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       139 ~~~~~~l~~~L~~~~---~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      +..++.+.+.+....   .........+.++|++|+|||+||+.+.+.
T Consensus       497 ~~a~~~l~~~i~~~~~~~~~~~~p~~~~Ll~Gp~GtGKT~lA~ala~~  544 (758)
T 3pxi_A          497 DEAVVAVAKAVRRARAGLKDPKRPIGSFIFLGPTGVGKTELARALAES  544 (758)
T ss_dssp             HHHHHHHHHHHHHHTTTCSCTTSCSEEEEEESCTTSSHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHcccCCCCCCceEEEEECCCCCCHHHHHHHHHHH
Confidence            445555655554321   101223347999999999999999999874

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=95.22  E-value=0.01  Score=49.64  Aligned_cols=22  Identities=36%  Similarity=0.406  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcc
Q 038448          162 VIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      +|+|.|++|+||||+++.+...
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            6899999999999999999773

>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=95.20  E-value=0.011  Score=50.42  Aligned_cols=23  Identities=22%  Similarity=0.403  Sum_probs=20.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .+++|+|+.|+|||||++.+..-
T Consensus        21 ei~~l~GpnGsGKSTLl~~l~gl   43 (207)
T 1znw_A           21 RVVVLSGPSAVGKSTVVRCLRER   43 (207)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHhh
Confidence            68999999999999999998763

>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=95.20  E-value=0.016  Score=50.68  Aligned_cols=25  Identities=16%  Similarity=-0.004  Sum_probs=21.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ...+|.|.|++|+||||+|+.+...
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            4578999999999999999999753

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=95.19  E-value=0.0074  Score=50.02  Aligned_cols=24  Identities=29%  Similarity=0.206  Sum_probs=17.2

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ..+|.|.|++|+||||+|+.+...
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            468999999999999999998763

>2vhj_A Ntpase P4, P4; non- hydrolysable ATP analogue, hydrolase, virus dsRNA, molecular motor, packaging ATPase, hexameric helicase; HET: ADP; 1.80A {Pseudomonas phage PHI12} PDB: 2vhq_A* 1w44_A* 1w46_A* 1w47_A* 1w48_A* 1w49_A* 1w4a_A* 1w4b_A* 1w4c_A 2vht_A* 2vhu_A* 2vhc_A*

Probab=95.19  E-value=0.02  Score=52.18  Aligned_cols=51  Identities=20%  Similarity=0.247  Sum_probs=33.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEe--cCC-----CCHHHHHHHHHHHhh
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCV--SED-----FDIIRVTKSILKSIA  216 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v--s~~-----~~~~~~~~~il~~l~  216 (385)
                      +++.|+|++|+||||||.++...     .-..++|++.  .+.     .+...++..+.+.+.
T Consensus       124 sviLI~GpPGsGKTtLAlqlA~~-----~G~~VlyIs~~~eE~v~~~~~~le~~l~~i~~~l~  181 (331)
T 2vhj_A          124 GMVIVTGKGNSGKTPLVHALGEA-----LGGKDKYATVRFGEPLSGYNTDFNVFVDDIARAML  181 (331)
T ss_dssp             EEEEEECSCSSSHHHHHHHHHHH-----HHTTSCCEEEEBSCSSTTCBCCHHHHHHHHHHHHH
T ss_pred             cEEEEEcCCCCCHHHHHHHHHHh-----CCCCEEEEEecchhhhhhhhcCHHHHHHHHHHHHh
Confidence            56789999999999999998763     1223456766  211     345566655555554

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=95.18  E-value=0.01  Score=48.35  Aligned_cols=22  Identities=32%  Similarity=0.306  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcc
Q 038448          162 VIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .|.|.|++|+||||+|+.+...
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            5899999999999999998763

>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=95.16  E-value=0.013  Score=53.12  Aligned_cols=25  Identities=24%  Similarity=0.215  Sum_probs=22.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ...+++|+|++|+|||||+..+..-
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            4579999999999999999988763

>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=95.15  E-value=0.011  Score=49.88  Aligned_cols=25  Identities=20%  Similarity=0.485  Sum_probs=21.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .-++|+|+|+.|+|||||++.+...
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            4478999999999999999998763

>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=95.15  E-value=0.013  Score=53.54  Aligned_cols=25  Identities=24%  Similarity=0.300  Sum_probs=22.2

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHhc
Q 038448          158 DGLSVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       158 ~~~~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      ....+|+|+|..|+|||||++.+..
T Consensus        88 ~~g~ivgI~G~sGsGKSTL~~~L~g  112 (312)
T 3aez_A           88 PVPFIIGVAGSVAVGKSTTARVLQA  112 (312)
T ss_dssp             CCCEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCchHHHHHHHHHh
Confidence            3557999999999999999998876

>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=95.13  E-value=0.012  Score=53.66  Aligned_cols=25  Identities=32%  Similarity=0.503  Sum_probs=20.7

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHhc
Q 038448          158 DGLSVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       158 ~~~~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      ++.+||+|.|-|||||||.+..+.-
T Consensus        46 ~~aKVIAIaGKGGVGKTTtavNLA~   70 (314)
T 3fwy_A           46 TGAKVFAVYGKGGIGKSTTSSNLSA   70 (314)
T ss_dssp             -CCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCceEEEEECCCccCHHHHHHHHHH
Confidence            4679999999999999998866543

>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=95.12  E-value=0.012  Score=50.03  Aligned_cols=24  Identities=25%  Similarity=0.303  Sum_probs=21.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ..+|.|.|++|+||||+++.+...
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            468999999999999999999764

>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=95.12  E-value=0.012  Score=50.61  Aligned_cols=24  Identities=25%  Similarity=0.151  Sum_probs=21.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ...|.|.|++|+||||+|+.+...
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            367999999999999999999763

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=95.11  E-value=0.015  Score=49.87  Aligned_cols=25  Identities=24%  Similarity=0.345  Sum_probs=22.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ...+|.|+|.+|+|||||+..+...
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            4588999999999999999998764

>2onk_A Molybdate/tungstate ABC transporter, ATP-binding protein; membrane protein; 3.10A {Archaeoglobus fulgidus} SCOP: c.37.1.12

Probab=95.09  E-value=0.02  Score=50.13  Aligned_cols=22  Identities=18%  Similarity=0.321  Sum_probs=20.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      .+++|+|+.|.|||||.+.+..
T Consensus        25 e~~~liG~nGsGKSTLl~~l~G   46 (240)
T 2onk_A           25 DYCVLLGPTGAGKSVFLELIAG   46 (240)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHT
T ss_pred             EEEEEECCCCCCHHHHHHHHhC
Confidence            7999999999999999999986

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=95.08  E-value=0.01  Score=51.06  Aligned_cols=22  Identities=27%  Similarity=0.348  Sum_probs=20.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      .+++|+|+.|+|||||++.+..
T Consensus        24 ~~~~lvGpsGsGKSTLl~~L~g   45 (218)
T 1z6g_A           24 YPLVICGPSGVGKGTLIKKLLN   45 (218)
T ss_dssp             CCEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHh
Confidence            6899999999999999999876

>4b4t_I 26S protease regulatory subunit 4 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=95.08  E-value=0.035  Score=52.54  Aligned_cols=146  Identities=15%  Similarity=0.177  Sum_probs=71.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecCC---C--CHHHHHHHHHHHhhcCCCC--CccchHHhh-
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSED---F--DIIRVTKSILKSIASDQLV--DDHDLNLLQ-  230 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~---~--~~~~~~~~il~~l~~~~~~--~~~~~~~l~-  230 (385)
                      ..+=|.++|++|.|||.||+++.+.  ....|   +.++.+.-   +  .....++.++.......+.  ..++++.+- 
T Consensus       215 ~prGvLLyGPPGTGKTlLAkAiA~e--~~~~f---i~v~~s~l~sk~vGesek~ir~lF~~Ar~~aP~IIfiDEiDai~~  289 (437)
T 4b4t_I          215 PPKGVILYGAPGTGKTLLAKAVANQ--TSATF---LRIVGSELIQKYLGDGPRLCRQIFKVAGENAPSIVFIDEIDAIGT  289 (437)
T ss_dssp             CCSEEEEESSTTTTHHHHHHHHHHH--HTCEE---EEEESGGGCCSSSSHHHHHHHHHHHHHHHTCSEEEEEEEESSSSC
T ss_pred             CCCCCceECCCCchHHHHHHHHHHH--hCCCE---EEEEHHHhhhccCchHHHHHHHHHHHHHhcCCcEEEEehhhhhcc
Confidence            4577999999999999999999985  33333   23332221   1  2344555555544332210  011111111 


Q ss_pred             --------c----hhhHhhHhhhcc--CCCCCcEEEEEcCChhHHhh-c-CCC---CcccCCCCChhhHHhhhhccccCC
Q 038448          231 --------K----YNDWTNRSRLFE--AGAPGSKIVFTTRNLGVAEK-M-GPL---PAYPLKELSNDDCLSVFSPHSLGE  291 (385)
Q Consensus       231 --------~----~~~w~~l~~~l~--~~~~gs~IivTTR~~~va~~-~-~~~---~~~~l~~L~~~~a~~Lf~~~a~~~  291 (385)
                              .    ......+...+.  ....+--||.||...+.... + .+.   ..+.+...+.++-.++|..+. ..
T Consensus       290 ~R~~~~~~~~~~~~~~l~~LL~~lDg~~~~~~ViVIaATNrpd~LDpALlRpGRfD~~I~v~lPd~~~R~~Il~~~l-~~  368 (437)
T 4b4t_I          290 KRYDSNSGGEREIQRTMLELLNQLDGFDDRGDVKVIMATNKIETLDPALIRPGRIDRKILFENPDLSTKKKILGIHT-SK  368 (437)
T ss_dssp             CCSCSSCSSCCHHHHHHHHHHHHHHHCCCSSSEEEEEEESCSTTCCTTSSCTTTEEEEECCCCCCHHHHHHHHHHHH-TT
T ss_pred             cCCCCCCCccHHHHHHHHHHHHHhhCcCCCCCEEEEEeCCChhhcCHHHhcCCceeEEEEcCCcCHHHHHHHHHHHh-cC
Confidence                    0    011122222222  12234456677765544321 1 111   346777777777777776553 21


Q ss_pred             CCCCCCccHHHHHHHHHHHcCCC
Q 038448          292 KDFSTHPSLKEIGEKIVKKCNGL  314 (385)
Q Consensus       292 ~~~~~~~~l~~~~~~i~~~c~gl  314 (385)
                      ......-++    ..|++.+.|+
T Consensus       369 ~~l~~dvdl----~~LA~~T~Gf  387 (437)
T 4b4t_I          369 MNLSEDVNL----ETLVTTKDDL  387 (437)
T ss_dssp             SCBCSCCCH----HHHHHHCCSC
T ss_pred             CCCCCcCCH----HHHHHhCCCC
Confidence            111112233    4566777765

>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=0.018  Score=50.22  Aligned_cols=34  Identities=15%  Similarity=0.280  Sum_probs=26.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhccccccccccceEEEE
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTC  197 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~  197 (385)
                      .+++|+|+.|.|||||.+.+..   ........+++.
T Consensus        32 e~~~iiG~nGsGKSTLl~~l~G---l~~p~~G~I~~~   65 (235)
T 3tif_A           32 EFVSIMGPSGSGKSTMLNIIGC---LDKPTEGEVYID   65 (235)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTT---SSCCSEEEEEET
T ss_pred             CEEEEECCCCCcHHHHHHHHhc---CCCCCceEEEEC
Confidence            5899999999999999999986   333344555553

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=95.04  E-value=0.013  Score=49.84  Aligned_cols=25  Identities=28%  Similarity=0.234  Sum_probs=21.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ...+|.|.|++|+||||+++.+...
T Consensus         9 ~~~~I~l~G~~GsGKST~~~~L~~~   33 (212)
T 2wwf_A            9 KGKFIVFEGLDRSGKSTQSKLLVEY   33 (212)
T ss_dssp             CSCEEEEEESTTSSHHHHHHHHHHH
T ss_pred             cCCEEEEEcCCCCCHHHHHHHHHHH
Confidence            3468999999999999999999764

>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=95.02  E-value=0.014  Score=52.31  Aligned_cols=24  Identities=33%  Similarity=0.470  Sum_probs=21.6

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHh
Q 038448          158 DGLSVIPIIGTGRIGKTTLAQLAY  181 (385)
Q Consensus       158 ~~~~vi~I~G~gGiGKTtLA~~v~  181 (385)
                      ....+|+|.|++|+||||+|+.+.
T Consensus        73 ~~~~iI~I~G~~GSGKSTva~~La   96 (281)
T 2f6r_A           73 SGLYVLGLTGISGSGKSSVAQRLK   96 (281)
T ss_dssp             TTCEEEEEEECTTSCHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHH
Confidence            356799999999999999999987

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=95.02  E-value=0.015  Score=50.92  Aligned_cols=24  Identities=21%  Similarity=0.228  Sum_probs=21.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      .-.+|+|.|..|+|||||++.+..
T Consensus        24 ~g~iigI~G~~GsGKSTl~k~L~~   47 (245)
T 2jeo_A           24 RPFLIGVSGGTASGKSTVCEKIME   47 (245)
T ss_dssp             CSEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
Confidence            347899999999999999998865

>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis}

Probab=95.02  E-value=0.017  Score=55.84  Aligned_cols=39  Identities=26%  Similarity=0.333  Sum_probs=30.5

Q ss_pred             hhhHHHHHHHHhcCCCCCCCCceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          139 DKEKEETVKLLLRDDLRTDDGLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       139 ~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      +.+.+.+++.|....      ..-+.++|.+|+|||++|+.+...
T Consensus       186 ~~~i~~l~~~l~r~~------~~~~LL~G~pG~GKT~la~~la~~  224 (468)
T 3pxg_A          186 SKEIQRVIEVLSRRT------KNNPVLIGEPGVGKTAIAEGLAQQ  224 (468)
T ss_dssp             HHHHHHHHHHHHCSS------SCEEEEESCTTTTTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccC------CCCeEEECCCCCCHHHHHHHHHHH
Confidence            777788888886532      234579999999999999998764

>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=95.01  E-value=0.034  Score=48.75  Aligned_cols=21  Identities=29%  Similarity=0.534  Sum_probs=19.8

Q ss_pred             EEEEcCCCCcHHHHHHHHhcc
Q 038448          163 IPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       163 i~I~G~gGiGKTtLA~~v~~~  183 (385)
                      +.|+|++|+|||||++.+.+.
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            899999999999999999875

>2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding protein; structural genomics; 1.70A {Aquifex aeolicus} PDB: 2pcl_A

Probab=94.98  E-value=0.019  Score=49.58  Aligned_cols=33  Identities=24%  Similarity=0.241  Sum_probs=25.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhccccccccccceEEE
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWT  196 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv  196 (385)
                      .+++|+|+.|.|||||.+.+..-   .......+++
T Consensus        31 e~~~iiG~nGsGKSTLl~~l~Gl---~~p~~G~i~~   63 (224)
T 2pcj_A           31 EFVSIIGASGSGKSTLLYILGLL---DAPTEGKVFL   63 (224)
T ss_dssp             CEEEEEECTTSCHHHHHHHHTTS---SCCSEEEEEE
T ss_pred             CEEEEECCCCCCHHHHHHHHhcC---CCCCceEEEE
Confidence            58999999999999999999863   3333455554

>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=94.96  E-value=0.007  Score=51.60  Aligned_cols=23  Identities=30%  Similarity=0.345  Sum_probs=20.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .+|+|.|..|+||||+++.+...
T Consensus         1 ~~I~i~G~~GsGKsTl~~~L~~~   23 (214)
T 1gtv_A            1 MLIAIEGVDGAGKRTLVEKLSGA   23 (214)
T ss_dssp             CEEEEEEEEEEEHHHHHHHHHHH
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHH
Confidence            37899999999999999998764

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=94.96  E-value=0.013  Score=50.65  Aligned_cols=24  Identities=25%  Similarity=0.250  Sum_probs=21.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ...|.|.|++|+||||+|+.+...
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            468999999999999999999763

>1htw_A HI0065; nucleotide-binding fold, structural genomics, structure 2 function project, S2F, unknown function; HET: ADP; 1.70A {Haemophilus influenzae} SCOP: c.37.1.18 PDB: 1fl9_A

Probab=94.94  E-value=0.016  Score=47.20  Aligned_cols=23  Identities=26%  Similarity=0.238  Sum_probs=20.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .+++|+|+.|.|||||.+.+..-
T Consensus        34 e~v~L~G~nGaGKTTLlr~l~g~   56 (158)
T 1htw_A           34 IMVYLNGDLGAGKTTLTRGMLQG   56 (158)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHh
Confidence            68999999999999999988763

>2grj_A Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosphocoenzyme kinase, structural genomics, joint center for structural GE JCSG; HET: ADP COD; 2.60A {Thermotoga maritima}

Probab=94.93  E-value=0.016  Score=48.84  Aligned_cols=25  Identities=24%  Similarity=0.306  Sum_probs=22.5

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHhc
Q 038448          158 DGLSVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       158 ~~~~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      ....+|+|+|+.|+||||+++.+..
T Consensus        10 ~~~~iIgltG~~GSGKSTva~~L~~   34 (192)
T 2grj_A           10 HHHMVIGVTGKIGTGKSTVCEILKN   34 (192)
T ss_dssp             CCEEEEEEECSTTSSHHHHHHHHHH
T ss_pred             ccceEEEEECCCCCCHHHHHHHHHH
Confidence            4568999999999999999999876

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=94.92  E-value=0.023  Score=48.58  Aligned_cols=25  Identities=28%  Similarity=0.355  Sum_probs=22.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ...+|.|+|.+|+|||||+..+...
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            4589999999999999999988764

>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=94.90  E-value=0.072  Score=49.17  Aligned_cols=56  Identities=16%  Similarity=0.181  Sum_probs=38.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhccccccc----cccceEEEEecCCCCHHHHHHHHHHHh
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSDVRVHN----HFDLKAWTCVSEDFDIIRVTKSILKSI  215 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~----~F~~~~wv~vs~~~~~~~~~~~il~~l  215 (385)
                      .-.++.|+|.+|+||||||..+........    .-..++|++....++...+.. ++..+
T Consensus       121 ~G~i~~I~G~~GsGKTtla~~la~~~~~~~~~gg~~~~vlyi~~E~~~~~~~l~~-~~~~~  180 (343)
T 1v5w_A          121 SMAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFIDTENTFRPDRLRD-IADRF  180 (343)
T ss_dssp             SSEEEEEECCTTCTHHHHHHHHHHHTTSCBTTTBCCCEEEEEESSSCCCHHHHHH-HHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHhcccccCCCCCeEEEEECCCCCCHHHHHH-HHHHc
Confidence            347899999999999999998876421211    124678999888777666543 34443

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=94.90  E-value=0.013  Score=50.35  Aligned_cols=24  Identities=25%  Similarity=0.209  Sum_probs=21.2

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ...|.|.|++|+||||+++.+...
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            467899999999999999999764

>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=94.89  E-value=0.037  Score=50.64  Aligned_cols=55  Identities=16%  Similarity=0.205  Sum_probs=38.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhcccccccc----ccceEEEEecCCCCHHHHHHHHHHHh
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSDVRVHNH----FDLKAWTCVSEDFDIIRVTKSILKSI  215 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~----F~~~~wv~vs~~~~~~~~~~~il~~l  215 (385)
                      -.++.|+|.+|+||||||.++.........    -..++|++....++...+.. ++..+
T Consensus       107 G~i~~i~G~~GsGKT~la~~la~~~~~~~~~gg~~~~vlyi~~e~~~~~~~l~~-~~~~~  165 (324)
T 2z43_A          107 RTMTEFFGEFGSGKTQLCHQLSVNVQLPPEKGGLSGKAVYIDTEGTFRWERIEN-MAKAL  165 (324)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSCEEEEEESSSCCCHHHHHH-HHHHT
T ss_pred             CcEEEEECCCCCCHhHHHHHHHHHHhcccccCCCCCeEEEEECCCCCCHHHHHH-HHHHh
Confidence            368999999999999999988764211111    23678998888777666543 34444

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=94.89  E-value=0.014  Score=51.42  Aligned_cols=23  Identities=30%  Similarity=0.351  Sum_probs=20.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhc
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      -.+|+|+|+.|+||||+++.+..
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            36899999999999999999984

>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=94.88  E-value=0.021  Score=51.09  Aligned_cols=22  Identities=36%  Similarity=0.456  Sum_probs=20.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      .+++|+|+.|.|||||.+.+..
T Consensus        35 e~~~iiGpnGsGKSTLl~~l~G   56 (275)
T 3gfo_A           35 EVTAILGGNGVGKSTLFQNFNG   56 (275)
T ss_dssp             SEEEEECCTTSSHHHHHHHHTT
T ss_pred             CEEEEECCCCCCHHHHHHHHHc
Confidence            5899999999999999999976

>1s96_A Guanylate kinase, GMP kinase; E.coli, dimer, SAD, transferase; 2.00A {Escherichia coli} SCOP: c.37.1.1 PDB: 2an9_A* 2anb_A* 2anc_A 2f3r_A* 2f3t_A*

Probab=94.87  E-value=0.015  Score=50.12  Aligned_cols=24  Identities=17%  Similarity=0.176  Sum_probs=21.4

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      -.+++|+|+.|+|||||.+.+...
T Consensus        16 G~ii~l~GpsGsGKSTLlk~L~g~   39 (219)
T 1s96_A           16 GTLYIVSAPSGAGKSSLIQALLKT   39 (219)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHhcc
Confidence            368999999999999999998764

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=94.86  E-value=0.013  Score=51.72  Aligned_cols=23  Identities=26%  Similarity=0.356  Sum_probs=20.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      +-+.|+|++|+||||||+.+.+.
T Consensus        46 ~~vll~G~~GtGKT~la~~la~~   68 (257)
T 1lv7_A           46 KGVLMVGPPGTGKTLLAKAIAGE   68 (257)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CeEEEECcCCCCHHHHHHHHHHH
Confidence            44889999999999999999874

>1b0u_A Histidine permease; ABC transporter, transport protein; HET: ATP; 1.50A {Salmonella typhimurium} SCOP: c.37.1.12

Probab=94.85  E-value=0.021  Score=50.61  Aligned_cols=22  Identities=36%  Similarity=0.480  Sum_probs=20.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      .+++|+|+.|.|||||.+.+..
T Consensus        33 e~~~liG~nGsGKSTLlk~l~G   54 (262)
T 1b0u_A           33 DVISIIGSSGSGKSTFLRCINF   54 (262)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTT
T ss_pred             CEEEEECCCCCCHHHHHHHHhc
Confidence            6899999999999999999986

>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=94.84  E-value=0.016  Score=49.87  Aligned_cols=43  Identities=21%  Similarity=0.237  Sum_probs=29.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhccccccc----cccceEEEEecCCCC
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSDVRVHN----HFDLKAWTCVSEDFD  203 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~----~F~~~~wv~vs~~~~  203 (385)
                      .+++|+|++|+|||||++.+........    .-...+|+.-...+.
T Consensus        26 ~~~~l~G~nGsGKSTll~~l~g~~~~~~~~g~~~~~~i~~~~~~~~~   72 (231)
T 4a74_A           26 AITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTENTFR   72 (231)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSCEEEEEESSSCCC
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHHhcccccCCCCCEEEEEECCCCCC
Confidence            7999999999999999999875211111    123467776544333

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=94.84  E-value=0.014  Score=49.77  Aligned_cols=22  Identities=27%  Similarity=0.282  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcc
Q 038448          162 VIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .|.|.|++|+||||+|+.+...
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            4789999999999999998653

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=94.82  E-value=0.013  Score=52.37  Aligned_cols=21  Identities=29%  Similarity=0.398  Sum_probs=19.8

Q ss_pred             EEEEcCCCCcHHHHHHHHhcc
Q 038448          163 IPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       163 i~I~G~gGiGKTtLA~~v~~~  183 (385)
                      +.++|++|.||||||+.+...
T Consensus        47 vlL~Gp~GtGKTtLakala~~   67 (274)
T 2x8a_A           47 VLLAGPPGCGKTLLAKAVANE   67 (274)
T ss_dssp             EEEESSTTSCHHHHHHHHHHH
T ss_pred             EEEECCCCCcHHHHHHHHHHH
Confidence            899999999999999999874

>2v54_A DTMP kinase, thymidylate kinase; nucleotide biosynthesis, ATP-binding, nucleotide-binding, poxvirus, transferase; HET: TYD POP; 2.4A {Vaccinia virus copenhagen} PDB: 2w0s_A*

Probab=94.82  E-value=0.015  Score=49.10  Aligned_cols=23  Identities=26%  Similarity=0.278  Sum_probs=21.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .+|.|.|+.|+||||+++.+...
T Consensus         5 ~~I~l~G~~GsGKsT~~~~L~~~   27 (204)
T 2v54_A            5 ALIVFEGLDKSGKTTQCMNIMES   27 (204)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHT
T ss_pred             cEEEEEcCCCCCHHHHHHHHHHH
Confidence            68999999999999999999874

>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=94.82  E-value=0.017  Score=47.72  Aligned_cols=23  Identities=22%  Similarity=0.172  Sum_probs=20.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhc
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      -.+|.|+|+.|+||||+++.+..
T Consensus         5 g~~i~l~G~~GsGKST~~~~L~~   27 (179)
T 2pez_A            5 GCTVWLTGLSGAGKTTVSMALEE   27 (179)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            36889999999999999999876

>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=94.81  E-value=0.038  Score=50.22  Aligned_cols=24  Identities=29%  Similarity=0.358  Sum_probs=21.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      ...+|+|+|..|+|||||++.+..
T Consensus        79 ~g~iigI~G~~GsGKSTl~~~L~~  102 (308)
T 1sq5_A           79 IPYIISIAGSVAVGKSTTARVLQA  102 (308)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
Confidence            457999999999999999998876

>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=94.80  E-value=0.016  Score=52.52  Aligned_cols=25  Identities=24%  Similarity=0.209  Sum_probs=22.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ..+.|.|+|++|+|||+||+.+++.
T Consensus        48 ~~~~vLL~Gp~GtGKT~la~ala~~   72 (301)
T 3cf0_A           48 PSKGVLFYGPPGCGKTLLAKAIANE   72 (301)
T ss_dssp             CCSEEEEECSSSSSHHHHHHHHHHH
T ss_pred             CCceEEEECCCCcCHHHHHHHHHHH
Confidence            3467899999999999999999985

>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=94.79  E-value=0.025  Score=50.26  Aligned_cols=33  Identities=24%  Similarity=0.262  Sum_probs=25.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhccccccccccceEEE
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWT  196 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv  196 (385)
                      .+++|+|+.|.|||||.+.+..-   .......+++
T Consensus        38 e~~~liG~nGsGKSTLl~~l~Gl---~~p~~G~I~~   70 (266)
T 4g1u_C           38 EMVAIIGPNGAGKSTLLRLLTGY---LSPSHGECHL   70 (266)
T ss_dssp             CEEEEECCTTSCHHHHHHHHTSS---SCCSSCEEEE
T ss_pred             CEEEEECCCCCcHHHHHHHHhcC---CCCCCcEEEE
Confidence            68999999999999999999873   3333455555

>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+ protein; 2.10A {Human papillomavirus type 18} SCOP: c.37.1.20

Probab=94.79  E-value=0.02  Score=48.53  Aligned_cols=24  Identities=13%  Similarity=0.109  Sum_probs=20.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ...+.|+|++|.||||+|..+.+.
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            356899999999999999888774

>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=94.78  E-value=0.032  Score=50.29  Aligned_cols=24  Identities=29%  Similarity=0.292  Sum_probs=20.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ...+.++|.+|+|||++|+.+.+.
T Consensus        50 ~~~vll~G~~GtGKT~la~~la~~   73 (310)
T 1ofh_A           50 PKNILMIGPTGVGKTEIARRLAKL   73 (310)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHHH
T ss_pred             CceEEEECCCCCCHHHHHHHHHHH
Confidence            356789999999999999999874

>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11

Probab=94.74  E-value=0.015  Score=48.86  Aligned_cols=23  Identities=30%  Similarity=0.312  Sum_probs=20.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .+++|+|..|+|||||.+.+...
T Consensus         2 ~~i~i~G~nG~GKTTll~~l~g~   24 (189)
T 2i3b_A            2 RHVFLTGPPGVGKTTLIHKASEV   24 (189)
T ss_dssp             CCEEEESCCSSCHHHHHHHHHHH
T ss_pred             CEEEEECCCCChHHHHHHHHHhh
Confidence            36899999999999999988764

>1vht_A Dephospho-COA kinase; structural genomics, transferase; HET: BA3; 1.59A {Escherichia coli} SCOP: c.37.1.1 PDB: 1vhl_A* 1viy_A 1t3h_A 1n3b_A

Probab=94.74  E-value=0.019  Score=49.12  Aligned_cols=23  Identities=22%  Similarity=0.238  Sum_probs=20.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhc
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      ..+|+|.|+.|+||||+++.+..
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            36899999999999999999864

>3bh0_A DNAB-like replicative helicase; ATPase, replication; 2.35A {Bacillus phage SPP1}

Probab=94.73  E-value=0.045  Score=49.91  Aligned_cols=51  Identities=14%  Similarity=0.196  Sum_probs=37.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecCCCCHHHHHHHHHHHh
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDFDIIRVTKSILKSI  215 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~il~~l  215 (385)
                      .++.|.|.+|+||||||..+..+...+.  ..++|++.-  .+...+...++...
T Consensus        69 ~l~li~G~pG~GKTtl~l~ia~~~a~~g--~~vl~~slE--~s~~~l~~R~~~~~  119 (315)
T 3bh0_A           69 NFVLIAARPSMGKTAFALKQAKNMSDND--DVVNLHSLE--MGKKENIKRLIVTA  119 (315)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHHTTT--CEEEEEESS--SCHHHHHHHHHHHH
T ss_pred             cEEEEEeCCCCCHHHHHHHHHHHHHHcC--CeEEEEECC--CCHHHHHHHHHHHH
Confidence            6899999999999999998876532222  567788765  35667777776654

>2i1q_A DNA repair and recombination protein RADA; ATPase, recombinase, ATP complex, calcium stimulation, RECA, DMC1; HET: DNA ANP; 1.90A {Methanococcus voltae} SCOP: a.60.4.1 c.37.1.11 PDB: 1xu4_A* 2b21_A* 2fpk_A* 2fpl_A* 2fpm_A* 1t4g_A* 3fyh_A* 2f1j_A* 2f1i_A* 2f1h_A* 3ntu_A* 3ewa_A* 3ew9_A* 3etl_A* 4dc9_A* 2gdj_A*

Probab=94.73  E-value=0.046  Score=49.93  Aligned_cols=55  Identities=15%  Similarity=0.142  Sum_probs=38.4

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhccccccc---------cc-----cceEEEEecCCCCHHHHHHHHHHHh
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSDVRVHN---------HF-----DLKAWTCVSEDFDIIRVTKSILKSI  215 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~---------~F-----~~~~wv~vs~~~~~~~~~~~il~~l  215 (385)
                      -.++.|+|.+|+||||||.++..+.....         ..     ..++|++....++...+.. ++..+
T Consensus        98 g~i~~i~G~~gsGKT~la~~la~~~~l~~~~~~~~~~~~~gg~~~~~v~yi~~e~~~~~~~l~~-~~~~~  166 (322)
T 2i1q_A           98 QSVTEFAGVFGSGKTQIMHQSCVNLQNPEFLFYDEEAVSKGEVAQPKAVYIDTEGTFRPERIMQ-MAEHA  166 (322)
T ss_dssp             TEEEEEEESTTSSHHHHHHHHHHHTTCGGGEECCTTTSCTTTTSSEEEEEEESSSCCCHHHHHH-HHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHhccccccccccccccCCCCCceEEEEECCCCCCHHHHHH-HHHHc
Confidence            47899999999999999998875421111         11     4678999888777766654 34444

>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=94.73  E-value=0.016  Score=49.51  Aligned_cols=22  Identities=18%  Similarity=0.220  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcc
Q 038448          162 VIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .|.|.|++|+||||+|+.+...
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            4789999999999999998653

>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB); structural genomics, PSI, protein structure initiative; 2.10A {Archaeoglobus fulgidus}

Probab=94.72  E-value=0.011  Score=48.86  Aligned_cols=23  Identities=35%  Similarity=0.439  Sum_probs=20.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .+++|+|..|+|||||+..+..-
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            58999999999999999888653

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=94.72  E-value=0.045  Score=48.79  Aligned_cols=21  Identities=29%  Similarity=0.534  Sum_probs=19.8

Q ss_pred             EEEEcCCCCcHHHHHHHHhcc
Q 038448          163 IPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       163 i~I~G~gGiGKTtLA~~v~~~  183 (385)
                      +.|+|++|+|||||++.+...
T Consensus        76 vll~Gp~GtGKTtl~~~i~~~   96 (278)
T 1iy2_A           76 VLLVGPPGVGKTHLARAVAGE   96 (278)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEECCCcChHHHHHHHHHHH
Confidence            899999999999999999875

>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=94.71  E-value=0.047  Score=50.73  Aligned_cols=25  Identities=40%  Similarity=0.348  Sum_probs=21.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ....|.++|++|+|||++|+.+.+.
T Consensus        50 ~~~~vll~GppGtGKT~la~~ia~~   74 (363)
T 3hws_A           50 GKSNILLIGPTGSGKTLLAETLARL   74 (363)
T ss_dssp             CCCCEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHH
Confidence            3467889999999999999999874

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=94.70  E-value=0.017  Score=51.92  Aligned_cols=152  Identities=11%  Similarity=-0.010  Sum_probs=74.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecCC-----CCHHHHHHHHHHHhhcCCCC--CccchHHhhc-
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSED-----FDIIRVTKSILKSIASDQLV--DDHDLNLLQK-  231 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~-----~~~~~~~~~il~~l~~~~~~--~~~~~~~l~~-  231 (385)
                      .+.+.|+|++|+||||||+.+.+.  ....|   +.++.+.-     .......+.++.........  ..++.+.+.. 
T Consensus        54 ~~~vll~Gp~GtGKT~la~~la~~--~~~~~---~~i~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~vl~iDEid~l~~~  128 (297)
T 3b9p_A           54 AKGLLLFGPPGNGKTLLARAVATE--CSATF---LNISAASLTSKYVGDGEKLVRALFAVARHMQPSIIFIDEVDSLLSE  128 (297)
T ss_dssp             CSEEEEESSSSSCHHHHHHHHHHH--TTCEE---EEEESTTTSSSSCSCHHHHHHHHHHHHHHTCSEEEEEETGGGTSBC
T ss_pred             CCeEEEECcCCCCHHHHHHHHHHH--hCCCe---EEeeHHHHhhcccchHHHHHHHHHHHHHHcCCcEEEeccHHHhccc
Confidence            467899999999999999999874  22222   23333321     12344445554443322210  1122222210 


Q ss_pred             ---------hhhHhhHhh---hccCC--CCCcEEEEEcCChh-----HHhhcCCCCcccCCCCChhhHHhhhhccccCCC
Q 038448          232 ---------YNDWTNRSR---LFEAG--APGSKIVFTTRNLG-----VAEKMGPLPAYPLKELSNDDCLSVFSPHSLGEK  292 (385)
Q Consensus       232 ---------~~~w~~l~~---~l~~~--~~gs~IivTTR~~~-----va~~~~~~~~~~l~~L~~~~a~~Lf~~~a~~~~  292 (385)
                               ......+..   .++..  ..+..||.||....     +...+  ...+.+...+.++-..++...+-...
T Consensus       129 ~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~~v~vi~~tn~~~~l~~~l~~R~--~~~i~~~~p~~~~r~~il~~~~~~~~  206 (297)
T 3b9p_A          129 RSSSEHEASRRLKTEFLVEFDGLPGNPDGDRIVVLAATNRPQELDEAALRRF--TKRVYVSLPDEQTRELLLNRLLQKQG  206 (297)
T ss_dssp             C-----CCSHHHHHHHHHHHHHCC------CEEEEEEESCGGGBCHHHHHHC--CEEEECCCCCHHHHHHHHHHHHGGGS
T ss_pred             cccCcchHHHHHHHHHHHHHhcccccCCCCcEEEEeecCChhhCCHHHHhhC--CeEEEeCCcCHHHHHHHHHHHHHhcC
Confidence                     001111211   12221  12345666776532     22222  23466677777777777665432111


Q ss_pred             CCCCCccHHHHHHHHHHHcCCChH-HHHHHH
Q 038448          293 DFSTHPSLKEIGEKIVKKCNGLPL-VAKSLG  322 (385)
Q Consensus       293 ~~~~~~~l~~~~~~i~~~c~glPL-Ai~~~~  322 (385)
                      . ..   -......|++.+.|.+- ++..+.
T Consensus       207 ~-~~---~~~~~~~la~~~~g~~~~~l~~l~  233 (297)
T 3b9p_A          207 S-PL---DTEALRRLAKITDGYSGSDLTALA  233 (297)
T ss_dssp             C-CS---CHHHHHHHHHHTTTCCHHHHHHHH
T ss_pred             C-CC---CHHHHHHHHHHcCCCCHHHHHHHH
Confidence            1 11   13456778888998875 554443

>1m7g_A Adenylylsulfate kinase; APS kinase, transferase, sulfate Met nucleotide 2 kinase; HET: AV2 ADX ADP; 1.43A {Penicillium chrysogenum} SCOP: c.37.1.4 PDB: 1d6j_A* 1m7h_A* 3cr7_A*

Probab=94.69  E-value=0.019  Score=48.92  Aligned_cols=24  Identities=29%  Similarity=0.151  Sum_probs=21.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ..+|.|.|++|+||||+++.+...
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            378999999999999999998763

>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=94.68  E-value=0.027  Score=49.27  Aligned_cols=22  Identities=32%  Similarity=0.392  Sum_probs=20.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      .+++|+|..|.|||||.+.+..
T Consensus        29 e~~~i~G~nGsGKSTLl~~l~G   50 (243)
T 1mv5_A           29 SIIAFAGPSGGGKSTIFSLLER   50 (243)
T ss_dssp             EEEEEECCTTSSHHHHHHHHTT
T ss_pred             CEEEEECCCCCCHHHHHHHHhc
Confidence            6899999999999999999976

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=94.66  E-value=0.028  Score=46.73  Aligned_cols=25  Identities=36%  Similarity=0.352  Sum_probs=21.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ....|.|+|.+|+|||||...+...
T Consensus        47 ~~~~i~vvG~~g~GKSsll~~l~~~   71 (193)
T 2ged_A           47 YQPSIIIAGPQNSGKTSLLTLLTTD   71 (193)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcC
Confidence            4467899999999999999998765

>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=94.65  E-value=0.022  Score=49.69  Aligned_cols=23  Identities=17%  Similarity=0.449  Sum_probs=21.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .+++|+|..|.|||||.+.+..-
T Consensus        32 e~~~i~G~nGsGKSTLl~~l~Gl   54 (237)
T 2cbz_A           32 ALVAVVGQVGCGKSSLLSALLAE   54 (237)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTC
T ss_pred             CEEEEECCCCCCHHHHHHHHhcC
Confidence            58999999999999999999763

>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=94.65  E-value=0.026  Score=49.28  Aligned_cols=33  Identities=21%  Similarity=0.135  Sum_probs=25.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhccccccccccceEEE
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWT  196 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv  196 (385)
                      .+++|+|+.|.|||||.+.+..-   .......+++
T Consensus        33 e~~~l~G~nGsGKSTLl~~l~Gl---~~p~~G~i~~   65 (240)
T 1ji0_A           33 QIVTLIGANGAGKTTTLSAIAGL---VRAQKGKIIF   65 (240)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTS---SCCSEEEEEE
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC---CCCCCceEEE
Confidence            58999999999999999999873   2333455554

>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography, emerald biostructures, ATP-binding, cytoplasm, nucleotide-binding; HET: 5GP; 1.95A {Anaplasma phagocytophilum}

Probab=94.64  E-value=0.012  Score=51.04  Aligned_cols=21  Identities=24%  Similarity=0.308  Sum_probs=16.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHh
Q 038448          161 SVIPIIGTGRIGKTTLAQLAY  181 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~  181 (385)
                      .+++|+|+.|+|||||++.+.
T Consensus        28 ~ii~l~Gp~GsGKSTl~~~L~   48 (231)
T 3lnc_A           28 VILVLSSPSGCGKTTVANKLL   48 (231)
T ss_dssp             CEEEEECSCC----CHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHH
Confidence            689999999999999999998

>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=94.63  E-value=0.026  Score=50.04  Aligned_cols=22  Identities=27%  Similarity=0.398  Sum_probs=20.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      .+++|+|+.|.|||||.+.+..
T Consensus        51 ei~~liG~NGsGKSTLlk~l~G   72 (263)
T 2olj_A           51 EVVVVIGPSGSGKSTFLRCLNL   72 (263)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTT
T ss_pred             CEEEEEcCCCCcHHHHHHHHHc
Confidence            6899999999999999999986

>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=0.027  Score=49.47  Aligned_cols=33  Identities=27%  Similarity=0.223  Sum_probs=25.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhccccccccccceEEE
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWT  196 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv  196 (385)
                      .+++|+|..|.|||||.+.+..-   .......+++
T Consensus        36 e~~~i~G~nGsGKSTLl~~l~Gl---~~p~~G~I~i   68 (247)
T 2ff7_A           36 EVIGIVGRSGSGKSTLTKLIQRF---YIPENGQVLI   68 (247)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTS---SCCSEEEEEE
T ss_pred             CEEEEECCCCCCHHHHHHHHhcC---CCCCCcEEEE
Confidence            58999999999999999999873   2333455555

>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=94.62  E-value=0.024  Score=48.64  Aligned_cols=33  Identities=24%  Similarity=0.222  Sum_probs=24.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhccccccccccceEEE
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWT  196 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv  196 (385)
                      .+++|+|+.|.|||||.+.++.-   .......+++
T Consensus        36 e~~~iiG~NGsGKSTLlk~l~Gl---~~p~~G~I~~   68 (214)
T 1sgw_A           36 NVVNFHGPNGIGKTTLLKTISTY---LKPLKGEIIY   68 (214)
T ss_dssp             CCEEEECCTTSSHHHHHHHHTTS---SCCSEEEEEE
T ss_pred             CEEEEECCCCCCHHHHHHHHhcC---CCCCCeEEEE
Confidence            57999999999999999999873   2233444544

>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman fold, hydro; HET: ADP; 2.91A {Escherichia coli}

Probab=94.60  E-value=0.043  Score=53.36  Aligned_cols=54  Identities=17%  Similarity=0.183  Sum_probs=34.5

Q ss_pred             HHHHHHHHHHHHHHh--hhhhhHHHHHHHHhcCCCCCCCCceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          122 MAAKIEDRTIRLQEI--EKDKEKEETVKLLLRDDLRTDDGLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       122 ~~~~i~~~~~~l~~i--~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      +...++.+...+...  +.+..++.+...+..+        .-|.++|++|+|||+||+.+.+.
T Consensus         9 ~~~~~~~l~~~l~~~ivGq~~~i~~l~~al~~~--------~~VLL~GpPGtGKT~LAraLa~~   64 (500)
T 3nbx_X            9 LAERISRLSSSLEKGLYERSHAIRLCLLAALSG--------ESVFLLGPPGIAKSLIARRLKFA   64 (500)
T ss_dssp             HHHHHHHHHHHHHTTCSSCHHHHHHHHHHHHHT--------CEEEEECCSSSSHHHHHHHGGGG
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhcC--------CeeEeecCchHHHHHHHHHHHHH
Confidence            344455555555432  2244445555545432        35789999999999999999875

>1zu4_A FTSY; GTPase, signal recognition particle, SRP, receptor, protein transport; 1.95A {Mycoplasma mycoides} PDB: 1zu5_A

Probab=94.60  E-value=0.045  Score=50.04  Aligned_cols=26  Identities=23%  Similarity=0.303  Sum_probs=22.3

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          158 DGLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       158 ~~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ....+|+|+|.+|+||||++..+...
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            45689999999999999999887653

>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=94.58  E-value=0.028  Score=49.70  Aligned_cols=33  Identities=24%  Similarity=0.230  Sum_probs=25.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhccccccccccceEEE
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWT  196 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv  196 (385)
                      .+++|+|+.|.|||||.+.+..-   .......+++
T Consensus        34 e~~~liG~nGsGKSTLlk~l~Gl---~~p~~G~i~~   66 (257)
T 1g6h_A           34 DVTLIIGPNGSGKSTLINVITGF---LKADEGRVYF   66 (257)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTS---SCCSEEEEEE
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC---CCCCCcEEEE
Confidence            58999999999999999999873   2333455554

>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=94.57  E-value=0.027  Score=53.76  Aligned_cols=26  Identities=31%  Similarity=0.247  Sum_probs=22.0

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          158 DGLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       158 ~~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ....+|.|+|.+|+||||++..+...
T Consensus        97 ~~~~vI~ivG~~GvGKTTla~~La~~  122 (432)
T 2v3c_C           97 KKQNVILLVGIQGSGKTTTAAKLARY  122 (432)
T ss_dssp             SSCCCEEEECCSSSSTTHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            34679999999999999999887653

>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=94.56  E-value=0.022  Score=51.48  Aligned_cols=25  Identities=24%  Similarity=0.143  Sum_probs=21.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ...+++++|.+|+||||++..+...
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            4579999999999999999888653

>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=0.028  Score=50.11  Aligned_cols=22  Identities=32%  Similarity=0.504  Sum_probs=20.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      .+++|+|..|.|||||.+.++.
T Consensus        46 e~~~i~G~nGsGKSTLlk~l~G   67 (271)
T 2ixe_A           46 KVTALVGPNGSGKSTVAALLQN   67 (271)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTT
T ss_pred             CEEEEECCCCCCHHHHHHHHhc
Confidence            5899999999999999999986

>3hr8_A Protein RECA; alpha and beta proteins (A/B, A+B), ATP-binding, cytoplasm, damage, DNA recombination, DNA repair, DNA-binding; 1.95A {Thermotoga maritima}

Probab=94.54  E-value=0.042  Score=50.95  Aligned_cols=42  Identities=26%  Similarity=0.315  Sum_probs=29.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecCCCC
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDFD  203 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~  203 (385)
                      -.++.|+|.+|+|||||+..+....  ...=..++|++....++
T Consensus        61 G~i~~I~GppGsGKSTLal~la~~~--~~~gg~VlyId~E~s~~  102 (356)
T 3hr8_A           61 GRIVEIFGQESSGKTTLALHAIAEA--QKMGGVAAFIDAEHALD  102 (356)
T ss_dssp             TEEEEEEESTTSSHHHHHHHHHHHH--HHTTCCEEEEESSCCCC
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHH--HhcCCeEEEEecccccc
Confidence            3799999999999999999887642  21112456776555444

>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=94.53  E-value=0.029  Score=49.58  Aligned_cols=22  Identities=27%  Similarity=0.459  Sum_probs=20.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      .+++|+|+.|.|||||.+.+..
T Consensus        42 ei~~l~G~NGsGKSTLlk~l~G   63 (256)
T 1vpl_A           42 EIFGLIGPNGAGKTTTLRIIST   63 (256)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTT
T ss_pred             cEEEEECCCCCCHHHHHHHHhc
Confidence            5899999999999999999976

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=94.53  E-value=0.029  Score=51.94  Aligned_cols=25  Identities=16%  Similarity=0.072  Sum_probs=22.2

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHhc
Q 038448          158 DGLSVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       158 ~~~~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      ....+|+|+|.+|+|||||...+..
T Consensus        72 ~~~~~v~lvG~pgaGKSTLln~L~~   96 (349)
T 2www_A           72 PLAFRVGLSGPPGAGKSTFIEYFGK   96 (349)
T ss_dssp             CSCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             cCceEEEEEcCCCCCHHHHHHHHHH
Confidence            3468999999999999999998875

>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=94.51  E-value=0.021  Score=47.28  Aligned_cols=25  Identities=20%  Similarity=0.213  Sum_probs=22.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ...++.|+|..|+|||||+..+...
T Consensus         5 ~~~~i~i~G~sGsGKTTl~~~l~~~   29 (174)
T 1np6_A            5 MIPLLAFAAWSGTGKTTLLKKLIPA   29 (174)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHH
T ss_pred             cceEEEEEeCCCCCHHHHHHHHHHh
Confidence            3578999999999999999988764

>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=94.51  E-value=0.03  Score=48.54  Aligned_cols=23  Identities=22%  Similarity=0.481  Sum_probs=21.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .+++|+|+.|.|||||.+.+..-
T Consensus        35 e~~~i~G~nGsGKSTLl~~l~Gl   57 (229)
T 2pze_A           35 QLLAVAGSTGAGKTSLLMMIMGE   57 (229)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            58999999999999999999863

>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function; HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*

Probab=94.50  E-value=0.04  Score=50.82  Aligned_cols=26  Identities=19%  Similarity=0.229  Sum_probs=21.9

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          158 DGLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       158 ~~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      +....|.|+|++|+||||+++.+...
T Consensus        22 g~~~~i~l~G~~G~GKTTl~~~la~~   47 (359)
T 2ga8_A           22 NYRVCVILVGSPGSGKSTIAEELCQI   47 (359)
T ss_dssp             CSCEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCeeEEEEECCCCCcHHHHHHHHHHH
Confidence            34567899999999999999988764

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=94.49  E-value=0.017  Score=50.88  Aligned_cols=22  Identities=23%  Similarity=0.336  Sum_probs=20.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      .+|.|+|++|+||||+++.+..
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            5799999999999999999976

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=94.47  E-value=0.023  Score=51.49  Aligned_cols=25  Identities=32%  Similarity=0.212  Sum_probs=22.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ...+++|+|+.|+||||++..+..-
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            4579999999999999999998764

>1pzn_A RAD51, DNA repair and recombination protein RAD51, RADA; heptameric ring, heptamer, ring, oligomer, RAD51 polymerizat motif; HET: DNA; 2.85A {Pyrococcus furiosus} SCOP: a.60.4.1 c.37.1.11

Probab=94.44  E-value=0.047  Score=50.54  Aligned_cols=45  Identities=20%  Similarity=0.217  Sum_probs=30.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhccccccccc----cceEEEEecCCCC
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSDVRVHNHF----DLKAWTCVSEDFD  203 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F----~~~~wv~vs~~~~  203 (385)
                      .-.++.|+|.+|+|||||+..+..........    ..++|++....+.
T Consensus       130 ~G~i~~I~G~~GsGKTTL~~~l~~~~~~~~~~Gg~~G~vi~i~~e~~~~  178 (349)
T 1pzn_A          130 TQAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTENTFR  178 (349)
T ss_dssp             SSEEEEEEESTTSSHHHHHHHHHHHTTSCGGGTSCSCEEEEEESSSCCC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHhccchhcCCCCCeEEEEeCCCCCC
Confidence            34799999999999999999987642111111    2348888665543

>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=94.44  E-value=0.046  Score=50.72  Aligned_cols=25  Identities=20%  Similarity=0.199  Sum_probs=21.9

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHhc
Q 038448          158 DGLSVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       158 ~~~~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      +...+|+|+|.+|+|||||+..+..
T Consensus        77 ~~~~~I~i~G~~G~GKSTl~~~L~~  101 (355)
T 3p32_A           77 GNAHRVGITGVPGVGKSTAIEALGM  101 (355)
T ss_dssp             CCSEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHH
Confidence            4678999999999999999988764

>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=94.42  E-value=0.021  Score=48.26  Aligned_cols=21  Identities=24%  Similarity=0.422  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHhc
Q 038448          162 VIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      +|+|.|+.|+||||+|+.+..
T Consensus         4 ~i~i~G~~GsGKst~~~~la~   24 (208)
T 3ake_A            4 IVTIDGPSASGKSSVARRVAA   24 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            899999999999999999876

>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II}

Probab=94.42  E-value=0.018  Score=49.34  Aligned_cols=23  Identities=22%  Similarity=0.307  Sum_probs=20.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ..|.|.|++|+||||+|+.+...
T Consensus         6 ~~I~l~G~~GsGKsT~a~~La~~   28 (217)
T 3be4_A            6 HNLILIGAPGSGKGTQCEFIKKE   28 (217)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            57899999999999999999764

>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=94.41  E-value=0.057  Score=48.56  Aligned_cols=51  Identities=12%  Similarity=0.156  Sum_probs=33.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcccccccccc-ceEEEEecCCCCHHHHHHHHHHHh
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSDVRVHNHFD-LKAWTCVSEDFDIIRVTKSILKSI  215 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~-~~~wv~vs~~~~~~~~~~~il~~l  215 (385)
                      .+++|+|.+|+|||||+..+....  ...-. .++|++...  +...+...++...
T Consensus        36 ~~~~i~G~~G~GKTTl~~~ia~~~--~~~~G~~v~~~~~e~--~~~~~~~r~~~~~   87 (296)
T 1cr0_A           36 EVIMVTSGSGMGKSTFVRQQALQW--GTAMGKKVGLAMLEE--SVEETAEDLIGLH   87 (296)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHHH--HHTSCCCEEEEESSS--CHHHHHHHHHHHH
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHHH--HHHcCCeEEEEeCcC--CHHHHHHHHHHHH
Confidence            689999999999999999887652  22222 456666443  3445555554443

>3dm5_A SRP54, signal recognition 54 kDa protein; protein-RNA, signal recognition particle, SRP-GTPase, protein targeting, cytoplasm, GTP-binding; HET: GDP; 2.51A {Pyrococcus furiosus}

Probab=94.40  E-value=0.047  Score=52.04  Aligned_cols=24  Identities=21%  Similarity=0.241  Sum_probs=21.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      ...+|.++|.+|+||||++..+..
T Consensus        99 ~p~vIlivG~~G~GKTTt~~kLA~  122 (443)
T 3dm5_A           99 KPTILLMVGIQGSGKTTTVAKLAR  122 (443)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCeEEEEECcCCCCHHHHHHHHHH
Confidence            478999999999999999887764

>2yz2_A Putative ABC transporter ATP-binding protein TM_0; cobalt transport, TM02 hydrolase, inner membrane, membrane, nucleotide-binding; 2.30A {Thermotoga maritima}

Probab=94.40  E-value=0.032  Score=49.57  Aligned_cols=22  Identities=27%  Similarity=0.404  Sum_probs=20.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      .+++|+|..|.|||||.+.++.
T Consensus        34 e~~~liG~nGsGKSTLl~~i~G   55 (266)
T 2yz2_A           34 ECLLVAGNTGSGKSTLLQIVAG   55 (266)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTT
T ss_pred             CEEEEECCCCCcHHHHHHHHhC
Confidence            5899999999999999999875

>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=94.38  E-value=0.027  Score=51.68  Aligned_cols=26  Identities=27%  Similarity=0.146  Sum_probs=22.6

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          158 DGLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       158 ~~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      +...+++|+|+.|+||||++..+..-
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            35689999999999999999988763

>2qtf_A Protein HFLX, GTP-binding protein; beta-alpha-barrels, nucleotide-binding, nucleotide binding protein; 2.00A {Sulfolobus solfataricus P2} PDB: 2qth_A* 3kxi_A* 3kxl_A 3kxk_A

Probab=94.37  E-value=0.059  Score=50.17  Aligned_cols=26  Identities=27%  Similarity=0.307  Sum_probs=22.0

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          158 DGLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       158 ~~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .+.++|+|+|.+|+|||||...+...
T Consensus       177 ~~~~~V~lvG~~naGKSTLln~L~~~  202 (364)
T 2qtf_A          177 NNIPSIGIVGYTNSGKTSLFNSLTGL  202 (364)
T ss_dssp             --CCEEEEECBTTSSHHHHHHHHHCC
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHHCC
Confidence            35678999999999999999998875

>2xxa_A Signal recognition particle protein; protein transport, RNA/RNA binding protein, hydrolase, gtpas; HET: GCP; 3.94A {Escherichia coli} PDB: 2j28_9

Probab=94.37  E-value=0.047  Score=52.08  Aligned_cols=26  Identities=23%  Similarity=0.087  Sum_probs=22.2

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          158 DGLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       158 ~~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ...++|.++|.+|+||||++..+...
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            45789999999999999999887643

>1vma_A Cell division protein FTSY; TM0570, structural genomics, JCS protein structure initiative, PSI, joint center for structu genomics; HET: CIT; 1.60A {Thermotoga maritima} SCOP: a.24.13.1 c.37.1.10

Probab=94.37  E-value=0.028  Score=51.08  Aligned_cols=26  Identities=27%  Similarity=0.212  Sum_probs=22.5

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          158 DGLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       158 ~~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ....+|.|+|.+|+||||++..+...
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            35689999999999999999888764

>2zr9_A Protein RECA, recombinase A; recombination, RECA mutants, DNA-repair, ATP-binding, DNA DA recombination, DNA repair, DNA-binding; HET: DTP; 2.50A {Mycobacterium smegmatis str} PDB: 2zr0_A* 2zra_A* 2zrb_A 2zrm_A* 1ubc_A* 1ubf_A* 1ubg_A* 1ube_A* 2g88_A* 2odw_A* 2oe2_A 2oep_A* 2oes_A 2ofo_A 2zr7_A 2odn_A* 2zrn_A 2zro_A* 2zrp_A* 2zre_A* ...

Probab=94.34  E-value=0.034  Score=51.49  Aligned_cols=42  Identities=29%  Similarity=0.290  Sum_probs=29.2

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecCCCC
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDFD  203 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~  203 (385)
                      -.++.|.|.+|+||||||.++....  ...=..++|++....++
T Consensus        61 G~iv~I~G~pGsGKTtLal~la~~~--~~~g~~vlyi~~E~~~~  102 (349)
T 2zr9_A           61 GRVIEIYGPESSGKTTVALHAVANA--QAAGGIAAFIDAEHALD  102 (349)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHHH--HHTTCCEEEEESSCCCC
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH--HhCCCeEEEEECCCCcC
Confidence            4689999999999999998887542  21123466776555443

>3lda_A DNA repair protein RAD51; DNA binding protein, ATP-binding, DNA damage, DNA recombinat repair, nucleotide-binding; HET: DNA; 2.50A {Saccharomyces cerevisiae} PDB: 1szp_A*

Probab=94.31  E-value=0.072  Score=50.22  Aligned_cols=56  Identities=18%  Similarity=0.175  Sum_probs=35.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhccccccc----cccceEEEEecCCCCHHHHHHHHHHHhh
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSDVRVHN----HFDLKAWTCVSEDFDIIRVTKSILKSIA  216 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~----~F~~~~wv~vs~~~~~~~~~~~il~~l~  216 (385)
                      =.++.|+|.+|+|||||+..++-......    .-..++|++....+....+ ..+++.++
T Consensus       178 Gei~~I~G~sGsGKTTLl~~la~~~~~p~~~Gg~~~~viyid~E~~~~~~rl-~~~a~~~g  237 (400)
T 3lda_A          178 GSITELFGEFRTGKSQLCHTLAVTCQIPLDIGGGEGKCLYIDTEGTFRPVRL-VSIAQRFG  237 (400)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSSCCCHHHH-HHHHHHTT
T ss_pred             CcEEEEEcCCCCChHHHHHHHHHHhccCcccCCCCCcEEEEeCCCccCHHHH-HHHHHHcC
Confidence            36899999999999999997652211111    1235788887666655443 33455443

>3d3q_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2; 2.70A {Staphylococcus epidermidis atcc 12228}

Probab=94.31  E-value=0.023  Score=52.21  Aligned_cols=23  Identities=30%  Similarity=0.329  Sum_probs=20.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .+|+|.|+.|+||||||..+...
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            58999999999999999998764

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=94.29  E-value=0.029  Score=50.74  Aligned_cols=25  Identities=24%  Similarity=0.365  Sum_probs=21.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ....+.++|++|+|||++|+.+.+.
T Consensus        46 ~~~~~ll~G~~GtGKt~la~~la~~   70 (311)
T 4fcw_A           46 PIGSFLFLGPTGVGKTELAKTLAAT   70 (311)
T ss_dssp             CSEEEEEESCSSSSHHHHHHHHHHH
T ss_pred             CceEEEEECCCCcCHHHHHHHHHHH
Confidence            3468999999999999999999874

>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase; HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A* 3l0p_A*

Probab=94.28  E-value=0.023  Score=48.94  Aligned_cols=22  Identities=32%  Similarity=0.344  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcc
Q 038448          162 VIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .|.|.|++|+||||+|+.+...
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            5889999999999999998763

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3}

Probab=94.27  E-value=0.024  Score=51.60  Aligned_cols=24  Identities=21%  Similarity=0.189  Sum_probs=21.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ...+.|+|.+|+|||+||..+++.
T Consensus       152 ~~~lll~G~~GtGKT~La~aia~~  175 (308)
T 2qgz_A          152 QKGLYLYGDMGIGKSYLLAAMAHE  175 (308)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CceEEEECCCCCCHHHHHHHHHHH
Confidence            367889999999999999999885

>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM: PF02562, ST genomics, PSI-2, protein structure initiative; 2.35A {Corynebacterium glutamicum atcc 13032}

Probab=94.26  E-value=0.02  Score=48.89  Aligned_cols=22  Identities=27%  Similarity=0.268  Sum_probs=20.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      .+++|+|+.|.|||||.+.+..
T Consensus        23 e~~~liG~nGsGKSTLl~~l~G   44 (208)
T 3b85_A           23 TIVFGLGPAGSGKTYLAMAKAV   44 (208)
T ss_dssp             SEEEEECCTTSSTTHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhc
Confidence            5899999999999999998875

>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=94.25  E-value=0.024  Score=48.44  Aligned_cols=22  Identities=32%  Similarity=0.368  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcc
Q 038448          162 VIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .|.|.|++|+||||+|+.+...
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            4789999999999999999763

>2ihy_A ABC transporter, ATP-binding protein; ATPase, ABC cassette, hydrolase; HET: MSE; 1.90A {Staphylococcus aureus}

Probab=94.22  E-value=0.036  Score=49.59  Aligned_cols=33  Identities=18%  Similarity=0.054  Sum_probs=25.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhccccccccccceEEE
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWT  196 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv  196 (385)
                      .+++|+|+.|.|||||.+.+..-   .......+++
T Consensus        48 e~~~liG~NGsGKSTLlk~l~Gl---~~p~~G~I~~   80 (279)
T 2ihy_A           48 DKWILYGLNGAGKTTLLNILNAY---EPATSGTVNL   80 (279)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTTS---SCCSEEEEEE
T ss_pred             CEEEEECCCCCcHHHHHHHHhCC---CCCCCeEEEE
Confidence            58999999999999999999873   2233445554

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=94.22  E-value=0.033  Score=48.31  Aligned_cols=38  Identities=18%  Similarity=0.166  Sum_probs=27.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecC
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSE  200 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~  200 (385)
                      .++.|.|.+|+||||||.++....  ...=..++|++...
T Consensus        24 ~~~~i~G~~GsGKTtl~~~~~~~~--~~~~~~v~~~~~e~   61 (247)
T 2dr3_A           24 NVVLLSGGPGTGKTIFSQQFLWNG--LKMGEPGIYVALEE   61 (247)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHH--HHTTCCEEEEESSS
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHH--HhcCCeEEEEEccC
Confidence            689999999999999998776542  12223567777554

>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=94.21  E-value=0.025  Score=48.20  Aligned_cols=22  Identities=23%  Similarity=0.333  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcc
Q 038448          162 VIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      +|.|.|++|+||||.|+.+...
T Consensus         2 ~Iil~GpPGsGKgTqa~~La~~   23 (206)
T 3sr0_A            2 ILVFLGPPGAGKGTQAKRLAKE   23 (206)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            5789999999999999999764

>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=94.19  E-value=0.028  Score=53.40  Aligned_cols=26  Identities=23%  Similarity=0.248  Sum_probs=23.0

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          158 DGLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       158 ~~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ....+|.|+|++|+||||+|+.+...
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            45689999999999999999999764

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=94.19  E-value=0.026  Score=48.43  Aligned_cols=37  Identities=16%  Similarity=0.091  Sum_probs=26.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEec
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVS  199 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs  199 (385)
                      .++.|+|.+|+|||||+..+....  ...=..++|++..
T Consensus        24 ~~~~i~G~~GsGKTtl~~~l~~~~--~~~~~~v~~~~~~   60 (235)
T 2w0m_A           24 FFIALTGEPGTGKTIFSLHFIAKG--LRDGDPCIYVTTE   60 (235)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHH--HHHTCCEEEEESS
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHHH--HHCCCeEEEEEcc
Confidence            689999999999999999987542  1111245666543

>1u94_A RECA protein, recombinase A; homologous recombination, ATPase, DNA repair, DNA binding protein; 1.90A {Escherichia coli} SCOP: c.37.1.11 d.48.1.1 PDB: 1u98_A 1u99_A 1xms_A* 1xmv_A* 2rec_A 2reb_A 1n03_A* 1rea_A 1aa3_A

Probab=94.18  E-value=0.039  Score=51.22  Aligned_cols=43  Identities=21%  Similarity=0.186  Sum_probs=30.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecCCCC
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDFD  203 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~  203 (385)
                      .-.++.|.|.+|+||||||.++....  ...=..++|++....++
T Consensus        62 ~G~ii~I~G~pGsGKTtLal~la~~~--~~~g~~vlyid~E~s~~  104 (356)
T 1u94_A           62 MGRIVEIYGPESSGKTTLTLQVIAAA--QREGKTCAFIDAEHALD  104 (356)
T ss_dssp             TTSEEEEECSTTSSHHHHHHHHHHHH--HHTTCCEEEEESSCCCC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH--HHCCCeEEEEeCCCCcc
Confidence            34689999999999999998887642  22223567777655443

>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=94.15  E-value=0.029  Score=48.65  Aligned_cols=24  Identities=21%  Similarity=0.106  Sum_probs=21.2

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ...|.|.|++|+||||+|+.+...
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            467999999999999999999764

>2e87_A Hypothetical protein PH1320; GTP-binding, GTPase, OBG, bundle, GDP, complex, structural G NPPSFA; HET: GDP; 2.35A {Pyrococcus horikoshii}

Probab=94.14  E-value=0.55  Score=43.37  Aligned_cols=26  Identities=23%  Similarity=0.335  Sum_probs=23.0

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          158 DGLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       158 ~~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .....|+++|.+|+|||||...+...
T Consensus       165 ~~~~~v~lvG~~gvGKSTLin~L~~~  190 (357)
T 2e87_A          165 LEIPTVVIAGHPNVGKSTLLKALTTA  190 (357)
T ss_dssp             SSSCEEEEECSTTSSHHHHHHHHCSS
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            45678999999999999999999765

>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=94.13  E-value=0.028  Score=48.80  Aligned_cols=24  Identities=17%  Similarity=0.230  Sum_probs=21.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ..+|.|.|++|+||||+|+.+...
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            468999999999999999998753

>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=94.12  E-value=0.027  Score=47.02  Aligned_cols=24  Identities=25%  Similarity=0.378  Sum_probs=21.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .-.|+|+|.+|+|||||.+.+...
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            467899999999999999998764

>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=94.10  E-value=0.026  Score=46.78  Aligned_cols=22  Identities=36%  Similarity=0.401  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcc
Q 038448          162 VIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      -|+|+|.+|+|||||...+...
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            4789999999999999998873

>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=94.10  E-value=0.027  Score=50.78  Aligned_cols=22  Identities=32%  Similarity=0.339  Sum_probs=20.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      .+|.|.|++|+||||+|+.+..
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            5799999999999999999876

>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=94.09  E-value=0.036  Score=48.72  Aligned_cols=25  Identities=28%  Similarity=0.247  Sum_probs=21.8

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHhc
Q 038448          158 DGLSVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       158 ~~~~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      ....++.+.|.||+|||||+..+..
T Consensus        12 ~~~~i~~~~GkgGvGKTTl~~~La~   36 (262)
T 1yrb_A           12 MASMIVVFVGTAGSGKTTLTGEFGR   36 (262)
T ss_dssp             CCCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             cceEEEEEeCCCCCCHHHHHHHHHH
Confidence            4568889999999999999998874

>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP; 2.37A {Humulus lupulus}

Probab=94.08  E-value=0.035  Score=50.90  Aligned_cols=24  Identities=17%  Similarity=0.256  Sum_probs=21.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .++|.|+|+.|+||||||..+...
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

>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=94.05  E-value=0.032  Score=45.28  Aligned_cols=23  Identities=26%  Similarity=0.436  Sum_probs=20.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ..|+|+|.+|+|||||...+...
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            56899999999999999999764

>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=94.05  E-value=0.029  Score=49.35  Aligned_cols=22  Identities=27%  Similarity=0.484  Sum_probs=20.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      .+++|+|..|.|||||.+.+..
T Consensus        30 e~~~l~G~nGsGKSTLlk~l~G   51 (250)
T 2d2e_A           30 EVHALMGPNGAGKSTLGKILAG   51 (250)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHT
T ss_pred             CEEEEECCCCCCHHHHHHHHhC
Confidence            5899999999999999999987

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=94.04  E-value=0.032  Score=51.82  Aligned_cols=25  Identities=32%  Similarity=0.212  Sum_probs=22.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ...+++|+|..|+|||||+..+..-
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            4579999999999999999998764

>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=94.03  E-value=0.055  Score=51.48  Aligned_cols=25  Identities=28%  Similarity=0.094  Sum_probs=21.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ...+|.++|.+|+||||++..+...
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            4789999999999999999887653

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=94.00  E-value=0.034  Score=44.49  Aligned_cols=23  Identities=22%  Similarity=0.394  Sum_probs=20.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .-|.++|.+|+|||||...+.+.
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            46899999999999999998765

>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding, nucleotide-binding, nucleotidyltransferase, tRNA processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A 3crr_A

Probab=93.97  E-value=0.029  Score=51.13  Aligned_cols=23  Identities=30%  Similarity=0.342  Sum_probs=20.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .+|.|+|+.|+||||||..+...
T Consensus         6 ~~i~i~GptGsGKTtla~~La~~   28 (323)
T 3crm_A            6 PAIFLMGPTAAGKTDLAMALADA   28 (323)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHHH
Confidence            58999999999999999998764

>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=93.96  E-value=0.038  Score=48.81  Aligned_cols=23  Identities=26%  Similarity=0.195  Sum_probs=20.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ..|.|+|.+|+|||+||+.+++.
T Consensus        30 ~~vll~G~~GtGKt~la~~i~~~   52 (265)
T 2bjv_A           30 KPVLIIGERGTGKELIASRLHYL   52 (265)
T ss_dssp             SCEEEECCTTSCHHHHHHHHHHT
T ss_pred             CCEEEECCCCCcHHHHHHHHHHh
Confidence            45779999999999999999875

>1a7j_A Phosphoribulokinase; transferase, calvin cycle; 2.50A {Rhodobacter sphaeroides} SCOP: c.37.1.6

Probab=93.94  E-value=0.018  Score=51.96  Aligned_cols=24  Identities=17%  Similarity=0.296  Sum_probs=18.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      ...+|+|.|..|+||||+|+.+..
T Consensus         4 ~~~iIgItG~sGSGKSTva~~L~~   27 (290)
T 1a7j_A            4 KHPIISVTGSSGAGTSTVKHTFDQ   27 (290)
T ss_dssp             TSCEEEEESCC---CCTHHHHHHH
T ss_pred             CceEEEEECCCCCCHHHHHHHHHH
Confidence            346899999999999999998876

>2qi9_C Vitamin B12 import ATP-binding protein BTUD; inner membrane, membrane, transmembrane, transport, ATP- binding, hydrolase, nucleotide-binding, periplasm; HET: 1PE; 2.60A {Escherichia coli} PDB: 1l7v_C* 4dbl_C

Probab=93.94  E-value=0.044  Score=48.14  Aligned_cols=23  Identities=22%  Similarity=0.362  Sum_probs=21.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .+++|+|+.|.|||||.+.+..-
T Consensus        27 e~~~liG~NGsGKSTLlk~l~Gl   49 (249)
T 2qi9_C           27 EILHLVGPNGAGKSTLLARMAGM   49 (249)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CEEEEECCCCCcHHHHHHHHhCC
Confidence            58999999999999999999873

>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=93.91  E-value=0.069  Score=45.66  Aligned_cols=23  Identities=17%  Similarity=0.190  Sum_probs=21.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ..|.|-|+.|+||||+++.+...
T Consensus         7 ~~i~~eG~~gsGKsT~~~~l~~~   29 (213)
T 4edh_A            7 LFVTLEGPEGAGKSTNRDYLAER   29 (213)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHH
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHH
Confidence            68999999999999999999774

>2r44_A Uncharacterized protein; putative ATPase, structural genomics, joint center for struc genomics, JCSG; HET: MSE PG4; 2.00A {Cytophaga hutchinsonii atcc 33406}

Probab=93.90  E-value=0.11  Score=47.34  Aligned_cols=37  Identities=11%  Similarity=-0.026  Sum_probs=26.9

Q ss_pred             hhhHHHHHHHHhcCCCCCCCCceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          139 DKEKEETVKLLLRDDLRTDDGLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       139 ~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      +..++.+...+...        .-+.++|.+|+|||+||+.+.+.
T Consensus        33 ~~~~~~l~~~l~~~--------~~vll~G~pGtGKT~la~~la~~   69 (331)
T 2r44_A           33 KYMINRLLIGICTG--------GHILLEGVPGLAKTLSVNTLAKT   69 (331)
T ss_dssp             HHHHHHHHHHHHHT--------CCEEEESCCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcC--------CeEEEECCCCCcHHHHHHHHHHH
Confidence            44455555555432        35789999999999999999874

>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=93.90  E-value=0.016  Score=51.34  Aligned_cols=22  Identities=27%  Similarity=0.389  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcc
Q 038448          162 VIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      -+.|+|++|+|||+||+.+++.
T Consensus        46 ~vll~G~~GtGKT~la~~la~~   67 (268)
T 2r62_A           46 GVLLVGPPGTGKTLLAKAVAGE   67 (268)
T ss_dssp             CCCCBCSSCSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCcHHHHHHHHHHH
Confidence            3779999999999999999875

>2zu0_C Probable ATP-dependent transporter SUFC; iron-sulfur cluster, ABC-ATPase, ATP-binding, cytoplasm, nucleotide-binding; HET: MES; 2.20A {Escherichia coli} PDB: 2d3w_A

Probab=93.88  E-value=0.032  Score=49.62  Aligned_cols=23  Identities=30%  Similarity=0.387  Sum_probs=21.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .+++|+|..|.|||||.+.++.-
T Consensus        47 e~~~l~G~NGsGKSTLlk~l~Gl   69 (267)
T 2zu0_C           47 EVHAIMGPNGSGKSTLSATLAGR   69 (267)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHTC
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            58999999999999999999873

>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=93.87  E-value=0.031  Score=49.88  Aligned_cols=22  Identities=27%  Similarity=0.357  Sum_probs=20.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      .++.|+|.+|+|||||+..+..
T Consensus        31 ~i~~i~G~~GsGKTtl~~~l~~   52 (279)
T 1nlf_A           31 TVGALVSPGGAGKSMLALQLAA   52 (279)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHH
T ss_pred             CEEEEEcCCCCCHHHHHHHHHH
Confidence            6899999999999999988875

>2ghi_A Transport protein; multidrug resistance protein, MDR, structural genomics, structural genomics consortium, SGC; 2.20A {Plasmodium yoelii yoelii str}

Probab=93.84  E-value=0.031  Score=49.44  Aligned_cols=23  Identities=30%  Similarity=0.514  Sum_probs=21.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .+++|+|+.|.|||||.+.+..-
T Consensus        47 e~~~i~G~nGsGKSTLl~~l~Gl   69 (260)
T 2ghi_A           47 TTCALVGHTGSGKSTIAKLLYRF   69 (260)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CEEEEECCCCCCHHHHHHHHhcc
Confidence            58999999999999999999874

>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=93.84  E-value=0.037  Score=50.19  Aligned_cols=23  Identities=22%  Similarity=0.442  Sum_probs=20.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ++|.|.|+.|+||||||..+...
T Consensus         4 ~~i~i~GptgsGKt~la~~La~~   26 (322)
T 3exa_A            4 KLVAIVGPTAVGKTKTSVMLAKR   26 (322)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHT
T ss_pred             cEEEEECCCcCCHHHHHHHHHHh
Confidence            68999999999999999998764

>2f9l_A RAB11B, member RAS oncogene family; RAB11B GTPase, vesicle transport, hydrolase; HET: GDP; 1.55A {Homo sapiens} SCOP: c.37.1.8 PDB: 2f9m_A* 1yzk_A* 2hv8_A* 2gzd_A* 2gzh_A* 2d7c_A* 3bfk_A*

Probab=93.83  E-value=0.031  Score=46.90  Aligned_cols=24  Identities=25%  Similarity=0.378  Sum_probs=21.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .-.|+|+|.+|+|||||.+.+...
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            356899999999999999999865

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A*

Probab=93.81  E-value=0.056  Score=44.04  Aligned_cols=26  Identities=31%  Similarity=0.365  Sum_probs=22.3

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          158 DGLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       158 ~~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .....|.|+|.+|+|||||...+.+.
T Consensus         6 ~~~~~i~v~G~~~~GKssl~~~l~~~   31 (178)
T 2lkc_A            6 ERPPVVTIMGHVDHGKTTLLDAIRHS   31 (178)
T ss_dssp             CCCCEEEEESCTTTTHHHHHHHHHTT
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            34567899999999999999999764

>3foz_A TRNA delta(2)-isopentenylpyrophosphate transferas; nucleoside modification, isopentenyl-tRNA transferase, transferase-RNA complex; 2.50A {Escherichia coli k-12} PDB: 2zxu_A* 2zm5_A

Probab=93.80  E-value=0.04  Score=49.81  Aligned_cols=25  Identities=28%  Similarity=0.137  Sum_probs=21.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ..++|.|+|+.|+||||||..+...
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            4578999999999999999998763

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=93.74  E-value=0.071  Score=51.81  Aligned_cols=25  Identities=28%  Similarity=0.211  Sum_probs=20.7

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHhc
Q 038448          158 DGLSVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       158 ~~~~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      ...++|.|+|.+|+||||++..+..
T Consensus        99 ~~~~vI~ivG~~GvGKTTl~~kLA~  123 (504)
T 2j37_W           99 GKQNVIMFVGLQGSGKTTTCSKLAY  123 (504)
T ss_dssp             S--EEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHH
Confidence            4578999999999999999988874

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=93.72  E-value=0.038  Score=48.96  Aligned_cols=22  Identities=23%  Similarity=0.270  Sum_probs=20.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      .+++|+|+.|+|||||.+.+..
T Consensus        26 ~~v~i~Gp~GsGKSTll~~l~g   47 (261)
T 2eyu_A           26 GLILVTGPTGSGKSTTIASMID   47 (261)
T ss_dssp             EEEEEECSTTCSHHHHHHHHHH
T ss_pred             CEEEEECCCCccHHHHHHHHHH
Confidence            6899999999999999988765

>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=93.71  E-value=0.035  Score=50.27  Aligned_cols=22  Identities=23%  Similarity=0.388  Sum_probs=20.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      .+++|+|+.|.|||||++.+..
T Consensus       127 e~vaIvGpsGsGKSTLl~lL~g  148 (305)
T 2v9p_A          127 NCLAFIGPPNTGKSMLCNSLIH  148 (305)
T ss_dssp             SEEEEECSSSSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCcHHHHHHHHhh
Confidence            6899999999999999998865

>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=93.67  E-value=0.036  Score=44.37  Aligned_cols=22  Identities=23%  Similarity=0.530  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcc
Q 038448          162 VIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      -|.++|.+|+|||||...+...
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            4789999999999999998765

>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=93.66  E-value=0.039  Score=44.84  Aligned_cols=24  Identities=33%  Similarity=0.486  Sum_probs=20.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .--|.|+|.+|+|||||...+...
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            356899999999999999998765

>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative iron chelatin ABC transporter, nucleotide binding domain; 2.40A {Haemophilus influenzae}

Probab=93.66  E-value=0.035  Score=48.89  Aligned_cols=23  Identities=26%  Similarity=0.499  Sum_probs=20.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .+++|+|+.|.|||||.+.+..-
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

>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=93.64  E-value=0.041  Score=49.91  Aligned_cols=22  Identities=23%  Similarity=0.593  Sum_probs=20.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      .+++|+|..|.|||||++.+..
T Consensus        81 e~vaivG~sGsGKSTLl~ll~g  102 (306)
T 3nh6_A           81 QTLALVGPSGAGKSTILRLLFR  102 (306)
T ss_dssp             CEEEEESSSCHHHHHHHHHHTT
T ss_pred             CEEEEECCCCchHHHHHHHHHc
Confidence            6899999999999999999875

>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=93.64  E-value=0.069  Score=51.34  Aligned_cols=24  Identities=25%  Similarity=0.254  Sum_probs=21.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .+-+.++|++|+|||+||+.+.+.
T Consensus        63 ~~~iLl~GppGtGKT~la~ala~~   86 (456)
T 2c9o_A           63 GRAVLLAGPPGTGKTALALAIAQE   86 (456)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCeEEEECCCcCCHHHHHHHHHHH
Confidence            356889999999999999999875

>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=93.60  E-value=0.051  Score=45.11  Aligned_cols=26  Identities=23%  Similarity=0.475  Sum_probs=22.5

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          158 DGLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       158 ~~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .....|.|+|.+|+|||||...+.+.
T Consensus        21 ~~~~~i~v~G~~~~GKSsli~~l~~~   46 (195)
T 1svi_A           21 GGLPEIALAGRSNVGKSSFINSLINR   46 (195)
T ss_dssp             SCCCEEEEEEBTTSSHHHHHHHHHTC
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            35677899999999999999999865

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=93.60  E-value=0.048  Score=45.02  Aligned_cols=25  Identities=24%  Similarity=0.359  Sum_probs=21.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ....|+++|.+|+|||||...+...
T Consensus         6 ~~~~i~lvG~~gvGKStL~~~l~~~   30 (188)
T 2wjg_A            6 KSYEIALIGNPNVGKSTIFNALTGE   30 (188)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHTT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            3467899999999999999999874

>1q3t_A Cytidylate kinase; nucleotide monophosphate kinase, CMP kinase, transferase; NMR {Streptococcus pneumoniae} SCOP: c.37.1.1

Probab=93.59  E-value=0.042  Score=47.69  Aligned_cols=25  Identities=28%  Similarity=0.274  Sum_probs=21.9

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHhc
Q 038448          158 DGLSVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       158 ~~~~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      ....+|+|+|+.|+||||+++.+..
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            3457899999999999999999876

>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=93.58  E-value=0.057  Score=50.04  Aligned_cols=22  Identities=36%  Similarity=0.462  Sum_probs=20.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      .+++|+|+.|.|||||.+.+..
T Consensus        31 e~~~llGpsGsGKSTLLr~iaG   52 (359)
T 3fvq_A           31 EILFIIGASGCGKTTLLRCLAG   52 (359)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHT
T ss_pred             CEEEEECCCCchHHHHHHHHhc
Confidence            5899999999999999999975

>2pjz_A Hypothetical protein ST1066; ATP binding protein, structural genomics, NPPSFA; 1.90A {Sulfolobus tokodaii}

Probab=93.55  E-value=0.056  Score=47.88  Aligned_cols=23  Identities=30%  Similarity=0.316  Sum_probs=20.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .+++|+|..|.|||||.+.+..-
T Consensus        31 e~~~i~G~NGsGKSTLlk~l~Gl   53 (263)
T 2pjz_A           31 EKVIILGPNGSGKTTLLRAISGL   53 (263)
T ss_dssp             SEEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEEECCCCCCHHHHHHHHhCC
Confidence            58999999999999999999863

>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=93.52  E-value=0.039  Score=47.76  Aligned_cols=25  Identities=24%  Similarity=0.046  Sum_probs=22.0

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHhc
Q 038448          158 DGLSVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       158 ~~~~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      ..-.+|+|.|..|+|||||++.+..
T Consensus        18 ~~g~~i~i~G~~GsGKSTl~~~L~~   42 (230)
T 2vp4_A           18 TQPFTVLIEGNIGSGKTTYLNHFEK   42 (230)
T ss_dssp             CCCEEEEEECSTTSCHHHHHHTTGG
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHh
Confidence            3457999999999999999999876

>3geh_A MNME, tRNA modification GTPase MNME; G protein, U34, GTP-binding, HYDR magnesium, metal-binding, nucleotide-binding, potassium, TR processing; HET: GDP FON; 3.20A {Nostoc SP}

Probab=93.48  E-value=0.42  Score=45.92  Aligned_cols=52  Identities=23%  Similarity=0.434  Sum_probs=35.0

Q ss_pred             HHHHHHHHHHHHHHHhhhhhhHHHHHHHHhcCCCCCCCCceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          121 MMAAKIEDRTIRLQEIEKDKEKEETVKLLLRDDLRTDDGLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       121 ~~~~~i~~~~~~l~~i~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .+..++..+..+++.+.......+...          .++ .|+|+|.+|+|||||...+...
T Consensus       196 ~~~~~i~~l~~~l~~~~~~~~~~~~~r----------~~~-kV~ivG~~nvGKSSLln~L~~~  247 (462)
T 3geh_A          196 AIISDIENIAAEISQLLATKDKGELLR----------TGL-KVAIVGRPNVGKSSLLNAWSQS  247 (462)
T ss_dssp             THHHHHHHHHHHHHHHTTTHHHHHHHH----------HCE-EEEEEECTTSSHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHhhhhhhhc----------CCC-EEEEEcCCCCCHHHHHHHHhCC
Confidence            355667777777766655433333222          133 3899999999999999998764

>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=93.48  E-value=0.042  Score=47.58  Aligned_cols=25  Identities=28%  Similarity=0.298  Sum_probs=22.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .-.+|.|.|++|+||||+++.+...
T Consensus        25 ~g~~i~i~G~~GsGKsT~~~~l~~~   49 (229)
T 4eaq_A           25 MSAFITFEGPEGSGKTTVINEVYHR   49 (229)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHH
Confidence            3478999999999999999999875

>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=93.46  E-value=0.046  Score=52.74  Aligned_cols=43  Identities=19%  Similarity=0.219  Sum_probs=29.3

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecCCCC
Q 038448          158 DGLSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDFD  203 (385)
Q Consensus       158 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~  203 (385)
                      ..-.+++|+|..|+|||||+..+..-  .+ .-...+++.-...+.
T Consensus       291 ~~GeVI~LVGpNGSGKTTLl~~LAgl--l~-~~~G~V~l~g~D~~r  333 (503)
T 2yhs_A          291 KAPFVILMVGVNGVGKTTTIGKLARQ--FE-QQGKSVMLAAGDTFR  333 (503)
T ss_dssp             CTTEEEEEECCTTSSHHHHHHHHHHH--HH-HTTCCEEEECCCTTC
T ss_pred             cCCeEEEEECCCcccHHHHHHHHHHH--hh-hcCCeEEEecCcccc
Confidence            34579999999999999999998763  22 223455554344443

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=93.41  E-value=0.11  Score=47.82  Aligned_cols=24  Identities=25%  Similarity=0.202  Sum_probs=21.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      .-.+++|+|.+|+|||||...+..
T Consensus        54 ~g~~v~i~G~~GaGKSTLl~~l~g   77 (337)
T 2qm8_A           54 RAIRVGITGVPGVGKSTTIDALGS   77 (337)
T ss_dssp             CSEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            457999999999999999998874

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=93.40  E-value=0.059  Score=44.58  Aligned_cols=27  Identities=15%  Similarity=0.334  Sum_probs=22.7

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHhccc
Q 038448          158 DGLSVIPIIGTGRIGKTTLAQLAYSDV  184 (385)
Q Consensus       158 ~~~~vi~I~G~gGiGKTtLA~~v~~~~  184 (385)
                      .....|.|+|.+|+|||||...+....
T Consensus        21 ~~~~~i~v~G~~~~GKSsli~~l~~~~   47 (195)
T 3pqc_A           21 PLKGEVAFVGRSNVGKSSLLNALFNRK   47 (195)
T ss_dssp             CTTCEEEEEEBTTSSHHHHHHHHHTSC
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHcCc
Confidence            345678899999999999999998763

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=93.40  E-value=0.064  Score=55.12  Aligned_cols=39  Identities=26%  Similarity=0.333  Sum_probs=30.8

Q ss_pred             hhhHHHHHHHHhcCCCCCCCCceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          139 DKEKEETVKLLLRDDLRTDDGLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       139 ~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      +.+++.++..|....      ..-+.++|.+|+|||++|+.+.+.
T Consensus       186 ~~~i~~l~~~l~~~~------~~~vLL~G~pGtGKT~la~~la~~  224 (758)
T 3pxi_A          186 SKEIQRVIEVLSRRT------KNNPVLIGEPGVGKTAIAEGLAQQ  224 (758)
T ss_dssp             HHHHHHHHHHHHCSS------SCEEEEESCTTTTTHHHHHHHHHH
T ss_pred             hHHHHHHHHHHhCCC------CCCeEEECCCCCCHHHHHHHHHHH
Confidence            777888888886532      234789999999999999988764

>3sop_A Neuronal-specific septin-3; hydrolase; HET: GDP; 2.88A {Homo sapiens}

Probab=93.39  E-value=0.041  Score=48.98  Aligned_cols=21  Identities=29%  Similarity=0.567  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHhc
Q 038448          162 VIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      .++|+|..|+|||||.+.++.
T Consensus         4 ~v~lvG~nGaGKSTLln~L~g   24 (270)
T 3sop_A            4 NIMVVGQSGLGKSTLVNTLFK   24 (270)
T ss_dssp             EEEEEESSSSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            589999999999999998875

>4b4t_M 26S protease regulatory subunit 6A; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=93.37  E-value=0.045  Score=52.10  Aligned_cols=147  Identities=10%  Similarity=0.090  Sum_probs=73.0

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecCC---C--CHHHHHHHHHHHhhcCCCC--CccchHHhh
Q 038448          158 DGLSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSED---F--DIIRVTKSILKSIASDQLV--DDHDLNLLQ  230 (385)
Q Consensus       158 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~---~--~~~~~~~~il~~l~~~~~~--~~~~~~~l~  230 (385)
                      ..++=|.++|++|.|||.||+++.+.  ....|   +.++.+.-   +  .....++.++.......+.  ..+.++.+-
T Consensus       213 ~~prGvLLyGPPGTGKTllAkAiA~e--~~~~f---~~v~~s~l~~~~vGese~~ir~lF~~A~~~aP~IifiDEiDal~  287 (434)
T 4b4t_M          213 RAPKGALMYGPPGTGKTLLARACAAQ--TNATF---LKLAAPQLVQMYIGEGAKLVRDAFALAKEKAPTIIFIDELDAIG  287 (434)
T ss_dssp             CCCCEEEEESCTTSSHHHHHHHHHHH--HTCEE---EEEEGGGGCSSCSSHHHHHHHHHHHHHHHHCSEEEEEECTHHHH
T ss_pred             CCCCeeEEECcCCCCHHHHHHHHHHH--hCCCE---EEEehhhhhhcccchHHHHHHHHHHHHHhcCCeEEeecchhhhh
Confidence            34577899999999999999999985  33233   33443321   1  1234555555443332221  123333332


Q ss_pred             ---------chhh----HhhHhhhccCC--CCCcEEEEEcCChhHHhh-c-CC---CCcccCCCCChhhHHhhhhccccC
Q 038448          231 ---------KYND----WTNRSRLFEAG--APGSKIVFTTRNLGVAEK-M-GP---LPAYPLKELSNDDCLSVFSPHSLG  290 (385)
Q Consensus       231 ---------~~~~----w~~l~~~l~~~--~~gs~IivTTR~~~va~~-~-~~---~~~~~l~~L~~~~a~~Lf~~~a~~  290 (385)
                               ....    ...+...+...  ..+--||.||........ + .+   ...+.+...+.++-.++|..+.-.
T Consensus       288 ~~R~~~~~~~~~~~~~~~~~lL~~ldg~~~~~~ViVIaaTNrp~~LD~AllRpGRfD~~I~i~lPd~~~R~~Il~~~~~~  367 (434)
T 4b4t_M          288 TKRFDSEKSGDREVQRTMLELLNQLDGFSSDDRVKVLAATNRVDVLDPALLRSGRLDRKIEFPLPSEDSRAQILQIHSRK  367 (434)
T ss_dssp             CCCSSGGGGTTHHHHHHHHHHHHHHTTSCSSCSSEEEEECSSCCCCCTTTCSTTSEEEEEECCCCCHHHHHHHHHHHHHH
T ss_pred             hccCCCCCCCchHHHHHHHHHHHHhhccCCCCCEEEEEeCCCchhcCHhHhcCCceeEEEEeCCcCHHHHHHHHHHHhcC
Confidence                     0011    11233333221  223355667765543321 1 11   135677777877777777644311


Q ss_pred             CCCCCCCccHHHHHHHHHHHcCCC
Q 038448          291 EKDFSTHPSLKEIGEKIVKKCNGL  314 (385)
Q Consensus       291 ~~~~~~~~~l~~~~~~i~~~c~gl  314 (385)
                       ......-++    ..|++.+.|+
T Consensus       368 -~~~~~dvdl----~~lA~~t~G~  386 (434)
T 4b4t_M          368 -MTTDDDINW----QELARSTDEF  386 (434)
T ss_dssp             -SCBCSCCCH----HHHHHHCSSC
T ss_pred             -CCCCCcCCH----HHHHHhCCCC
Confidence             111111223    4567777775

>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=93.36  E-value=0.052  Score=43.63  Aligned_cols=24  Identities=21%  Similarity=0.434  Sum_probs=20.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .--|.|+|.+|+|||||...+.+.
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            345789999999999999998765

>4hlc_A DTMP kinase, thymidylate kinase; TMK, MRSA, pipiridine, transfera transferase inhibitor complex; HET: T05; 1.55A {Staphylococcus aureus subsp} PDB: 2cck_A 4gfd_A* 4gsy_A* 4hdc_A* 4hej_A* 2ccj_A* 4hld_A* 2ccg_A*

Probab=93.34  E-value=0.083  Score=44.85  Aligned_cols=23  Identities=30%  Similarity=0.404  Sum_probs=20.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      +.|+|=|..|+||||+++.+...
T Consensus         3 kFI~~EG~dGsGKsTq~~~L~~~   25 (205)
T 4hlc_A            3 AFITFEGPEGSGKTTVINEVYHR   25 (205)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CEEEEECCCCCcHHHHHHHHHHH
Confidence            57889999999999999998875

>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=93.33  E-value=0.052  Score=46.10  Aligned_cols=26  Identities=35%  Similarity=0.345  Sum_probs=22.4

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          158 DGLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       158 ~~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .....|.++|.+|+|||||...+...
T Consensus        10 ~~~~~i~~~G~~g~GKTsl~~~l~~~   35 (218)
T 1nrj_B           10 SYQPSIIIAGPQNSGKTSLLTLLTTD   35 (218)
T ss_dssp             CCCCEEEEECSTTSSHHHHHHHHHHS
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcC
Confidence            35567899999999999999998865

>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=93.32  E-value=0.043  Score=45.41  Aligned_cols=23  Identities=22%  Similarity=0.479  Sum_probs=20.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      --|.++|.+|+|||||+..+...
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            46789999999999999999765

>1xp8_A RECA protein, recombinase A; recombination, radioresistance, DNA-repair, ATPase, DNA-BIND protein, DNA binding protein; HET: AGS; 2.50A {Deinococcus radiodurans} SCOP: c.37.1.11 d.48.1.1

Probab=93.31  E-value=0.068  Score=49.75  Aligned_cols=42  Identities=24%  Similarity=0.175  Sum_probs=29.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecCCCC
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDFD  203 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~  203 (385)
                      -.++.|.|.+|+||||||..+....  ...=..++|++....++
T Consensus        74 G~li~I~G~pGsGKTtlal~la~~~--~~~g~~vlyi~~E~s~~  115 (366)
T 1xp8_A           74 GRITEIYGPESGGKTTLALAIVAQA--QKAGGTCAFIDAEHALD  115 (366)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHHH--HHTTCCEEEEESSCCCC
T ss_pred             CcEEEEEcCCCCChHHHHHHHHHHH--HHCCCeEEEEECCCChh
Confidence            3688899999999999998887642  22223577887665443

>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=93.30  E-value=0.043  Score=44.17  Aligned_cols=22  Identities=23%  Similarity=0.398  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcc
Q 038448          162 VIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      -|.++|.+|+|||||...+.+.
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            4789999999999999998654

>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=93.30  E-value=0.045  Score=43.91  Aligned_cols=23  Identities=26%  Similarity=0.502  Sum_probs=20.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .-|.++|.+|+|||||...+...
T Consensus         5 ~~i~v~G~~~~GKssl~~~l~~~   27 (168)
T 1u8z_A            5 HKVIMVGSGGVGKSALTLQFMYD   27 (168)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHhC
Confidence            46889999999999999998765

>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=93.28  E-value=0.048  Score=44.59  Aligned_cols=23  Identities=22%  Similarity=0.255  Sum_probs=20.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ..|+|+|.+|+|||||...+...
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            46889999999999999999865

>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=93.28  E-value=0.069  Score=49.59  Aligned_cols=22  Identities=27%  Similarity=0.418  Sum_probs=20.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      .+++|+|+.|.|||||.+.+..
T Consensus        55 ei~~IiGpnGaGKSTLlr~i~G   76 (366)
T 3tui_C           55 QIYGVIGASGAGKSTLIRCVNL   76 (366)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHT
T ss_pred             CEEEEEcCCCchHHHHHHHHhc
Confidence            6899999999999999999875

>4tmk_A Protein (thymidylate kinase); ATP:DTMP phosphotransferase, transferase; HET: T5A; 1.98A {Escherichia coli} SCOP: c.37.1.1 PDB: 5tmp_A*

Probab=93.25  E-value=0.1  Score=44.53  Aligned_cols=23  Identities=30%  Similarity=0.290  Sum_probs=20.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ..|.+-|..|+||||+++.+...
T Consensus         4 ~~i~~eG~~gsGKsT~~~~l~~~   26 (213)
T 4tmk_A            4 KYIVIEGLEGAGKTTARNVVVET   26 (213)
T ss_dssp             CEEEEEECTTSCHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            57899999999999999999875

>2ocp_A DGK, deoxyguanosine kinase; protein-nucleotide complex, transferase; HET: DTP; 2.80A {Homo sapiens} SCOP: c.37.1.1

Probab=93.25  E-value=0.051  Score=47.30  Aligned_cols=23  Identities=26%  Similarity=0.375  Sum_probs=21.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ..|.|.|..|+||||+++.+...
T Consensus         3 ~~i~~~G~~g~GKtt~~~~l~~~   25 (241)
T 2ocp_A            3 RRLSIEGNIAVGKSTFVKLLTKT   25 (241)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHH
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHH
Confidence            68999999999999999999874

>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=93.24  E-value=0.058  Score=43.50  Aligned_cols=24  Identities=25%  Similarity=0.392  Sum_probs=20.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .--|.++|.+|+|||||...+...
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            356889999999999999998765

>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=93.23  E-value=0.05  Score=48.98  Aligned_cols=23  Identities=22%  Similarity=0.481  Sum_probs=20.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .+++|+|..|.|||||.+.+..-
T Consensus        65 e~~~i~G~NGsGKSTLlk~l~Gl   87 (290)
T 2bbs_A           65 QLLAVAGSTGAGKTSLLMMIMGE   87 (290)
T ss_dssp             CEEEEEESTTSSHHHHHHHHTTS
T ss_pred             CEEEEECCCCCcHHHHHHHHhcC
Confidence            58999999999999999999763

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=93.23  E-value=0.05  Score=43.89  Aligned_cols=23  Identities=22%  Similarity=0.427  Sum_probs=20.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      --|.++|.+|+|||||...+...
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            35789999999999999999764

>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=93.22  E-value=0.05  Score=45.83  Aligned_cols=23  Identities=22%  Similarity=0.196  Sum_probs=20.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      +.|.|.|.+|+||||||..+...
T Consensus        35 ~~ilI~GpsGsGKStLA~~La~~   57 (205)
T 2qmh_A           35 LGVLITGDSGVGKSETALELVQR   57 (205)
T ss_dssp             EEEEEECCCTTTTHHHHHHHHTT
T ss_pred             EEEEEECCCCCCHHHHHHHHHHh
Confidence            56889999999999999998764

>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=93.19  E-value=0.048  Score=43.83  Aligned_cols=22  Identities=23%  Similarity=0.490  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcc
Q 038448          162 VIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      -|.|+|.+|+|||||...+.+.
T Consensus         5 ki~v~G~~~~GKssli~~l~~~   26 (167)
T 1c1y_A            5 KLVVLGSGGVGKSALTVQFVQG   26 (167)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            5789999999999999998764

>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=93.17  E-value=0.053  Score=50.68  Aligned_cols=24  Identities=29%  Similarity=0.130  Sum_probs=21.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      .-.+++|+|++|.|||||++.+..
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            446999999999999999999986

>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=93.15  E-value=0.054  Score=48.85  Aligned_cols=25  Identities=24%  Similarity=0.105  Sum_probs=21.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ...+++++|.+|+||||++..+..-
T Consensus        97 ~~~~i~i~g~~G~GKTT~~~~la~~  121 (295)
T 1ls1_A           97 DRNLWFLVGLQGSGKTTTAAKLALY  121 (295)
T ss_dssp             SSEEEEEECCTTTTHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHH
Confidence            4579999999999999999988764

>1z47_A CYSA, putative ABC-transporter ATP-binding protein; alpha/beta motif, beta sandwich, ligand binding protein; 1.90A {Alicyclobacillus acidocaldarius}

Probab=93.13  E-value=0.075  Score=49.20  Aligned_cols=22  Identities=27%  Similarity=0.493  Sum_probs=20.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      .+++|+|+.|.|||||.+.+..
T Consensus        42 e~~~llGpnGsGKSTLLr~iaG   63 (355)
T 1z47_A           42 EMVGLLGPSGSGKTTILRLIAG   63 (355)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHT
T ss_pred             CEEEEECCCCCcHHHHHHHHhC
Confidence            6899999999999999999875

>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=93.12  E-value=0.049  Score=43.61  Aligned_cols=23  Identities=22%  Similarity=0.465  Sum_probs=19.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      --|.++|.+|+|||||...+...
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            35889999999999999888754

>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=93.11  E-value=0.065  Score=43.18  Aligned_cols=22  Identities=27%  Similarity=0.351  Sum_probs=19.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      --|.|+|.+|+|||||...+..
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            4578999999999999999864

>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=93.11  E-value=0.048  Score=49.79  Aligned_cols=25  Identities=28%  Similarity=0.311  Sum_probs=22.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ...++.|+|+.|.|||||.+.+...
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            4689999999999999999999854

>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=93.10  E-value=0.05  Score=43.78  Aligned_cols=23  Identities=17%  Similarity=0.355  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHhccc
Q 038448          162 VIPIIGTGRIGKTTLAQLAYSDV  184 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v~~~~  184 (385)
                      -|.++|.+|+|||||...+.+..
T Consensus         5 ~i~v~G~~~~GKssli~~l~~~~   27 (170)
T 1ek0_A            5 KLVLLGEAAVGKSSIVLRFVSND   27 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            47899999999999999887653

>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=93.08  E-value=0.049  Score=44.91  Aligned_cols=25  Identities=28%  Similarity=0.372  Sum_probs=21.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ..--|.|+|.+|+|||||...+.+.
T Consensus         6 ~~~ki~v~G~~~vGKSsli~~l~~~   30 (184)
T 1m7b_A            6 VKCKIVVVGDSQCGKTALLHVFAKD   30 (184)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eEEEEEEECCCCCCHHHHHHHHhcC
Confidence            3456789999999999999998765

>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=93.07  E-value=0.064  Score=44.18  Aligned_cols=25  Identities=32%  Similarity=0.327  Sum_probs=21.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ....|.|+|.+|+|||||...+.+.
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            4567899999999999999999865

>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=93.06  E-value=0.078  Score=49.19  Aligned_cols=22  Identities=23%  Similarity=0.377  Sum_probs=20.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      .+++|+|+.|.|||||.+.+..
T Consensus        30 e~~~llGpnGsGKSTLLr~iaG   51 (359)
T 2yyz_A           30 EFVALLGPSGCGKTTTLLMLAG   51 (359)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHT
T ss_pred             CEEEEEcCCCchHHHHHHHHHC
Confidence            5899999999999999999875

>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=93.04  E-value=0.051  Score=43.78  Aligned_cols=23  Identities=17%  Similarity=0.304  Sum_probs=20.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      --|.++|.+|+|||||...+.+.
T Consensus         7 ~~i~v~G~~~~GKSsli~~l~~~   29 (170)
T 1z0j_A            7 LKVCLLGDTGVGKSSIMWRFVED   29 (170)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHS
T ss_pred             eEEEEECcCCCCHHHHHHHHHcC
Confidence            45889999999999999998765

>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=93.03  E-value=0.049  Score=50.89  Aligned_cols=24  Identities=38%  Similarity=0.333  Sum_probs=21.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ...+.++|++|+|||++|+.+.+.
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            356889999999999999999874

>2it1_A 362AA long hypothetical maltose/maltodextrin transport ATP-binding protein; structural genomics, NPPSFA; 1.94A {Pyrococcus horikoshii}

Probab=93.02  E-value=0.079  Score=49.21  Aligned_cols=22  Identities=23%  Similarity=0.365  Sum_probs=20.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      .+++|+|+.|.|||||.+.+..
T Consensus        30 e~~~llGpnGsGKSTLLr~iaG   51 (362)
T 2it1_A           30 EFMALLGPSGSGKSTLLYTIAG   51 (362)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHT
T ss_pred             CEEEEECCCCchHHHHHHHHhc
Confidence            5899999999999999999875

>3io5_A Recombination and repair protein; storage dimer, inactive conformation, RECA like core domain, binding, DNA damage, DNA recombination; 2.40A {Enterobacteria phage T4}

Probab=93.01  E-value=0.11  Score=47.20  Aligned_cols=42  Identities=7%  Similarity=-0.028  Sum_probs=31.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcccccccc--ccceEEEEecCCCCHH
Q 038448          162 VIPIIGTGRIGKTTLAQLAYSDVRVHNH--FDLKAWTCVSEDFDII  205 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v~~~~~~~~~--F~~~~wv~vs~~~~~~  205 (385)
                      ++-|.|.+|+|||||+.++...  ....  =..++||+....++..
T Consensus        30 iteI~G~pGsGKTtL~Lq~~~~--~~~~g~g~~vlyId~E~s~~~~   73 (333)
T 3io5_A           30 LLILAGPSKSFKSNFGLTMVSS--YMRQYPDAVCLFYDSEFGITPA   73 (333)
T ss_dssp             EEEEEESSSSSHHHHHHHHHHH--HHHHCTTCEEEEEESSCCCCHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHH--HHhcCCCceEEEEeccchhhHH
Confidence            6899999999999999888764  2222  2357888877766653

>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=93.00  E-value=0.079  Score=49.42  Aligned_cols=22  Identities=23%  Similarity=0.377  Sum_probs=20.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      .+++|+|+.|.|||||.+.+..
T Consensus        30 e~~~llGpnGsGKSTLLr~iaG   51 (372)
T 1g29_1           30 EFMILLGPSGCGKTTTLRMIAG   51 (372)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHT
T ss_pred             CEEEEECCCCcHHHHHHHHHHc
Confidence            5899999999999999999875

>1qvr_A CLPB protein; coiled coil, AAA ATPase, chaperone; HET: ANP; 3.00A {Thermus thermophilus} SCOP: a.174.1.1 c.37.1.20 c.37.1.20

Probab=93.00  E-value=0.067  Score=55.78  Aligned_cols=141  Identities=13%  Similarity=0.108  Sum_probs=68.8

Q ss_pred             hhhhHHHHHHHHhcCCCCCCCCceEEEEEcCCCCcHHHHHHHHhcccc---ccccc-c-ceEEEEecCC-------CCHH
Q 038448          138 KDKEKEETVKLLLRDDLRTDDGLSVIPIIGTGRIGKTTLAQLAYSDVR---VHNHF-D-LKAWTCVSED-------FDII  205 (385)
Q Consensus       138 ~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~---~~~~F-~-~~~wv~vs~~-------~~~~  205 (385)
                      .+.+...+++.|....      ..-+.++|.+|+||||||+.+.+...   +.... . ..++++.+.-       -...
T Consensus       175 r~~~i~~l~~~l~~~~------~~~vlL~G~pG~GKT~la~~la~~l~~~~~p~~l~~~~~~~l~~~~l~~g~~~~g~~~  248 (854)
T 1qvr_A          175 RDEEIRRVIQILLRRT------KNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMGSLLAGAKYRGEFE  248 (854)
T ss_dssp             CHHHHHHHHHHHHCSS------CCCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEECC-----------CHH
T ss_pred             cHHHHHHHHHHHhcCC------CCceEEEcCCCCCHHHHHHHHHHHHhcCCCchhhcCCeEEEeehHHhhccCccchHHH
Confidence            3777888888885532      23468999999999999999887421   11111 1 1233332221       1234


Q ss_pred             HHHHHHHHHhhcCCCC---CccchHHhh----c---hhhHhhHhhhccCCCCCcEEEEEcCChhHHh-----hc-CCCCc
Q 038448          206 RVTKSILKSIASDQLV---DDHDLNLLQ----K---YNDWTNRSRLFEAGAPGSKIVFTTRNLGVAE-----KM-GPLPA  269 (385)
Q Consensus       206 ~~~~~il~~l~~~~~~---~~~~~~~l~----~---~~~w~~l~~~l~~~~~gs~IivTTR~~~va~-----~~-~~~~~  269 (385)
                      ..++.++..+......   ..++++.+.    .   .+....+...+..  .+-.+|.+|.......     .+ .....
T Consensus       249 ~~l~~~~~~~~~~~~~~iL~IDEi~~l~~~~~~~g~~~~~~~L~~~l~~--~~i~~I~at~~~~~~~~~~d~aL~rRf~~  326 (854)
T 1qvr_A          249 ERLKAVIQEVVQSQGEVILFIDELHTVVGAGKAEGAVDAGNMLKPALAR--GELRLIGATTLDEYREIEKDPALERRFQP  326 (854)
T ss_dssp             HHHHHHHHHHHTTCSSEEEEECCC-------------------HHHHHT--TCCCEEEEECHHHHHHHTTCTTTCSCCCC
T ss_pred             HHHHHHHHHHHhcCCCeEEEEecHHHHhccCCccchHHHHHHHHHHHhC--CCeEEEEecCchHHhhhccCHHHHhCCce
Confidence            4566666666443111   112233222    1   1111223333322  2334555554333211     11 11235


Q ss_pred             ccCCCCChhhHHhhhhc
Q 038448          270 YPLKELSNDDCLSVFSP  286 (385)
Q Consensus       270 ~~l~~L~~~~a~~Lf~~  286 (385)
                      +.+.+++.++...++..
T Consensus       327 i~l~~p~~~e~~~iL~~  343 (854)
T 1qvr_A          327 VYVDEPTVEETISILRG  343 (854)
T ss_dssp             EEECCCCHHHHHHHHHH
T ss_pred             EEeCCCCHHHHHHHHHh
Confidence            78899999988888753

>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=92.98  E-value=0.08  Score=49.37  Aligned_cols=22  Identities=23%  Similarity=0.394  Sum_probs=20.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      .+++|+|+.|.|||||.+.+..
T Consensus        38 e~~~llGpnGsGKSTLLr~iaG   59 (372)
T 1v43_A           38 EFLVLLGPSGCGKTTTLRMIAG   59 (372)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHT
T ss_pred             CEEEEECCCCChHHHHHHHHHc
Confidence            6899999999999999999875

>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=92.98  E-value=0.08  Score=49.44  Aligned_cols=22  Identities=23%  Similarity=0.440  Sum_probs=20.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      .+++|+|+.|.|||||.+.+..
T Consensus        30 e~~~llGpsGsGKSTLLr~iaG   51 (381)
T 3rlf_A           30 EFVVFVGPSGCGKSTLLRMIAG   51 (381)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHT
T ss_pred             CEEEEEcCCCchHHHHHHHHHc
Confidence            5899999999999999999975

>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=92.96  E-value=0.075  Score=43.27  Aligned_cols=25  Identities=20%  Similarity=0.376  Sum_probs=21.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ...-|.|+|.+|+|||||...+.+.
T Consensus         8 ~~~~i~v~G~~~~GKssli~~l~~~   32 (181)
T 2fn4_A            8 ETHKLVVVGGGGVGKSALTIQFIQS   32 (181)
T ss_dssp             CEEEEEEEECTTSSHHHHHHHHHHS
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhC
Confidence            4567899999999999999998765

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens}

Probab=92.95  E-value=0.051  Score=44.30  Aligned_cols=25  Identities=28%  Similarity=0.344  Sum_probs=21.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ..--|.|+|.+|+|||||...+...
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            4566899999999999999999765

>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=92.95  E-value=0.064  Score=49.56  Aligned_cols=22  Identities=27%  Similarity=0.362  Sum_probs=20.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      .+++|+|+.|.|||||.+.+..
T Consensus        27 e~~~llGpnGsGKSTLLr~iaG   48 (348)
T 3d31_A           27 EYFVILGPTGAGKTLFLELIAG   48 (348)
T ss_dssp             CEEEEECCCTHHHHHHHHHHHT
T ss_pred             CEEEEECCCCccHHHHHHHHHc
Confidence            5899999999999999999975

>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=92.93  E-value=0.056  Score=44.57  Aligned_cols=22  Identities=27%  Similarity=0.345  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcc
Q 038448          162 VIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      -|.|+|.+|+|||||...+...
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            4789999999999999998875

>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=92.93  E-value=0.054  Score=44.86  Aligned_cols=25  Identities=20%  Similarity=0.208  Sum_probs=20.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ..--|.|+|.+|+|||||...+.+.
T Consensus        19 ~~~ki~ivG~~~vGKSsL~~~~~~~   43 (184)
T 3ihw_A           19 PELKVGIVGNLSSGKSALVHRYLTG   43 (184)
T ss_dssp             CEEEEEEECCTTSCHHHHHHHHHHS
T ss_pred             CeeEEEEECCCCCCHHHHHHHHhcC
Confidence            3456889999999999999887654

>1g16_A RAS-related protein SEC4; G protein RAB, signaling protein, endocytosis/exocytosis complex; HET: GDP; 1.80A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1g17_A* 2ocy_C 2eqb_A

Probab=92.88  E-value=0.056  Score=43.55  Aligned_cols=23  Identities=30%  Similarity=0.377  Sum_probs=20.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      --|.|+|.+|+|||||...+...
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            45889999999999999998764

>1wms_A RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, protein transport; HET: GDP; 1.25A {Homo sapiens} SCOP: c.37.1.8 PDB: 1s8f_A* 1yzl_A* 2ocb_A*

Probab=92.85  E-value=0.056  Score=43.97  Aligned_cols=25  Identities=24%  Similarity=0.485  Sum_probs=21.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ..--|.|+|.+|+|||||...+...
T Consensus         6 ~~~~i~v~G~~~~GKSsli~~l~~~   30 (177)
T 1wms_A            6 SLFKVILLGDGGVGKSSLMNRYVTN   30 (177)
T ss_dssp             EEEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             ceeEEEEECCCCCCHHHHHHHHHcC
Confidence            3456899999999999999998754

>1ky3_A GTP-binding protein YPT7P; vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase, endocytosis/exocytosis complex; HET: GDP; 1.35A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ky2_A*

Probab=92.85  E-value=0.067  Score=43.60  Aligned_cols=25  Identities=28%  Similarity=0.457  Sum_probs=21.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ...-|.|+|.+|+|||||...+...
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            4567899999999999999988765

>4a1f_A DNAB helicase, replicative DNA helicase; hydrolase, DNA replication, ATPase; HET: FLC; 2.50A {Helicobacter pylori}

Probab=92.83  E-value=0.15  Score=46.85  Aligned_cols=53  Identities=17%  Similarity=0.060  Sum_probs=37.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecCCCCHHHHHHHHHHHhhc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDFDIIRVTKSILKSIAS  217 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~il~~l~~  217 (385)
                      .++.|.|.+|+||||||..+..+...  .=..++|++.-  .+...+...++.....
T Consensus        47 ~LiiIaG~pG~GKTt~al~ia~~~a~--~g~~Vl~fSlE--ms~~ql~~Rlls~~~~   99 (338)
T 4a1f_A           47 SLVIIGARPSMGKTSLMMNMVLSALN--DDRGVAVFSLE--MSAEQLALRALSDLTS   99 (338)
T ss_dssp             CEEEEEECTTSCHHHHHHHHHHHHHH--TTCEEEEEESS--SCHHHHHHHHHHHHHC
T ss_pred             cEEEEEeCCCCCHHHHHHHHHHHHHH--cCCeEEEEeCC--CCHHHHHHHHHHHhhC
Confidence            68899999999999999988765322  11346677653  4567777777766543

>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=92.82  E-value=0.097  Score=53.78  Aligned_cols=140  Identities=16%  Similarity=0.165  Sum_probs=72.2

Q ss_pred             hhhHHHHHHHHhcCCCCCCCCceEEEEEcCCCCcHHHHHHHHhcccc---cccc-ccceEEE-Eec-------CCCCHHH
Q 038448          139 DKEKEETVKLLLRDDLRTDDGLSVIPIIGTGRIGKTTLAQLAYSDVR---VHNH-FDLKAWT-CVS-------EDFDIIR  206 (385)
Q Consensus       139 ~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~---~~~~-F~~~~wv-~vs-------~~~~~~~  206 (385)
                      +.+.+.+++.|...      ...-+.|+|.+|+|||++|+.+.+...   +... +.+.+|. ..+       ..-....
T Consensus       192 ~~~i~~l~~~l~~~------~~~~vlL~G~~GtGKT~la~~la~~l~~~~v~~~~~~~~~~~~~~~~l~~~~~~~g~~e~  265 (758)
T 1r6b_X          192 EKELERAIQVLCRR------RKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSLLAGTKYRGDFEK  265 (758)
T ss_dssp             HHHHHHHHHHHTSS------SSCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCCC---CCCCCSSCHHH
T ss_pred             HHHHHHHHHHHhcc------CCCCeEEEcCCCCCHHHHHHHHHHHHHhCCCChhhcCCEEEEEcHHHHhccccccchHHH
Confidence            67778888887543      234568999999999999998876421   1111 2333332 111       1123556


Q ss_pred             HHHHHHHHhhcCCCC--CccchHHhh-------chhh-HhhHhhhccCCCCCcEEEEEcCChhHHhhcCC-------CCc
Q 038448          207 VTKSILKSIASDQLV--DDHDLNLLQ-------KYND-WTNRSRLFEAGAPGSKIVFTTRNLGVAEKMGP-------LPA  269 (385)
Q Consensus       207 ~~~~il~~l~~~~~~--~~~~~~~l~-------~~~~-w~~l~~~l~~~~~gs~IivTTR~~~va~~~~~-------~~~  269 (385)
                      .++.++..+......  ..++++.+-       ...+ ...+...+.  ..+..+|.+|........+..       ...
T Consensus       266 ~l~~~~~~~~~~~~~iL~IDEi~~l~~~~~~~~~~~~~~~~L~~~l~--~~~~~~I~at~~~~~~~~~~~d~aL~~Rf~~  343 (758)
T 1r6b_X          266 RFKALLKQLEQDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLS--SGKIRVIGSTTYQEFSNIFEKDRALARRFQK  343 (758)
T ss_dssp             HHHHHHHHHSSSSCEEEEETTTTTTTTSCCSSSCHHHHHHHHSSCSS--SCCCEEEEEECHHHHHCCCCCTTSSGGGEEE
T ss_pred             HHHHHHHHHHhcCCeEEEEechHHHhhcCCCCcchHHHHHHHHHHHh--CCCeEEEEEeCchHHhhhhhcCHHHHhCceE
Confidence            667777766543210  112222221       0111 122332222  234466666654443221111       124


Q ss_pred             ccCCCCChhhHHhhhhc
Q 038448          270 YPLKELSNDDCLSVFSP  286 (385)
Q Consensus       270 ~~l~~L~~~~a~~Lf~~  286 (385)
                      +.+..++.++...++..
T Consensus       344 i~v~~p~~~e~~~il~~  360 (758)
T 1r6b_X          344 IDITEPSIEETVQIING  360 (758)
T ss_dssp             EECCCCCHHHHHHHHHH
T ss_pred             EEcCCCCHHHHHHHHHH
Confidence            77888888887777654

>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=92.82  E-value=0.057  Score=44.79  Aligned_cols=25  Identities=20%  Similarity=0.211  Sum_probs=21.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ..--|.|+|.+|+|||||...+.+.
T Consensus        20 ~~~ki~vvG~~~vGKTsLi~~l~~~   44 (187)
T 3c5c_A           20 LEVNLAILGRRGAGKSALTVKFLTK   44 (187)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             ceEEEEEECCCCCcHHHHHHHHHhC
Confidence            3456889999999999999888765

>3kta_A Chromosome segregation protein SMC; structural maintenance of chromosomes, ABC ATPase, CFTR adenylate kinase, AP5A, transferase; HET: AP5; 1.63A {Pyrococcus furiosus} PDB: 1xex_A* 1xew_X*

Probab=92.80  E-value=0.063  Score=44.27  Aligned_cols=22  Identities=18%  Similarity=0.354  Sum_probs=19.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      .+.+|+|..|.|||||+..++-
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            4889999999999999998864

>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=92.78  E-value=0.059  Score=43.33  Aligned_cols=23  Identities=17%  Similarity=0.312  Sum_probs=20.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      --|.++|.+|+|||||...+...
T Consensus         7 ~~i~v~G~~~~GKssli~~l~~~   29 (170)
T 1r2q_A            7 FKLVLLGESAVGKSSLVLRFVKG   29 (170)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHcC
Confidence            45889999999999999998754

>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=92.77  E-value=0.058  Score=43.28  Aligned_cols=21  Identities=29%  Similarity=0.297  Sum_probs=18.8

Q ss_pred             EEEEcCCCCcHHHHHHHHhcc
Q 038448          163 IPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       163 i~I~G~gGiGKTtLA~~v~~~  183 (385)
                      |.++|.+|+|||||...+...
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            789999999999999998654

>4bas_A ADP-ribosylation factor, putative (small GTPase, putative); hydrolase; HET: GNP; 2.00A {Trypanosoma brucei TREU927}

Probab=92.74  E-value=0.068  Score=44.45  Aligned_cols=28  Identities=18%  Similarity=0.160  Sum_probs=22.8

Q ss_pred             CCCceEEEEEcCCCCcHHHHHHHHhccc
Q 038448          157 DDGLSVIPIIGTGRIGKTTLAQLAYSDV  184 (385)
Q Consensus       157 ~~~~~vi~I~G~gGiGKTtLA~~v~~~~  184 (385)
                      ......|.|+|.+|+|||||...+....
T Consensus        14 ~~~~~ki~v~G~~~~GKSsl~~~l~~~~   41 (199)
T 4bas_A           14 SKTKLQVVMCGLDNSGKTTIINQVKPAQ   41 (199)
T ss_dssp             --CEEEEEEECCTTSCHHHHHHHHSCCC
T ss_pred             CCCCcEEEEECCCCCCHHHHHHHHhcCC
Confidence            3456789999999999999999997753

>2zts_A Putative uncharacterized protein PH0186; KAIC like protein, ATP-binding, nucleotide-binding, ATP- binding protein; HET: ADP; 2.07A {Pyrococcus horikoshii}

Probab=92.71  E-value=0.071  Score=46.24  Aligned_cols=48  Identities=15%  Similarity=0.157  Sum_probs=31.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecCCCCHHHHHHHH
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDFDIIRVTKSI  211 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i  211 (385)
                      .++.|.|.+|+|||+||.++..+. ....-..+++++...  +...+...+
T Consensus        31 ~l~~i~G~pG~GKT~l~l~~~~~~-~~~~~~~v~~~s~E~--~~~~~~~~~   78 (251)
T 2zts_A           31 TTVLLTGGTGTGKTTFAAQFIYKG-AEEYGEPGVFVTLEE--RARDLRREM   78 (251)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHH-HHHHCCCEEEEESSS--CHHHHHHHH
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHHH-HHhcCCCceeecccC--CHHHHHHHH
Confidence            688999999999999998865431 122233566666544  344554443

>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=92.69  E-value=0.058  Score=44.70  Aligned_cols=24  Identities=38%  Similarity=0.331  Sum_probs=19.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .--|.|+|.+|+|||||.+.+.+.
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            456889999999999999777643

>1p5z_B DCK, deoxycytidine kinase; nucleoside kinase, P-loop, ARAC, cytarabine, transferase; HET: AR3 ADP; 1.60A {Homo sapiens} SCOP: c.37.1.1 PDB: 1p60_A* 1p61_B* 1p62_B* 2a7q_A* 2qrn_A* 2qro_A* 3exk_A* 3hp1_A* 2no7_A* 2no1_A* 2no6_A* 2no0_A* 2no9_A* 2noa_A* 2zi5_A* 2zi4_A* 2zi6_A* 2zi7_B* 2zia_A* 3kfx_A* ...

Probab=92.69  E-value=0.043  Score=48.48  Aligned_cols=25  Identities=24%  Similarity=0.260  Sum_probs=22.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ....|.|.|..|+||||+++.+...
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            4579999999999999999988764

>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=92.69  E-value=0.068  Score=48.52  Aligned_cols=28  Identities=21%  Similarity=0.354  Sum_probs=24.0

Q ss_pred             CCCCceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          156 TDDGLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       156 ~~~~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ..+....|+|+|.+|+|||||...+...
T Consensus         6 ~~~~~g~v~ivG~~nvGKSTLin~l~g~   33 (308)
T 3iev_A            6 HHMKVGYVAIVGKPNVGKSTLLNNLLGT   33 (308)
T ss_dssp             -CCEEEEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CCCCCCEEEEECCCCCcHHHHHHHHhCC
Confidence            3456789999999999999999998765

>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=92.68  E-value=0.05  Score=45.64  Aligned_cols=23  Identities=30%  Similarity=0.463  Sum_probs=20.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ..|+++|.+|+|||||...+...
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            45789999999999999998764

>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=92.65  E-value=0.061  Score=44.73  Aligned_cols=23  Identities=30%  Similarity=0.462  Sum_probs=20.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ..|.++|.+|+|||||...+.++
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            46789999999999999998864

>4dsu_A GTPase KRAS, isoform 2B; small G-protein, signaling, hydrolase; HET: GDP; 1.70A {Homo sapiens} PDB: 4dsn_A* 4dst_A* 4dso_A*

Probab=92.64  E-value=0.062  Score=44.20  Aligned_cols=24  Identities=17%  Similarity=0.342  Sum_probs=20.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhccc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSDV  184 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~~  184 (385)
                      --|.|+|.+|+|||||...+.+..
T Consensus         5 ~ki~v~G~~~~GKSsli~~l~~~~   28 (189)
T 4dsu_A            5 YKLVVVGADGVGKSALTIQLIQNH   28 (189)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHSS
T ss_pred             EEEEEECCCCCCHHHHHHHHHhCC
Confidence            457899999999999999998653

>2aka_B Dynamin-1; fusion protein, GTPase domain, myosin, contractIle protein; 1.90A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 3l43_A*

Probab=92.64  E-value=0.16  Score=45.47  Aligned_cols=27  Identities=19%  Similarity=0.235  Sum_probs=23.2

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHhccc
Q 038448          158 DGLSVIPIIGTGRIGKTTLAQLAYSDV  184 (385)
Q Consensus       158 ~~~~vi~I~G~gGiGKTtLA~~v~~~~  184 (385)
                      .....|+|+|.+|+|||||...+....
T Consensus        24 ~~~~~i~vvG~~~~GKSSLln~l~g~~   50 (299)
T 2aka_B           24 LDLPQIAVVGGQSAGKSSVLENFVGRD   50 (299)
T ss_dssp             CCCCEEEEEEBTTSCHHHHHHHHHTSC
T ss_pred             CCCCeEEEEeCCCCCHHHHHHHHHCCC
Confidence            356789999999999999999998753

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A*

Probab=92.64  E-value=0.099  Score=42.49  Aligned_cols=25  Identities=28%  Similarity=0.372  Sum_probs=21.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ..--|.|+|.+|+|||||...+.+.
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            3456889999999999999998764

>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=92.63  E-value=0.063  Score=43.64  Aligned_cols=26  Identities=23%  Similarity=0.158  Sum_probs=22.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhccc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSDV  184 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~~  184 (385)
                      ...-|.|+|.+|+|||||...+....
T Consensus        14 ~~~~i~v~G~~~~GKSsli~~l~~~~   39 (179)
T 1z0f_A           14 YIFKYIIIGDMGVGKSCLLHQFTEKK   39 (179)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             cceEEEEECCCCCCHHHHHHHHHcCC
Confidence            45678999999999999999987653

>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=92.59  E-value=0.085  Score=45.29  Aligned_cols=26  Identities=15%  Similarity=0.291  Sum_probs=22.6

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          158 DGLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       158 ~~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .....|.|+|.+|+|||||...+...
T Consensus        27 ~~~~kI~vvG~~~vGKSsLin~l~~~   52 (228)
T 2qu8_A           27 PHKKTIILSGAPNVGKSSFMNIVSRA   52 (228)
T ss_dssp             TTSEEEEEECSTTSSHHHHHHHHTTT
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            45577899999999999999999765

>1ojl_A Transcriptional regulatory protein ZRAR; response regulator, two component system, AAA domain, NTRC family, DNA-binding; HET: ATP; 3.0A {Salmonella typhimurium}

Probab=92.59  E-value=0.085  Score=47.77  Aligned_cols=23  Identities=22%  Similarity=0.241  Sum_probs=20.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ..|.|+|.+|+|||++|+.+.+.
T Consensus        26 ~~vLi~Ge~GtGKt~lAr~i~~~   48 (304)
T 1ojl_A           26 ATVLIHGDSGTGKELVARALHAC   48 (304)
T ss_dssp             SCEEEESCTTSCHHHHHHHHHHH
T ss_pred             CcEEEECCCCchHHHHHHHHHHh
Confidence            45779999999999999999874

>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=92.58  E-value=0.15  Score=44.30  Aligned_cols=24  Identities=29%  Similarity=0.289  Sum_probs=21.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      -.+|.|.|+.|+||||+++.+...
T Consensus        27 ~~~i~~eG~~GsGKsT~~~~l~~~   50 (236)
T 3lv8_A           27 AKFIVIEGLEGAGKSTAIQVVVET   50 (236)
T ss_dssp             CCEEEEEESTTSCHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHH
Confidence            368999999999999999999875

>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=92.57  E-value=0.064  Score=50.35  Aligned_cols=22  Identities=36%  Similarity=0.436  Sum_probs=20.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      .+|.|.|+.|+||||||..+..
T Consensus         3 ~~i~i~GptgsGKttla~~La~   24 (409)
T 3eph_A            3 KVIVIAGTTGVGKSQLSIQLAQ   24 (409)
T ss_dssp             EEEEEEECSSSSHHHHHHHHHH
T ss_pred             cEEEEECcchhhHHHHHHHHHH
Confidence            5899999999999999988865

>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=92.56  E-value=0.064  Score=44.06  Aligned_cols=25  Identities=24%  Similarity=0.228  Sum_probs=21.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ..--|.|+|.+|+|||||...+.+.
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            3456889999999999999998765

>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=92.56  E-value=0.065  Score=43.93  Aligned_cols=23  Identities=26%  Similarity=0.374  Sum_probs=20.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      --|.++|.+|+|||||...+.++
T Consensus         6 ~~i~~~G~~~~GKssl~~~l~~~   28 (186)
T 1mh1_A            6 IKCVVVGDGAVGKTCLLISYTTN   28 (186)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHcC
Confidence            45789999999999999988754

>1cp2_A CP2, nitrogenase iron protein; oxidoreductase; 1.93A {Clostridium pasteurianum} SCOP: c.37.1.10

Probab=92.54  E-value=0.071  Score=47.08  Aligned_cols=23  Identities=39%  Similarity=0.484  Sum_probs=19.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ++|+|.|-||+||||+|..+..-
T Consensus         2 ~vI~vs~KGGvGKTT~a~nLA~~   24 (269)
T 1cp2_A            2 RQVAIYGKGGIGKSTTTQNLTSG   24 (269)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHH
T ss_pred             cEEEEecCCCCcHHHHHHHHHHH
Confidence            57888899999999999877653

>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=92.52  E-value=0.051  Score=44.37  Aligned_cols=23  Identities=22%  Similarity=0.397  Sum_probs=20.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      --|.++|.+|+|||||...+.+.
T Consensus         8 ~ki~~vG~~~vGKTsli~~l~~~   30 (178)
T 2iwr_A            8 LRLGVLGDARSGKSSLIHRFLTG   30 (178)
T ss_dssp             EEEEEECCGGGCHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHhC
Confidence            45789999999999999998764

>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=92.52  E-value=0.06  Score=53.04  Aligned_cols=25  Identities=24%  Similarity=0.323  Sum_probs=22.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ...++.++|++|+||||||+.+...
T Consensus       107 ~g~~vll~Gp~GtGKTtlar~ia~~  131 (543)
T 3m6a_A          107 KGPILCLAGPPGVGKTSLAKSIAKS  131 (543)
T ss_dssp             CSCEEEEESSSSSSHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHh
Confidence            3468999999999999999999874

>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=92.52  E-value=0.065  Score=49.62  Aligned_cols=22  Identities=27%  Similarity=0.418  Sum_probs=20.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      .+++|+|+.|.|||||.+.+..
T Consensus        32 e~~~llGpnGsGKSTLLr~iaG   53 (353)
T 1oxx_K           32 ERFGILGPSGAGKTTFMRIIAG   53 (353)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHT
T ss_pred             CEEEEECCCCCcHHHHHHHHhC
Confidence            5899999999999999999875

>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=92.51  E-value=0.066  Score=43.50  Aligned_cols=23  Identities=26%  Similarity=0.346  Sum_probs=20.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      --|.|+|.+|+|||||...+..+
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            45889999999999999998754

>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=92.49  E-value=0.075  Score=44.77  Aligned_cols=25  Identities=32%  Similarity=0.325  Sum_probs=21.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ...-|.|+|.+|+|||||...+...
T Consensus        25 ~~~ki~lvG~~~vGKSsLi~~l~~~   49 (201)
T 2ew1_A           25 FLFKIVLIGNAGVGKTCLVRRFTQG   49 (201)
T ss_dssp             EEEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             cceEEEEECcCCCCHHHHHHHHHhC
Confidence            3456889999999999999988754

>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=92.49  E-value=0.067  Score=44.14  Aligned_cols=25  Identities=20%  Similarity=0.187  Sum_probs=21.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ..--|.|+|.+|+|||||...+.+.
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            3456889999999999999998764

>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=92.47  E-value=0.078  Score=47.47  Aligned_cols=24  Identities=33%  Similarity=0.434  Sum_probs=20.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .++|+|.|-||+||||+|..+..-
T Consensus         2 MkvIavs~KGGvGKTT~a~nLA~~   25 (289)
T 2afh_E            2 MRQCAIYGKGGIGKSTTTQNLVAA   25 (289)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHH
T ss_pred             ceEEEEeCCCcCcHHHHHHHHHHH
Confidence            368888999999999999877653

>3ld9_A DTMP kinase, thymidylate kinase; ssgcid, NIH, niaid, SBRI, UW, emerald biostructures, ehrlich chaffeensis; 2.15A {Ehrlichia chaffeensis}

Probab=92.46  E-value=0.18  Score=43.41  Aligned_cols=26  Identities=31%  Similarity=0.280  Sum_probs=22.7

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          158 DGLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       158 ~~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .....|.|.|+.|+||||+++.+...
T Consensus        19 ~~~~~i~~~G~~g~GKst~~~~l~~~   44 (223)
T 3ld9_A           19 PGSMFITFEGIDGSGKTTQSHLLAEY   44 (223)
T ss_dssp             CCCEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            34578999999999999999999875

>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=92.46  E-value=0.067  Score=44.37  Aligned_cols=25  Identities=24%  Similarity=0.276  Sum_probs=21.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ..--|.|+|.+|+|||||...+...
T Consensus        24 ~~~ki~v~G~~~~GKSsLi~~l~~~   48 (193)
T 2oil_A           24 FVFKVVLIGESGVGKTNLLSRFTRN   48 (193)
T ss_dssp             EEEEEEEESSTTSSHHHHHHHHHHS
T ss_pred             cceEEEEECcCCCCHHHHHHHHhcC
Confidence            3456899999999999999998764

>2orw_A Thymidine kinase; TMTK, TP4A, transferase; HET: 4TA; 1.50A {Thermotoga maritima} PDB: 2qpo_A 2qq0_A* 2qqe_A*

Probab=92.46  E-value=0.071  Score=44.40  Aligned_cols=22  Identities=27%  Similarity=0.099  Sum_probs=18.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      .++.|+|+.|+||||++..+..
T Consensus         4 ~i~vi~G~~gsGKTT~ll~~~~   25 (184)
T 2orw_A            4 KLTVITGPMYSGKTTELLSFVE   25 (184)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            4788999999999999966554

>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=92.45  E-value=0.068  Score=43.73  Aligned_cols=25  Identities=24%  Similarity=0.313  Sum_probs=21.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ....|.|+|.+|+|||||...+.+.
T Consensus         5 ~~~ki~~~G~~~~GKSsli~~l~~~   29 (181)
T 3t5g_A            5 KSRKIAILGYRSVGKSSLTIQFVEG   29 (181)
T ss_dssp             EEEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             ceEEEEEECcCCCCHHHHHHHHHcC
Confidence            3467889999999999999998854

>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=92.44  E-value=0.038  Score=46.65  Aligned_cols=25  Identities=12%  Similarity=0.125  Sum_probs=21.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .-..|+|+|.+|+|||||...+...
T Consensus        25 ~~~~v~lvG~~g~GKSTLl~~l~g~   49 (210)
T 1pui_A           25 TGIEVAFAGRSNAGKSSALNTLTNQ   49 (210)
T ss_dssp             CSEEEEEEECTTSSHHHHHTTTCCC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCC
Confidence            3467999999999999999888764

>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=92.43  E-value=0.098  Score=42.83  Aligned_cols=25  Identities=20%  Similarity=0.434  Sum_probs=21.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ..--|.|+|.+|+|||||...+.+.
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            4456889999999999999998865

>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=92.43  E-value=0.069  Score=43.76  Aligned_cols=24  Identities=29%  Similarity=0.537  Sum_probs=20.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ..-|.|+|.+|+|||||...+...
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            456889999999999999998765

>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=92.41  E-value=0.07  Score=43.61  Aligned_cols=24  Identities=29%  Similarity=0.344  Sum_probs=20.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .--|.|+|.+|+|||||...+...
T Consensus         8 ~~ki~v~G~~~~GKssl~~~~~~~   31 (182)
T 3bwd_D            8 FIKCVTVGDGAVGKTCLLISYTSN   31 (182)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECCCCCCHHHHHHHHhcC
Confidence            345789999999999999998764

>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=92.40  E-value=0.06  Score=51.98  Aligned_cols=23  Identities=30%  Similarity=0.387  Sum_probs=20.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      +-|.|+|++|+|||+||+.+.+.
T Consensus        50 ~gvLL~GppGtGKT~Laraia~~   72 (476)
T 2ce7_A           50 KGILLVGPPGTGKTLLARAVAGE   72 (476)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH
Confidence            34789999999999999999874

>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=92.40  E-value=0.075  Score=44.37  Aligned_cols=25  Identities=20%  Similarity=0.469  Sum_probs=20.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ..--|.++|.+|+|||||...+.+.
T Consensus        19 ~~~ki~~vG~~~vGKTsLi~~l~~~   43 (196)
T 3llu_A           19 SKPRILLMGLRRSGKSSIQKVVFHK   43 (196)
T ss_dssp             -CCEEEEEESTTSSHHHHHHHHHSC
T ss_pred             cceEEEEECCCCCCHHHHHHHHHhc
Confidence            3456889999999999999877664

>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=92.37  E-value=0.071  Score=43.53  Aligned_cols=24  Identities=21%  Similarity=0.266  Sum_probs=20.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ..-|.|+|.+|+|||||...+...
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            356889999999999999998765

>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=92.37  E-value=0.092  Score=42.32  Aligned_cols=24  Identities=29%  Similarity=0.205  Sum_probs=20.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ...|.++|.+|+|||||...+...
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            356889999999999999999764

>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=92.35  E-value=0.071  Score=49.63  Aligned_cols=23  Identities=22%  Similarity=0.342  Sum_probs=20.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhc
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      -..++|+|..|.|||||++.+..
T Consensus       170 g~k~~IvG~nGsGKSTLlk~L~g  192 (365)
T 1lw7_A          170 AKTVAILGGESSGKSVLVNKLAA  192 (365)
T ss_dssp             CEEEEEECCTTSHHHHHHHHHHH
T ss_pred             hCeEEEECCCCCCHHHHHHHHHH
Confidence            46899999999999999998875

>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=92.32  E-value=0.071  Score=44.42  Aligned_cols=24  Identities=21%  Similarity=0.329  Sum_probs=20.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .--|.|+|.+|+|||||...+...
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            356889999999999999998765

>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=92.30  E-value=0.17  Score=46.56  Aligned_cols=25  Identities=20%  Similarity=0.161  Sum_probs=21.7

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHhc
Q 038448          158 DGLSVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       158 ~~~~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      ....+|+|+|.+|+|||||+..+..
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            3568999999999999999988864

>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=92.29  E-value=0.075  Score=44.35  Aligned_cols=23  Identities=30%  Similarity=0.456  Sum_probs=19.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhc
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      .--|.|+|.+|+|||||...+..
T Consensus         6 ~~kv~lvG~~~vGKSsL~~~~~~   28 (192)
T 2cjw_A            6 YYRVVLIGEQGVGKSTLANIFAG   28 (192)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEEEECCCCCCHHHHHHHHhc
Confidence            35688999999999999998863

>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=92.29  E-value=0.079  Score=44.35  Aligned_cols=25  Identities=32%  Similarity=0.375  Sum_probs=21.4

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhccc
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSDV  184 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~~  184 (385)
                      .--|.|+|.+|+|||||...+.+..
T Consensus         8 ~~ki~v~G~~~~GKSsli~~l~~~~   32 (203)
T 1zbd_A            8 MFKILIIGNSSVGKTSFLFRYADDS   32 (203)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHTCC
T ss_pred             eeEEEEECCCCCCHHHHHHHHhcCC
Confidence            4568999999999999999987653

>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET: ADP; 3.90A {Thermus thermophilus}

Probab=92.26  E-value=0.064  Score=52.11  Aligned_cols=21  Identities=29%  Similarity=0.534  Sum_probs=19.8

Q ss_pred             EEEEcCCCCcHHHHHHHHhcc
Q 038448          163 IPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       163 i~I~G~gGiGKTtLA~~v~~~  183 (385)
                      +.|+|++|+||||||+.+.+.
T Consensus        67 vLL~GppGtGKTtLaraIa~~   87 (499)
T 2dhr_A           67 VLLVGPPGVGKTHLARAVAGE   87 (499)
T ss_dssp             EEEECSSSSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            899999999999999999875

>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=92.26  E-value=0.08  Score=51.81  Aligned_cols=24  Identities=25%  Similarity=0.306  Sum_probs=21.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      ...+|.++|++|.||||+|+.+..
T Consensus        34 ~~~lIvlvGlpGSGKSTia~~La~   57 (520)
T 2axn_A           34 SPTVIVMVGLPARGKTYISKKLTR   57 (520)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            457899999999999999998864

>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=92.25  E-value=0.075  Score=43.31  Aligned_cols=25  Identities=20%  Similarity=0.186  Sum_probs=21.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ..--|.++|.+|+|||||...+...
T Consensus         9 ~~~~i~v~G~~~~GKssli~~l~~~   33 (180)
T 2g6b_A            9 VAFKVMLVGDSGVGKTCLLVRFKDG   33 (180)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             cceEEEEECcCCCCHHHHHHHHHhC
Confidence            3456899999999999999998764

>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=92.23  E-value=0.074  Score=44.60  Aligned_cols=25  Identities=28%  Similarity=0.369  Sum_probs=21.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ...-|.|+|.+|+|||||...+...
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            4567899999999999999998765

>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=92.22  E-value=0.1  Score=43.68  Aligned_cols=25  Identities=28%  Similarity=0.522  Sum_probs=21.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ...-|.|+|.+|+|||||...+...
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            4467899999999999999998754

>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=92.21  E-value=0.074  Score=44.93  Aligned_cols=25  Identities=28%  Similarity=0.372  Sum_probs=21.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ..--|.|+|.+|+|||||...+...
T Consensus        27 ~~~ki~vvG~~~vGKSsLi~~l~~~   51 (205)
T 1gwn_A           27 VKCKIVVVGDSQCGKTALLHVFAKD   51 (205)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eeeEEEEECCCCCCHHHHHHHHhcC
Confidence            3456889999999999999998765

>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=92.20  E-value=0.066  Score=48.33  Aligned_cols=24  Identities=33%  Similarity=0.192  Sum_probs=21.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ..+++++|.+|+||||++..+...
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            679999999999999999888753

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=92.19  E-value=0.093  Score=43.48  Aligned_cols=26  Identities=27%  Similarity=0.289  Sum_probs=22.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhccc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSDV  184 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~~  184 (385)
                      ..--|.|+|.+|+|||||...+..+.
T Consensus        15 ~~~ki~v~G~~~~GKSsli~~l~~~~   40 (196)
T 3tkl_A           15 YLFKLLLIGDSGVGKSCLLLRFADDT   40 (196)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             cceEEEEECcCCCCHHHHHHHHHcCC
Confidence            34568999999999999999988653

>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=92.17  E-value=0.079  Score=43.59  Aligned_cols=26  Identities=19%  Similarity=0.196  Sum_probs=22.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhccc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSDV  184 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~~  184 (385)
                      ...-|.++|.+|+|||||...+.+..
T Consensus        17 ~~~~i~v~G~~~~GKssl~~~l~~~~   42 (186)
T 1ksh_A           17 RELRLLMLGLDNAGKTTILKKFNGED   42 (186)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHTTCC
T ss_pred             CeeEEEEECCCCCCHHHHHHHHhcCC
Confidence            44678999999999999999998754

>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=92.17  E-value=0.076  Score=44.14  Aligned_cols=24  Identities=17%  Similarity=0.268  Sum_probs=20.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .--|.|+|.+|+|||||...+...
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            456899999999999999998765

>2h92_A Cytidylate kinase; rossmann fold, transferase; HET: C5P PG4; 2.30A {Staphylococcus aureus}

Probab=92.13  E-value=0.068  Score=45.55  Aligned_cols=22  Identities=32%  Similarity=0.357  Sum_probs=20.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      .+|+|.|+.|+||||+++.+..
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            4799999999999999998865

>3gmt_A Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucleotide biosynthesis, nucleotide-BIND transferase, structural genomics; 2.10A {Burkholderia pseudomallei 1710B}

Probab=92.12  E-value=0.075  Score=45.94  Aligned_cols=25  Identities=20%  Similarity=0.207  Sum_probs=20.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ....++|.|++|+||||+|+.+...
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            3456899999999999999998764

>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=92.12  E-value=0.091  Score=47.50  Aligned_cols=25  Identities=28%  Similarity=0.400  Sum_probs=21.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ....|+|+|.+|+|||||...+...
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            3468999999999999999998765

>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=92.11  E-value=0.077  Score=44.40  Aligned_cols=24  Identities=29%  Similarity=0.452  Sum_probs=20.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      ..-.|.|+|.+|+|||||...+..
T Consensus        22 ~~~ki~vvG~~~vGKSsLi~~l~~   45 (195)
T 3cbq_A           22 GIFKVMLVGESGVGKSTLAGTFGG   45 (195)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHTCC
T ss_pred             cEEEEEEECCCCCCHHHHHHHHHh
Confidence            456789999999999999999853

>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=92.11  E-value=0.044  Score=50.36  Aligned_cols=21  Identities=19%  Similarity=0.249  Sum_probs=19.4

Q ss_pred             EEEEcCCCCcHHHHHHHHhcc
Q 038448          163 IPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       163 i~I~G~gGiGKTtLA~~v~~~  183 (385)
                      +.|+|.+|+|||+||+.+.+.
T Consensus        48 vLl~G~~GtGKT~la~~la~~   68 (350)
T 1g8p_A           48 VLVFGDRGTGKSTAVRALAAL   68 (350)
T ss_dssp             EEEECCGGGCTTHHHHHHHHH
T ss_pred             EEEECCCCccHHHHHHHHHHh
Confidence            889999999999999999874

>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=92.10  E-value=0.085  Score=44.60  Aligned_cols=25  Identities=20%  Similarity=0.191  Sum_probs=20.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ....|.|+|.+|+|||||...+...
T Consensus         6 ~~~ki~vvG~~~~GKTsli~~l~~~   30 (214)
T 2fh5_B            6 SQRAVLFVGLCDSGKTLLFVRLLTG   30 (214)
T ss_dssp             --CEEEEECSTTSSHHHHHHHHHHS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            3457889999999999999998765

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens}

Probab=92.08  E-value=0.079  Score=44.39  Aligned_cols=26  Identities=27%  Similarity=0.317  Sum_probs=22.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhccc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSDV  184 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~~  184 (385)
                      ...-|.|+|.+|+|||||...+.+..
T Consensus        23 ~~~ki~vvG~~~~GKSsli~~l~~~~   48 (201)
T 3oes_A           23 RYRKVVILGYRCVGKTSLAHQFVEGE   48 (201)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHHSC
T ss_pred             CcEEEEEECCCCcCHHHHHHHHHhCC
Confidence            34668999999999999999988653

>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=92.07  E-value=0.1  Score=45.26  Aligned_cols=27  Identities=15%  Similarity=0.201  Sum_probs=22.6

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHhccc
Q 038448          158 DGLSVIPIIGTGRIGKTTLAQLAYSDV  184 (385)
Q Consensus       158 ~~~~vi~I~G~gGiGKTtLA~~v~~~~  184 (385)
                      .....|+|+|.+|+|||||...+....
T Consensus        27 ~~~~~i~lvG~~g~GKStlin~l~g~~   53 (239)
T 3lxx_A           27 NSQLRIVLVGKTGAGKSATGNSILGRK   53 (239)
T ss_dssp             -CEEEEEEECCTTSSHHHHHHHHHTSC
T ss_pred             CCceEEEEECCCCCCHHHHHHHHcCCC
Confidence            345678999999999999999998753

>2r8r_A Sensor protein; KDPD, PFAM02702, MCSG, structural genomics, protein structure initiative, midwest center for structural genomics, kinase; 2.30A {Pseudomonas syringae PV}

Probab=92.06  E-value=0.11  Score=44.74  Aligned_cols=23  Identities=17%  Similarity=0.008  Sum_probs=19.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      -.|.+.|.||+||||+|..+...
T Consensus         7 l~I~~~~kgGvGKTt~a~~la~~   29 (228)
T 2r8r_A            7 LKVFLGAAPGVGKTYAMLQAAHA   29 (228)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHH
T ss_pred             EEEEEECCCCCcHHHHHHHHHHH
Confidence            34778899999999998877664

>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=92.06  E-value=0.13  Score=46.57  Aligned_cols=21  Identities=14%  Similarity=0.273  Sum_probs=19.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHh
Q 038448          161 SVIPIIGTGRIGKTTLAQLAY  181 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~  181 (385)
                      .+++++|++|+|||||.+.+.
T Consensus       166 ~i~~l~G~sG~GKSTLln~l~  186 (302)
T 2yv5_A          166 FICILAGPSGVGKSSILSRLT  186 (302)
T ss_dssp             CEEEEECSTTSSHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHH
Confidence            588999999999999999998

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens}

Probab=92.06  E-value=0.084  Score=44.10  Aligned_cols=25  Identities=24%  Similarity=0.328  Sum_probs=20.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ..--|.|+|.+|+|||||...+.+.
T Consensus        19 ~~~ki~~~G~~~~GKssl~~~l~~~   43 (201)
T 2q3h_A           19 RGVKCVLVGDGAVGKTSLVVSYTTN   43 (201)
T ss_dssp             -CEEEEEECSTTSSHHHHHHHHHC-
T ss_pred             cceEEEEECCCCCCHHHHHHHHHhC
Confidence            3456889999999999999998765

>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=92.05  E-value=0.067  Score=48.38  Aligned_cols=20  Identities=25%  Similarity=0.546  Sum_probs=18.3

Q ss_pred             EEEEcCCCCcHHHHHHHHhc
Q 038448          163 IPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       163 i~I~G~gGiGKTtLA~~v~~  182 (385)
                      |+|+|.+|+|||||...++.
T Consensus        21 I~lvG~nG~GKSTLl~~L~g   40 (301)
T 2qnr_A           21 LMVVGESGLGKSTLINSLFL   40 (301)
T ss_dssp             EEEEEETTSSHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHhC
Confidence            49999999999999999875

>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=92.02  E-value=0.082  Score=43.91  Aligned_cols=26  Identities=27%  Similarity=0.308  Sum_probs=21.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhccc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSDV  184 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~~  184 (385)
                      ..--|.++|.+|+|||||...+.+..
T Consensus        22 ~~~ki~~vG~~~~GKSsl~~~l~~~~   47 (194)
T 3reg_A           22 KALKIVVVGDGAVGKTCLLLAFSKGE   47 (194)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             eeeEEEEECcCCCCHHHHHHHHhcCC
Confidence            34568899999999999999988753

>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=92.01  E-value=0.083  Score=43.72  Aligned_cols=24  Identities=25%  Similarity=0.308  Sum_probs=20.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .--|.|+|.+|+|||||...+.+.
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            356889999999999999999764

>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=91.99  E-value=0.084  Score=43.65  Aligned_cols=24  Identities=25%  Similarity=0.371  Sum_probs=21.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .--|.|+|.+|+|||||...+...
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            457899999999999999998765

>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=91.98  E-value=0.086  Score=44.18  Aligned_cols=25  Identities=24%  Similarity=0.264  Sum_probs=20.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ..--|.|+|.+|+|||||...+.+.
T Consensus        24 ~~~ki~v~G~~~~GKSsLi~~l~~~   48 (200)
T 2o52_A           24 FLFKFLVIGSAGTGKSCLLHQFIEN   48 (200)
T ss_dssp             EEEEEEEEESTTSSHHHHHHHHHC-
T ss_pred             cceEEEEECcCCCCHHHHHHHHHhC
Confidence            3456889999999999999998764

>2b6h_A ADP-ribosylation factor 5; membrane trafficking, GDP, structural genomics, structural G consortium, SGC, protein transport; HET: GDP; 1.76A {Homo sapiens} SCOP: c.37.1.8 PDB: 1z6x_A* 3aq4_A*

Probab=91.98  E-value=0.08  Score=44.09  Aligned_cols=24  Identities=25%  Similarity=0.191  Sum_probs=20.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .--|.|+|.+|+|||||...+...
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            356899999999999999999754

>3gee_A MNME, tRNA modification GTPase MNME; G protein, cytoplasm, GTP- binding, hydrolase, magnesium, metal-binding, nucleotide- binding, potassium; HET: GDP FON; 2.95A {Chlorobium tepidum} PDB: 3gei_A*

Probab=91.96  E-value=0.21  Score=48.21  Aligned_cols=54  Identities=20%  Similarity=0.295  Sum_probs=36.2

Q ss_pred             hHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHhcCCCCCCCCceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          119 DHMMAAKIEDRTIRLQEIEKDKEKEETVKLLLRDDLRTDDGLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       119 ~~~~~~~i~~~~~~l~~i~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      +..+..++..+...++.+.....+.+..+          .+++ |+|+|.+|+|||||...+...
T Consensus       203 ~~~l~~~i~~l~~~l~~~~~~~~~~~~~r----------~~~k-V~ivG~~nvGKSSLln~L~~~  256 (476)
T 3gee_A          203 RDELTMQIETLRSEVNRLIDSYQHGRIVS----------EGVS-TVIAGKPNAGKSTLLNTLLGQ  256 (476)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH----------HCEE-EEEECCTTSSHHHHHHHCC--
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhHhhc----------CCCE-EEEECCCCCCHHHHHHHHhCC
Confidence            34567777888877777655433333222          1333 899999999999999988765

>1g8f_A Sulfate adenylyltransferase; alpha-beta protein, beta-barrel, rossmann-fold, kinase fold; 1.95A {Saccharomyces cerevisiae} SCOP: b.122.1.3 c.26.1.5 c.37.1.15 PDB: 1g8g_A* 1g8h_A* 1j70_A 1jec_A 1jed_A* 1jee_A*

Probab=91.91  E-value=0.072  Score=51.81  Aligned_cols=25  Identities=12%  Similarity=-0.028  Sum_probs=22.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ...+|.+.|++|+||||+|+.+...
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            4478999999999999999999874

>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=91.91  E-value=0.086  Score=43.70  Aligned_cols=24  Identities=29%  Similarity=0.266  Sum_probs=20.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .--|.|+|.+|+|||||...+.+.
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            445889999999999999998764

>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=91.88  E-value=0.083  Score=43.80  Aligned_cols=24  Identities=29%  Similarity=0.387  Sum_probs=20.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .--|.|+|.+|+|||||...+.+.
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            345889999999999999998764

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens}

Probab=91.84  E-value=0.082  Score=43.95  Aligned_cols=25  Identities=32%  Similarity=0.396  Sum_probs=20.2

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhccc
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSDV  184 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~~  184 (385)
                      .--|.|+|.+|+|||||...+.++.
T Consensus        26 ~~ki~vvG~~~~GKSsLi~~l~~~~   50 (192)
T 2il1_A           26 KLQVIIIGSRGVGKTSLMERFTDDT   50 (192)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHCC--
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcCC
Confidence            3458899999999999999987653

>2gza_A Type IV secretion system protein VIRB11; ATPase, hydrolase; 2.60A {Brucella suis}

Probab=91.80  E-value=0.08  Score=49.23  Aligned_cols=23  Identities=35%  Similarity=0.439  Sum_probs=20.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .+++|+|..|.|||||++.+..-
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            58999999999999999999873

>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=91.80  E-value=0.09  Score=43.46  Aligned_cols=25  Identities=28%  Similarity=0.363  Sum_probs=21.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ...-|.|+|.+|+|||||...+...
T Consensus        19 ~~~ki~v~G~~~~GKSsli~~l~~~   43 (189)
T 1z06_A           19 RIFKIIVIGDSNVGKTCLTYRFCAG   43 (189)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             ceEEEEEECCCCCCHHHHHHHHHcC
Confidence            3457899999999999999998754

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum}

Probab=91.80  E-value=0.13  Score=42.71  Aligned_cols=24  Identities=17%  Similarity=0.292  Sum_probs=21.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .--|.|+|.+|+|||||...+...
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            455889999999999999999875

>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=91.79  E-value=0.091  Score=43.46  Aligned_cols=23  Identities=35%  Similarity=0.403  Sum_probs=20.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      --|.|+|.+|+|||||...+.+.
T Consensus        16 ~~i~v~G~~~~GKssli~~l~~~   38 (195)
T 1x3s_A           16 LKILIIGESGVGKSSLLLRFTDD   38 (195)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHcC
Confidence            46889999999999999998765

>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=91.79  E-value=0.091  Score=44.58  Aligned_cols=24  Identities=25%  Similarity=0.376  Sum_probs=20.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .--|.|+|.+|+|||||...+.+.
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            356889999999999999998764

>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=91.77  E-value=0.12  Score=42.93  Aligned_cols=25  Identities=20%  Similarity=0.317  Sum_probs=21.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ..--|.|+|.+|+|||||...+...
T Consensus         7 ~~~ki~vvG~~~~GKSsli~~l~~~   31 (199)
T 2gf0_A            7 NDYRVVVFGAGGVGKSSLVLRFVKG   31 (199)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHHS
T ss_pred             CeeEEEEECCCCCcHHHHHHHHHcC
Confidence            3456889999999999999998764

>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=91.76  E-value=0.13  Score=49.84  Aligned_cols=153  Identities=11%  Similarity=0.068  Sum_probs=74.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecC---C-CC-HHHHHHHHHHHhhcCCC--CCccchHHhhc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSE---D-FD-IIRVTKSILKSIASDQL--VDDHDLNLLQK  231 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~---~-~~-~~~~~~~il~~l~~~~~--~~~~~~~~l~~  231 (385)
                      ...-|.|+|.+|+|||+||+.+.+.  ....|   +.++.+.   . +. ....+..++........  -..++++.+..
T Consensus       237 ~~~~vLL~GppGtGKT~lAraia~~--~~~~f---v~vn~~~l~~~~~g~~~~~~~~~f~~A~~~~p~iLfLDEId~l~~  311 (489)
T 3hu3_A          237 PPRGILLYGPPGTGKTLIARAVANE--TGAFF---FLINGPEIMSKLAGESESNLRKAFEEAEKNAPAIIFIDELDAIAP  311 (489)
T ss_dssp             CCCEEEEECSTTSSHHHHHHHHHHH--CSSEE---EEEEHHHHHTSCTTHHHHHHHHHHHHHHHTCSEEEEEESHHHHCB
T ss_pred             CCCcEEEECcCCCCHHHHHHHHHHH--hCCCE---EEEEchHhhhhhcchhHHHHHHHHHHHHhcCCcEEEecchhhhcc
Confidence            3456889999999999999999874  22222   2333211   1 11 22233444444332221  01233333321


Q ss_pred             ----------hhhHhhHhhhccC--CCCCcEEEEEcCChhH-Hhhc----CCCCcccCCCCChhhHHhhhhccccCCCCC
Q 038448          232 ----------YNDWTNRSRLFEA--GAPGSKIVFTTRNLGV-AEKM----GPLPAYPLKELSNDDCLSVFSPHSLGEKDF  294 (385)
Q Consensus       232 ----------~~~w~~l~~~l~~--~~~gs~IivTTR~~~v-a~~~----~~~~~~~l~~L~~~~a~~Lf~~~a~~~~~~  294 (385)
                                ......+...+..  ...+..||.||..... ...+    .....+.+...+.++-.++|..++-. ...
T Consensus       312 ~~~~~~~~~~~~~~~~LL~~ld~~~~~~~v~vIaaTn~~~~Ld~al~r~gRf~~~i~i~~P~~~eR~~IL~~~~~~-~~l  390 (489)
T 3hu3_A          312 KREKTHGEVERRIVSQLLTLMDGLKQRAHVIVMAATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTKN-MKL  390 (489)
T ss_dssp             CTTSCCCHHHHHHHHHHHHHHHHSCTTSCEEEEEEESCGGGBCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHTTT-SCB
T ss_pred             ccccccchHHHHHHHHHHHHhhccccCCceEEEEecCCccccCHHHhCCCcCceEEEeCCCCHHHHHHHHHHHHhc-CCC
Confidence                      0112223333321  2234456667765432 1111    11235788888999988888766422 111


Q ss_pred             CCCccHHHHHHHHHHHcCCC-hHHHHHH
Q 038448          295 STHPSLKEIGEKIVKKCNGL-PLVAKSL  321 (385)
Q Consensus       295 ~~~~~l~~~~~~i~~~c~gl-PLAi~~~  321 (385)
                      .....+    ..++..+.|. +-.+..+
T Consensus       391 ~~~~~l----~~la~~t~g~s~~dL~~L  414 (489)
T 3hu3_A          391 ADDVDL----EQVANETHGHVGADLAAL  414 (489)
T ss_dssp             CTTCCH----HHHHHTCTTCCHHHHHHH
T ss_pred             cchhhH----HHHHHHccCCcHHHHHHH
Confidence            112233    4466677774 5444444

>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=91.74  E-value=0.098  Score=48.85  Aligned_cols=23  Identities=22%  Similarity=0.299  Sum_probs=20.2

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhc
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      -.+++|+|+.|+|||||...+..
T Consensus       136 g~~i~ivG~~GsGKTTll~~l~~  158 (372)
T 2ewv_A          136 MGLILVTGPTGSGKSTTIASMID  158 (372)
T ss_dssp             SEEEEEECSSSSSHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHh
Confidence            36899999999999999988764

>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=91.72  E-value=0.091  Score=44.11  Aligned_cols=25  Identities=28%  Similarity=0.311  Sum_probs=21.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ...-|.|+|.+|+|||||...+.+.
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            3456889999999999999998765

>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=91.70  E-value=0.088  Score=43.23  Aligned_cols=25  Identities=24%  Similarity=0.222  Sum_probs=21.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ..--|.|+|.+|+|||||...+...
T Consensus        20 ~~~~i~v~G~~~~GKSsli~~l~~~   44 (181)
T 2h17_A           20 QEHKVIIVGLDNAGKTTILYQFSMN   44 (181)
T ss_dssp             -CEEEEEEEETTSSHHHHHHHHHTT
T ss_pred             ceeEEEEECCCCCCHHHHHHHHhcC
Confidence            3456889999999999999999864

>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=91.70  E-value=0.19  Score=44.31  Aligned_cols=37  Identities=16%  Similarity=0.133  Sum_probs=26.9

Q ss_pred             HHHHHHHhcCCCCCCCCceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          143 EETVKLLLRDDLRTDDGLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       143 ~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .-+.+||....    +...-|.++|++|.|||.+|..+.+.
T Consensus        91 ~~l~~~l~~~~----~~~n~~~l~GppgtGKt~~a~ala~~  127 (267)
T 1u0j_A           91 SVFLGWATKKF----GKRNTIWLFGPATTGKTNIAEAIAHT  127 (267)
T ss_dssp             HHHHHHHTTCS----TTCCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             HHHHHHHhCCC----CCCcEEEEECCCCCCHHHHHHHHHhh
Confidence            34566664321    23457999999999999999998863

>1m8p_A Sulfate adenylyltransferase; rossmann fold, phosphosulfate binding, T-state; HET: PPS; 2.60A {Penicillium chrysogenum} SCOP: b.122.1.3 c.26.1.5 c.37.1.15 PDB: 1i2d_A*

Probab=91.67  E-value=0.18  Score=49.81  Aligned_cols=26  Identities=19%  Similarity=0.078  Sum_probs=22.5

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          158 DGLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       158 ~~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      +...+|.|.|++|+||||+|+.+...
T Consensus       394 q~~~~I~l~GlsGSGKSTiA~~La~~  419 (573)
T 1m8p_A          394 TQGFTIFLTGYMNSGKDAIARALQVT  419 (573)
T ss_dssp             TCCEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             ccceEEEeecCCCCCHHHHHHHHHHH
Confidence            45578999999999999999999764

>2r6a_A DNAB helicase, replicative helicase; replication, DNAB; 2.90A {Geobacillus stearothermophilus} PDB: 2r6c_A 2r6d_A 2r6e_A 2vyf_A 2vye_A

Probab=91.67  E-value=0.21  Score=47.89  Aligned_cols=50  Identities=16%  Similarity=0.131  Sum_probs=34.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecCCCCHHHHHHHHHH
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDFDIIRVTKSILK  213 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~il~  213 (385)
                      .++.|.|.+|+||||||..+..+.... .=..++|++...  +...+...++.
T Consensus       204 ~liiI~G~pG~GKTtl~l~ia~~~~~~-~g~~Vl~~s~E~--s~~~l~~r~~~  253 (454)
T 2r6a_A          204 DLIIVAARPSVGKTAFALNIAQNVATK-TNENVAIFSLEM--SAQQLVMRMLC  253 (454)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHHHHH-SSCCEEEEESSS--CHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHHHh-CCCcEEEEECCC--CHHHHHHHHHH
Confidence            689999999999999999887753211 112577777544  44566666544

>4dhe_A Probable GTP-binding protein ENGB; melioidosis, RAS-like GTPase, cell division, cell cycle, SEP GTP-binding; 2.20A {Burkholderia thailandensis}

Probab=91.66  E-value=0.081  Score=45.01  Aligned_cols=27  Identities=19%  Similarity=0.213  Sum_probs=23.1

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHhccc
Q 038448          158 DGLSVIPIIGTGRIGKTTLAQLAYSDV  184 (385)
Q Consensus       158 ~~~~vi~I~G~gGiGKTtLA~~v~~~~  184 (385)
                      .....|+|+|.+|+|||||...+....
T Consensus        27 ~~~~~i~v~G~~~~GKSslin~l~~~~   53 (223)
T 4dhe_A           27 TVQPEIAFAGRSNAGKSTAINVLCNQK   53 (223)
T ss_dssp             CCSCEEEEEESCHHHHHHHHHHHTTCS
T ss_pred             CCCCEEEEEcCCCCCHHHHHHHHhCCC
Confidence            345678999999999999999998763

>3v9p_A DTMP kinase, thymidylate kinase; ssgcid, STRU genomics, seattle structural genomics center for infectious transferase; 1.90A {Burkholderia thailandensis}

Probab=91.65  E-value=0.16  Score=43.75  Aligned_cols=23  Identities=30%  Similarity=0.263  Sum_probs=18.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ..|.|-|+.|+||||+++.+.+.
T Consensus        26 ~~I~~eG~~GsGKsT~~~~l~~~   48 (227)
T 3v9p_A           26 KFITFEGIDGAGKTTHLQWFCDR   48 (227)
T ss_dssp             CEEEEECCC---CHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            68999999999999999999875

>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=91.64  E-value=0.11  Score=45.93  Aligned_cols=24  Identities=25%  Similarity=0.423  Sum_probs=21.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ...|+++|.+|+|||||...+...
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            357899999999999999998764

>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=91.62  E-value=0.13  Score=47.05  Aligned_cols=23  Identities=22%  Similarity=0.148  Sum_probs=20.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .+++|+|..|.|||||++.+..-
T Consensus       172 ~~v~i~G~~GsGKTTll~~l~g~  194 (330)
T 2pt7_A          172 KNVIVCGGTGSGKTTYIKSIMEF  194 (330)
T ss_dssp             CCEEEEESTTSCHHHHHHHGGGG
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            57999999999999999998763

>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=91.60  E-value=0.096  Score=44.83  Aligned_cols=22  Identities=27%  Similarity=0.404  Sum_probs=18.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcc
Q 038448          162 VIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      -|.|+|-+|+|||+|...+.++
T Consensus        15 KivlvGd~~VGKTsLi~r~~~~   36 (216)
T 4dkx_A           15 KLVFLGEQSVGKTSLITRFMYD   36 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECcCCcCHHHHHHHHHhC
Confidence            3678999999999999988654

>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=91.60  E-value=0.085  Score=43.17  Aligned_cols=25  Identities=28%  Similarity=0.162  Sum_probs=21.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ....|.|+|.+|+|||||...+...
T Consensus        17 ~~~~i~v~G~~~~GKssli~~l~~~   41 (183)
T 1moz_A           17 KELRILILGLDGAGKTTILYRLQIG   41 (183)
T ss_dssp             SCEEEEEEEETTSSHHHHHHHTCCS
T ss_pred             CccEEEEECCCCCCHHHHHHHHhcC
Confidence            3467889999999999999998754

>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=91.57  E-value=0.14  Score=43.29  Aligned_cols=24  Identities=21%  Similarity=0.191  Sum_probs=21.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      ...+|+|+|++|+||+|+|..+-+
T Consensus        10 ~~~II~itGk~~SGKd~va~~l~~   33 (202)
T 3ch4_B           10 PRLVLLFSGKRKSGKDFVTEALQS   33 (202)
T ss_dssp             CSEEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCChHHHHHHHHH
Confidence            457999999999999999988754

>2obl_A ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O127} PDB: 2obm_A*

Probab=91.55  E-value=0.095  Score=48.42  Aligned_cols=23  Identities=26%  Similarity=0.372  Sum_probs=21.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .+++|+|..|+|||||.+.+.+.
T Consensus        72 q~~gIiG~nGaGKTTLl~~I~g~   94 (347)
T 2obl_A           72 QRIGIFAGSGVGKSTLLGMICNG   94 (347)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhcC
Confidence            68999999999999999998874

>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=91.55  E-value=0.14  Score=42.10  Aligned_cols=24  Identities=25%  Similarity=0.245  Sum_probs=21.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ...|.|+|.+|+|||||...+.+.
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            467899999999999999999854

>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=91.51  E-value=0.099  Score=43.98  Aligned_cols=24  Identities=25%  Similarity=0.342  Sum_probs=20.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .--|.++|.+|+|||||...+.++
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            356789999999999999888765

>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=91.48  E-value=0.11  Score=49.22  Aligned_cols=25  Identities=24%  Similarity=0.105  Sum_probs=21.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ...++.++|.+|+||||++..+...
T Consensus        97 ~~~vi~i~G~~GsGKTT~~~~LA~~  121 (425)
T 2ffh_A           97 DRNLWFLVGLQGSGKTTTAAKLALY  121 (425)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHH
Confidence            4679999999999999999887653

>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=91.47  E-value=0.12  Score=43.17  Aligned_cols=25  Identities=16%  Similarity=0.254  Sum_probs=21.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ...-|.|+|.+|+|||||...+...
T Consensus        27 ~~~ki~v~G~~~~GKSsli~~l~~~   51 (199)
T 2p5s_A           27 KAYKIVLAGDAAVGKSSFLMRLCKN   51 (199)
T ss_dssp             -CEEEEEESSTTSSHHHHHHHHHHC
T ss_pred             CCeEEEEECcCCCCHHHHHHHHHhC
Confidence            4467899999999999999998754

>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=91.46  E-value=0.1  Score=44.01  Aligned_cols=23  Identities=30%  Similarity=0.468  Sum_probs=20.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .-|.|+|.+|+|||||...+...
T Consensus        26 ~ki~vvG~~~~GKSsli~~l~~~   48 (207)
T 2fv8_A           26 KKLVVVGDGACGKTCLLIVFSKD   48 (207)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHS
T ss_pred             cEEEEECcCCCCHHHHHHHHhcC
Confidence            46889999999999999998765

>2j0v_A RAC-like GTP-binding protein ARAC7; nucleotide-binding protein, ROP9, atrac7, membrane, palmitate, RHO GTPase; HET: GDP; 1.78A {Arabidopsis thaliana}

Probab=91.45  E-value=0.1  Score=44.05  Aligned_cols=25  Identities=24%  Similarity=0.308  Sum_probs=21.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ..--|.|+|.+|+|||||...+.+.
T Consensus         8 ~~~ki~i~G~~~~GKTsli~~l~~~   32 (212)
T 2j0v_A            8 KFIKCVTVGDGAVGKTCMLICYTSN   32 (212)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             ceEEEEEECCCCCCHHHHHHHHhcC
Confidence            3456889999999999999988754

>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=91.45  E-value=0.1  Score=43.29  Aligned_cols=24  Identities=29%  Similarity=0.427  Sum_probs=21.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ..-|.++|.+|+|||||...+.+.
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            356889999999999999999865

>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=91.42  E-value=0.11  Score=50.20  Aligned_cols=25  Identities=20%  Similarity=0.203  Sum_probs=21.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ...+|.++|++|+||||+++.+...
T Consensus        38 ~~~~IvlvGlpGsGKSTia~~La~~   62 (469)
T 1bif_A           38 CPTLIVMVGLPARGKTYISKKLTRY   62 (469)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHHH
Confidence            3468899999999999999988653

>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=91.41  E-value=0.11  Score=48.88  Aligned_cols=22  Identities=23%  Similarity=0.318  Sum_probs=20.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      .+++|+|+.|.|||||.+.+..
T Consensus        48 e~~~llGpsGsGKSTLLr~iaG   69 (390)
T 3gd7_A           48 QRVGLLGRTGSGKSTLLSAFLR   69 (390)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHT
T ss_pred             CEEEEECCCCChHHHHHHHHhC
Confidence            6899999999999999999875

>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=91.41  E-value=0.14  Score=43.67  Aligned_cols=24  Identities=29%  Similarity=0.422  Sum_probs=20.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      ...-|.|+|.+|+|||||...+..
T Consensus        36 ~~~kVvlvG~~~vGKSSLl~r~~~   59 (211)
T 2g3y_A           36 TYYRVVLIGEQGVGKSTLANIFAG   59 (211)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHC
T ss_pred             CceEEEEECCCCCCHHHHHHHHHh
Confidence            345689999999999999999874

>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=91.39  E-value=0.1  Score=43.76  Aligned_cols=25  Identities=24%  Similarity=0.303  Sum_probs=21.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ..--|.|+|.+|+|||||...+.+.
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            3466899999999999999998764

>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=91.37  E-value=0.13  Score=45.04  Aligned_cols=25  Identities=16%  Similarity=0.190  Sum_probs=21.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ....|+|+|.+|+|||||...+...
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            4567899999999999999998764

>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=91.35  E-value=0.11  Score=48.18  Aligned_cols=22  Identities=18%  Similarity=0.274  Sum_probs=19.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      .+++|+|+.|.|||||.+.+..
T Consensus       124 g~i~I~GptGSGKTTlL~~l~g  145 (356)
T 3jvv_A          124 GLVLVTGPTGSGKSTTLAAMLD  145 (356)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHh
Confidence            5999999999999999988754

>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=91.35  E-value=0.11  Score=43.83  Aligned_cols=24  Identities=29%  Similarity=0.400  Sum_probs=20.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ..-|.|+|.+|+|||||...+...
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            456889999999999999998754

>1u0l_A Probable GTPase ENGC; permutation, OB-fold, zinc-finger, structural genomics, BSGC structure funded by NIH, protein structure initiative, PSI; HET: GDP; 2.80A {Thermotoga maritima} SCOP: b.40.4.5 c.37.1.8

Probab=91.35  E-value=0.18  Score=45.57  Aligned_cols=34  Identities=21%  Similarity=0.241  Sum_probs=26.6

Q ss_pred             hHHHHHHHHhcCCCCCCCCceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          141 EKEETVKLLLRDDLRTDDGLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       141 ~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ..+++..++.         -.+++|+|++|+|||||.+.+...
T Consensus       159 gv~~lf~~l~---------geiv~l~G~sG~GKSTll~~l~g~  192 (301)
T 1u0l_A          159 GIEELKEYLK---------GKISTMAGLSGVGKSSLLNAINPG  192 (301)
T ss_dssp             THHHHHHHHS---------SSEEEEECSTTSSHHHHHHHHSTT
T ss_pred             CHHHHHHHhc---------CCeEEEECCCCCcHHHHHHHhccc
Confidence            4556666652         158899999999999999999864

>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=91.34  E-value=0.22  Score=47.11  Aligned_cols=24  Identities=13%  Similarity=0.241  Sum_probs=21.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      ...+++|+|..|+|||||.+.+..
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            446999999999999999999987

>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=91.33  E-value=0.11  Score=48.12  Aligned_cols=23  Identities=17%  Similarity=0.264  Sum_probs=21.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .+++|+|.+|+|||||...+...
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            48999999999999999999874

>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=91.31  E-value=0.084  Score=43.69  Aligned_cols=25  Identities=20%  Similarity=0.154  Sum_probs=21.4

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhccc
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSDV  184 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~~  184 (385)
                      .--|.|+|.+|+|||||...+....
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            4568899999999999999987653

>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=91.27  E-value=0.11  Score=43.54  Aligned_cols=23  Identities=35%  Similarity=0.481  Sum_probs=20.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .-|.|+|.+|+|||||...+..+
T Consensus        26 ~ki~vvG~~~~GKSsli~~l~~~   48 (201)
T 2gco_A           26 KKLVIVGDGACGKTCLLIVFSKD   48 (201)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHhC
Confidence            46889999999999999998765

>2f7s_A C25KG, RAS-related protein RAB-27B; G-protein, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2iez_A*

Probab=91.25  E-value=0.12  Score=43.81  Aligned_cols=24  Identities=25%  Similarity=0.313  Sum_probs=21.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .--|.|+|.+|+|||||...+...
T Consensus        25 ~~ki~vvG~~~~GKSsLi~~l~~~   48 (217)
T 2f7s_A           25 LIKLLALGDSGVGKTTFLYRYTDN   48 (217)
T ss_dssp             EEEEEEESCTTSSHHHHHHHHHCS
T ss_pred             eEEEEEECcCCCCHHHHHHHHhcC
Confidence            456889999999999999998865

>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=91.24  E-value=0.066  Score=43.92  Aligned_cols=25  Identities=28%  Similarity=0.271  Sum_probs=10.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ...-|.|+|.+|+|||||...+.+.
T Consensus         7 ~~~ki~v~G~~~~GKssl~~~l~~~   31 (183)
T 2fu5_C            7 YLFKLLLIGDSGVGKTCVLFRFSED   31 (183)
T ss_dssp             EEEEEEEECCCCC------------
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhC
Confidence            3456899999999999999888754

>3cr8_A Sulfate adenylyltranferase, adenylylsulfate kinase; APS kinase, transferase, sulfate metabolism, nucleotide 2 kinase; 2.95A {Thiobacillus denitrificans}

Probab=91.22  E-value=0.088  Score=51.81  Aligned_cols=23  Identities=26%  Similarity=0.273  Sum_probs=21.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .+|.|+|+.|+|||||++.+...
T Consensus       370 ~iI~LiG~sGSGKSTLar~La~~  392 (552)
T 3cr8_A          370 FTVFFTGLSGAGKSTLARALAAR  392 (552)
T ss_dssp             EEEEEEESSCHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCChHHHHHHHHHHh
Confidence            68999999999999999999874

>3b1v_A Ferrous iron uptake transporter protein B; G protein, iron transport, GTPase, transmembrane, potassium; HET: GGM; 1.85A {Streptococcus thermophilus} PDB: 3b1w_A* 3lx5_A* 3lx8_A* 3ss8_A* 3b1z_A 3b1y_A* 3b1x_A* 3tah_A*

Probab=91.15  E-value=0.17  Score=44.92  Aligned_cols=24  Identities=33%  Similarity=0.498  Sum_probs=21.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ...|+++|.+|+|||||...+...
T Consensus         3 ~~kI~lvG~~nvGKSTL~n~L~g~   26 (272)
T 3b1v_A            3 MTEIALIGNPNSGKTSLFNLITGH   26 (272)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHCC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHCC
Confidence            357899999999999999999864

>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=91.13  E-value=0.11  Score=44.02  Aligned_cols=23  Identities=26%  Similarity=0.427  Sum_probs=20.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      --|.|+|.+|+|||||...+...
T Consensus        28 ~ki~vvG~~~vGKSsL~~~l~~~   50 (214)
T 3q3j_B           28 CKLVLVGDVQCGKTAMLQVLAKD   50 (214)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEEECcCCCCHHHHHHHHhcC
Confidence            45789999999999999998765

>2qag_B Septin-6, protein NEDD5; cell cycle, cell division, GTP-binding, nucleotide-binding, phosphorylation, acetylation, alternative splicing, coiled coil; HET: GDP GTP; 4.00A {Homo sapiens}

Probab=91.08  E-value=0.1  Score=49.40  Aligned_cols=21  Identities=29%  Similarity=0.515  Sum_probs=19.4

Q ss_pred             EEEEcCCCCcHHHHHHHHhcc
Q 038448          163 IPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       163 i~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ++|+|..|+|||||...++.-
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            999999999999999998764

>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=91.02  E-value=0.27  Score=44.40  Aligned_cols=26  Identities=19%  Similarity=0.294  Sum_probs=23.0

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          158 DGLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       158 ~~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .....|+|+|.+|+|||||...+...
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            46778999999999999999999765

>3hjn_A DTMP kinase, thymidylate kinase; ATP-binding, nucleotide biosynth nucleotide-binding, transferase, structural genomics; HET: ADP TYD; 2.10A {Thermotoga maritima}

Probab=90.98  E-value=0.32  Score=40.83  Aligned_cols=22  Identities=32%  Similarity=0.273  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcc
Q 038448          162 VIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .|+|=|..|+||||.++.+++.
T Consensus         2 fI~~EG~DGsGKsTq~~~L~~~   23 (197)
T 3hjn_A            2 FITFEGIDGSGKSTQIQLLAQY   23 (197)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            4778899999999999999875

>1c9k_A COBU, adenosylcobinamide kinase; alpha/beta structure rossmann fold P-loop, transferase; HET: 5GP; 2.20A {Salmonella typhimurium} SCOP: c.37.1.11 PDB: 1cbu_A

Probab=90.95  E-value=0.24  Score=40.93  Aligned_cols=35  Identities=26%  Similarity=0.303  Sum_probs=24.7

Q ss_pred             EEEEcCCCCcHHHHHHHHhccccccccccceEEEEecCCCC
Q 038448          163 IPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDFD  203 (385)
Q Consensus       163 i~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~  203 (385)
                      +.|+|.+|+||||+|.++...      -..++++.-+..++
T Consensus         2 ilV~Gg~~SGKS~~A~~la~~------~~~~~yiaT~~~~d   36 (180)
T 1c9k_A            2 ILVTGGARSGKSRHAEALIGD------APQVLYIATSQILD   36 (180)
T ss_dssp             EEEEECTTSSHHHHHHHHHCS------CSSEEEEECCCC--
T ss_pred             EEEECCCCCcHHHHHHHHHhc------CCCeEEEecCCCCC
Confidence            679999999999999998763      12355666555444

>2q6t_A DNAB replication FORK helicase; hydrolase; 2.90A {Thermus aquaticus}

Probab=90.90  E-value=0.32  Score=46.43  Aligned_cols=54  Identities=17%  Similarity=0.017  Sum_probs=37.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecCCCCHHHHHHHHHHHhh
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDFDIIRVTKSILKSIA  216 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~il~~l~  216 (385)
                      -.++.|.|.+|+||||||..+..+.... .=..++|++...  +...+...++....
T Consensus       200 G~l~ii~G~pg~GKT~lal~ia~~~a~~-~g~~vl~~slE~--~~~~l~~R~~~~~~  253 (444)
T 2q6t_A          200 GSLNIIAARPAMGKTAFALTIAQNAALK-EGVGVGIYSLEM--PAAQLTLRMMCSEA  253 (444)
T ss_dssp             TCEEEEEECTTSCHHHHHHHHHHHHHHT-TCCCEEEEESSS--CHHHHHHHHHHHHT
T ss_pred             CcEEEEEeCCCCCHHHHHHHHHHHHHHh-CCCeEEEEECCC--CHHHHHHHHHHHHc
Confidence            3688999999999999999887653211 113577777653  46677777665543

>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=90.90  E-value=0.24  Score=46.86  Aligned_cols=22  Identities=23%  Similarity=0.298  Sum_probs=20.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      .+++|+|+.|.|||||...+..
T Consensus       168 gii~I~GpnGSGKTTlL~allg  189 (418)
T 1p9r_A          168 GIILVTGPTGSGKSTTLYAGLQ  189 (418)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHh
Confidence            6899999999999999988865

>1wf3_A GTP-binding protein; GTPase, riken structural genomics/prote initiative, RSGI, structural genomics, hydrolase; HET: GNP; 1.88A {Thermus thermophilus} SCOP: c.37.1.8 d.52.3.1

Probab=90.86  E-value=0.15  Score=46.04  Aligned_cols=25  Identities=24%  Similarity=0.321  Sum_probs=21.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ....|+|+|.+|+|||||...+...
T Consensus         6 ~~g~V~ivG~~nvGKSTLln~l~g~   30 (301)
T 1wf3_A            6 YSGFVAIVGKPNVGKSTLLNNLLGV   30 (301)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHTS
T ss_pred             cCCEEEEECCCCCCHHHHHHHHhCC
Confidence            4467999999999999999998765

>3iby_A Ferrous iron transport protein B; G protein, G domain, iron uptake, cell inner membrane, cell GTP-binding, ION transport, membrane; 2.50A {Legionella pneumophila}

Probab=90.84  E-value=0.14  Score=45.02  Aligned_cols=23  Identities=30%  Similarity=0.312  Sum_probs=20.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      +.|+++|.+|+|||||...+...
T Consensus         2 ~kI~lvG~~n~GKSTL~n~L~g~   24 (256)
T 3iby_A            2 THALLIGNPNCGKTTLFNALTNA   24 (256)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHTT
T ss_pred             CEEEEECCCCCCHHHHHHHHHCC
Confidence            46899999999999999998765

>3ea0_A ATPase, para family; alpha-beta-alpha sandwich, structural genomics, PSI-2, prote structure initiative; HET: ATP; 2.20A {Chlorobium tepidum}

Probab=90.81  E-value=0.16  Score=43.98  Aligned_cols=25  Identities=16%  Similarity=0.120  Sum_probs=19.8

Q ss_pred             CceEEEEEcC-CCCcHHHHHHHHhcc
Q 038448          159 GLSVIPIIGT-GRIGKTTLAQLAYSD  183 (385)
Q Consensus       159 ~~~vi~I~G~-gGiGKTtLA~~v~~~  183 (385)
                      ..++|+|++. ||+||||+|..+...
T Consensus         3 ~~~vI~v~s~kGGvGKTt~a~~LA~~   28 (245)
T 3ea0_A            3 AKRVFGFVSAKGGDGGSCIAANFAFA   28 (245)
T ss_dssp             CCEEEEEEESSTTSSHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCcchHHHHHHHHHH
Confidence            3578888865 899999999877653

>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=90.81  E-value=0.14  Score=52.47  Aligned_cols=148  Identities=10%  Similarity=0.038  Sum_probs=74.2

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEe----cCCC-CHHHHHHHHHHHhhcCCCC--CccchHHhh
Q 038448          158 DGLSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCV----SEDF-DIIRVTKSILKSIASDQLV--DDHDLNLLQ  230 (385)
Q Consensus       158 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v----s~~~-~~~~~~~~il~~l~~~~~~--~~~~~~~l~  230 (385)
                      ..++-|.++|++|.|||+||+.+++.  ...+|   +.|+.    +... .....++.++.......+.  ..++++.+-
T Consensus       236 ~~p~GILL~GPPGTGKT~LAraiA~e--lg~~~---~~v~~~~l~sk~~gese~~lr~lF~~A~~~~PsIIfIDEiDal~  310 (806)
T 3cf2_A          236 KPPRGILLYGPPGTGKTLIARAVANE--TGAFF---FLINGPEIMSKLAGESESNLRKAFEEAEKNAPAIIFIDELDAIA  310 (806)
T ss_dssp             CCCCEEEEECCTTSCHHHHHHHHHTT--TTCEE---EEEEHHHHHSSCTTHHHHHHHHHHHHHTTSCSEEEEEESGGGTC
T ss_pred             CCCCeEEEECCCCCCHHHHHHHHHHH--hCCeE---EEEEhHHhhcccchHHHHHHHHHHHHHHHcCCeEEEEehhcccc
Confidence            34577899999999999999999985  33333   34442    2211 2345566666655433221  122333322


Q ss_pred             ------ch----hhHhhHhhhccC--CCCCcEEEEEcCChhHH-hhcC----CCCcccCCCCChhhHHhhhhccccCCCC
Q 038448          231 ------KY----NDWTNRSRLFEA--GAPGSKIVFTTRNLGVA-EKMG----PLPAYPLKELSNDDCLSVFSPHSLGEKD  293 (385)
Q Consensus       231 ------~~----~~w~~l~~~l~~--~~~gs~IivTTR~~~va-~~~~----~~~~~~l~~L~~~~a~~Lf~~~a~~~~~  293 (385)
                            ..    ....++...+..  ...+--||.||...+.. ..+.    -...+.+...+.++-.++|..+.-. ..
T Consensus       311 ~~r~~~~~~~~~riv~~LL~~mdg~~~~~~V~VIaaTN~~d~LD~ALrR~GRFd~~I~i~~Pd~~~R~~IL~~~l~~-~~  389 (806)
T 3cf2_A          311 PKREKTHGEVERRIVSQLLTLMDGLKQRAHVIVMAATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTKN-MK  389 (806)
T ss_dssp             CTTTTCCCTTHHHHHHHHHTHHHHCCGGGCEEEEEECSSTTTSCTTTTSTTSSCEEEECCCCCHHHHHHHHHHTCSS-SE
T ss_pred             cccCCCCChHHHHHHHHHHHHHhcccccCCEEEEEecCChhhcCHHHhCCcccceEEecCCCCHHHHHHHHHHHhcC-CC
Confidence                  00    011122222211  11233455566544322 1111    1235778888888778887765422 11


Q ss_pred             CCCCccHHHHHHHHHHHcCCCh
Q 038448          294 FSTHPSLKEIGEKIVKKCNGLP  315 (385)
Q Consensus       294 ~~~~~~l~~~~~~i~~~c~glP  315 (385)
                      .....+    ...|++++.|.-
T Consensus       390 ~~~dvd----l~~lA~~T~Gfs  407 (806)
T 3cf2_A          390 LADDVD----LEQVANETHGHV  407 (806)
T ss_dssp             ECTTCC----HHHHHHHCCSCC
T ss_pred             CCcccC----HHHHHHhcCCCC
Confidence            111223    345677787764

>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=90.77  E-value=0.11  Score=49.41  Aligned_cols=24  Identities=29%  Similarity=0.292  Sum_probs=21.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .+-|.++|++|+||||+|+.+...
T Consensus        50 ~~~iLl~GppGtGKT~lar~lA~~   73 (444)
T 1g41_A           50 PKNILMIGPTGVGKTEIARRLAKL   73 (444)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHHH
T ss_pred             CceEEEEcCCCCCHHHHHHHHHHH
Confidence            456889999999999999999874

>3k9g_A PF-32 protein; ssgcid, SBRI, decode biostructures, UW, NIH, niaid, borellia burgdorferi, plasmid partition protein, iodide; 2.25A {Borrelia burgdorferi} PDB: 3k9h_A

Probab=90.76  E-value=0.14  Score=45.20  Aligned_cols=42  Identities=17%  Similarity=0.183  Sum_probs=27.2

Q ss_pred             CCceEEEEEc-CCCCcHHHHHHHHhccccccccccceEEEEecCCC
Q 038448          158 DGLSVIPIIG-TGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDF  202 (385)
Q Consensus       158 ~~~~vi~I~G-~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~  202 (385)
                      ...++|+|++ -||+||||+|..+..-..  .. ..++-|......
T Consensus        25 ~~~~vI~v~s~kGGvGKTT~a~~LA~~la--~g-~~VlliD~D~~~   67 (267)
T 3k9g_A           25 KKPKIITIASIKGGVGKSTSAIILATLLS--KN-NKVLLIDMDTQA   67 (267)
T ss_dssp             -CCEEEEECCSSSSSCHHHHHHHHHHHHT--TT-SCEEEEEECTTC
T ss_pred             CCCeEEEEEeCCCCchHHHHHHHHHHHHH--CC-CCEEEEECCCCC
Confidence            3568888875 589999999988876432  22 335556655443

>2npi_A Protein CLP1; CLP1-PCF11 complex, ATP binding, ternary complex, transcript; HET: ATP; 2.95A {Saccharomyces cerevisiae}

Probab=90.71  E-value=0.11  Score=49.98  Aligned_cols=23  Identities=30%  Similarity=0.442  Sum_probs=20.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .+++|+|..|+|||||++.+..-
T Consensus       139 e~v~IvGpnGsGKSTLlr~L~Gl  161 (460)
T 2npi_A          139 PRVVIVGGSQTGKTSLSRTLCSY  161 (460)
T ss_dssp             CCEEEEESTTSSHHHHHHHHHHT
T ss_pred             CEEEEECCCCCCHHHHHHHHhCc
Confidence            58999999999999999998873

>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=90.68  E-value=0.13  Score=43.03  Aligned_cols=39  Identities=21%  Similarity=0.063  Sum_probs=24.7

Q ss_pred             eEEEEE-cCCCCcHHHHHHHHhccccccccccceEEEEecCC
Q 038448          161 SVIPII-GTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSED  201 (385)
Q Consensus       161 ~vi~I~-G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~  201 (385)
                      ++|+|+ +-||+||||+|..+....  ...=..++-|.....
T Consensus         2 ~vi~v~s~kgG~GKTt~a~~la~~l--a~~g~~vlliD~D~~   41 (206)
T 4dzz_A            2 KVISFLNPKGGSGKTTAVINIATAL--SRSGYNIAVVDTDPQ   41 (206)
T ss_dssp             EEEEECCSSTTSSHHHHHHHHHHHH--HHTTCCEEEEECCTT
T ss_pred             eEEEEEeCCCCccHHHHHHHHHHHH--HHCCCeEEEEECCCC
Confidence            578888 569999999998876542  121123455555443

>3fdi_A Uncharacterized protein; cytidylate kinase like protein, PSI, MCSG, PRK04182 class ME structural genomics, protein structure initiative; 2.20A {Eubacterium ventriosum}

Probab=90.61  E-value=0.14  Score=43.20  Aligned_cols=23  Identities=17%  Similarity=0.013  Sum_probs=21.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .+|.|.|+.|+||||+++.+...
T Consensus         7 ~iI~i~g~~GsGk~ti~~~la~~   29 (201)
T 3fdi_A            7 IIIAIGREFGSGGHLVAKKLAEH   29 (201)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHH
T ss_pred             eEEEEeCCCCCCHHHHHHHHHHH
Confidence            58999999999999999999874

>1h65_A Chloroplast outer envelope protein OEP34; GTPase, translocon; HET: GDP; 2.0A {Pisum sativum} SCOP: c.37.1.8 PDB: 3bb1_A*

Probab=90.56  E-value=0.34  Score=42.75  Aligned_cols=26  Identities=19%  Similarity=0.369  Sum_probs=22.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhccc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSDV  184 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~~  184 (385)
                      ....|.++|.+|+|||||...+....
T Consensus        38 ~~~~I~vvG~~g~GKSSLin~l~~~~   63 (270)
T 1h65_A           38 NSLTILVMGKGGVGKSSTVNSIIGER   63 (270)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHTSC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHhCCC
Confidence            34678899999999999999998753

>1x6v_B Bifunctional 3'-phosphoadenosine 5'- phosphosulfate synthethase 1; transferase, ATP sulfurylase, APS kinase, PAPS; HET: ADP; 1.75A {Homo sapiens} SCOP: b.122.1.3 c.26.1.5 c.37.1.4 PDB: 1xjq_B* 1xnj_B* 2qjf_A* 2ofx_A* 2ofw_A*

Probab=90.54  E-value=0.16  Score=50.54  Aligned_cols=25  Identities=20%  Similarity=0.108  Sum_probs=22.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ...+|.+.|++|+||||+|+.+...
T Consensus        51 ~g~lIvLtGlsGSGKSTlAr~La~~   75 (630)
T 1x6v_B           51 RGCTVWLTGLSGAGKTTVSMALEEY   75 (630)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCEEEEEeCCCCCHHHHHHHHHHH
Confidence            4578999999999999999998763

>3def_A T7I23.11 protein; chloroplast, TOC33, GTPase, hydrolase; HET: GDP; 1.96A {Arabidopsis thaliana} PDB: 3bb3_A* 3bb4_A* 2j3e_A*

Probab=90.53  E-value=0.35  Score=42.53  Aligned_cols=26  Identities=15%  Similarity=0.372  Sum_probs=22.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhccc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSDV  184 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~~  184 (385)
                      ....|+++|.+|+|||||...+....
T Consensus        35 ~~~~I~lvG~~g~GKSSLin~l~~~~   60 (262)
T 3def_A           35 NSMTVLVLGKGGVGKSSTVNSLIGEQ   60 (262)
T ss_dssp             CEEEEEEEECTTSSHHHHHHHHHTSC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            44678999999999999999988653

>3bgw_A DNAB-like replicative helicase; ATPase, replication; 3.91A {Bacillus phage SPP1}

Probab=90.50  E-value=0.23  Score=47.55  Aligned_cols=51  Identities=14%  Similarity=0.129  Sum_probs=34.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecCCCCHHHHHHHHHHHh
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDFDIIRVTKSILKSI  215 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~il~~l  215 (385)
                      .++.|.|.+|+||||||..+..+...+  =..++|++.-.  +...+...++...
T Consensus       198 ~liiIaG~pG~GKTtlal~ia~~~a~~--g~~vl~fSlEm--s~~ql~~R~~~~~  248 (444)
T 3bgw_A          198 NFVLIAARPSMGKTAFALKQAKNMSDN--DDVVNLHSLEM--GKKENIKRLIVTA  248 (444)
T ss_dssp             CEEEEEECSSSSHHHHHHHHHHHHHHT--TCEEEEECSSS--CTTHHHHHHHHHH
T ss_pred             cEEEEEeCCCCChHHHHHHHHHHHHHc--CCEEEEEECCC--CHHHHHHHHHHHH
Confidence            688999999999999999887763222  12466776543  3445566555543

>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=90.47  E-value=0.13  Score=48.76  Aligned_cols=21  Identities=24%  Similarity=0.520  Sum_probs=19.1

Q ss_pred             EEEEcCCCCcHHHHHHHHhcc
Q 038448          163 IPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       163 i~I~G~gGiGKTtLA~~v~~~  183 (385)
                      |+|+|.+|+|||||...++..
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            599999999999999999864

>2x77_A ADP-ribosylation factor; GTP-binding protein, small GTPase, nucleotide-binding; HET: GDP; 2.10A {Leishmania major}

Probab=90.46  E-value=0.1  Score=43.13  Aligned_cols=24  Identities=17%  Similarity=0.158  Sum_probs=20.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .--|.|+|.+|+|||||...+..+
T Consensus        22 ~~~i~v~G~~~~GKssli~~l~~~   45 (189)
T 2x77_A           22 KIRVLMLGLDNAGKTSILYRLHLG   45 (189)
T ss_dssp             CEEEEEEEETTSSHHHHHHHTCCS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHcC
Confidence            456899999999999999998654

>3euj_A Chromosome partition protein MUKB, linker; MUKB, MUKE, chromosome condensation, condensin, SMC, N subunit, ABC-type ATPase, WHD, ATP-binding; HET: AGS; 3.10A {Haemophilus ducreyi} PDB: 3euk_A*

Probab=90.35  E-value=0.16  Score=48.97  Aligned_cols=22  Identities=23%  Similarity=0.172  Sum_probs=20.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      .+++|+|+.|.|||||.+.+..
T Consensus        30 e~~~liG~nGsGKSTLl~~l~G   51 (483)
T 3euj_A           30 LVTTLSGGNGAGKSTTMAGFVT   51 (483)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHH
T ss_pred             ceEEEECCCCCcHHHHHHHHhc
Confidence            7999999999999999988864

>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=90.29  E-value=0.2  Score=46.76  Aligned_cols=42  Identities=19%  Similarity=0.173  Sum_probs=28.1

Q ss_pred             CCCCceEEEEEc-CCCCcHHHHHHHHhccccccccccceEEEEec
Q 038448          156 TDDGLSVIPIIG-TGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVS  199 (385)
Q Consensus       156 ~~~~~~vi~I~G-~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs  199 (385)
                      ...+.++|+|+| -||+||||+|..+....  ...=..++.|...
T Consensus       139 ~~~~~kvIav~s~KGGvGKTT~a~nLA~~L--a~~g~rVlliD~D  181 (373)
T 3fkq_A          139 ENDKSSVVIFTSPCGGVGTSTVAAACAIAH--ANMGKKVFYLNIE  181 (373)
T ss_dssp             CTTSCEEEEEECSSTTSSHHHHHHHHHHHH--HHHTCCEEEEECC
T ss_pred             cCCCceEEEEECCCCCChHHHHHHHHHHHH--HhCCCCEEEEECC
Confidence            345679999996 79999999998776532  1211235566655

>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=90.29  E-value=0.21  Score=39.94  Aligned_cols=23  Identities=26%  Similarity=0.310  Sum_probs=19.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhc
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      ..+..|+|+.|.||||+..+++-
T Consensus        23 ~g~~~I~G~NGsGKStil~Ai~~   45 (149)
T 1f2t_A           23 EGINLIIGQNGSGKSSLLDAILV   45 (149)
T ss_dssp             SEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCeEEEECCCCCCHHHHHHHHHH
Confidence            36889999999999999988753

>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=90.28  E-value=0.34  Score=47.11  Aligned_cols=54  Identities=7%  Similarity=-0.018  Sum_probs=37.4

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecCCCCHHHHHHHHHHHhh
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDFDIIRVTKSILKSIA  216 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~il~~l~  216 (385)
                      -.++.|.|.+|+||||||..+..+.... +=..++|++...  +...+...++....
T Consensus       242 G~l~li~G~pG~GKT~lal~~a~~~a~~-~g~~vl~~s~E~--s~~~l~~r~~~~~~  295 (503)
T 1q57_A          242 GEVIMVTSGSGMVMSTFVRQQALQWGTA-MGKKVGLAMLEE--SVEETAEDLIGLHN  295 (503)
T ss_dssp             TCEEEEEESSCHHHHHHHHHHHHHHTTT-SCCCEEEEESSS--CHHHHHHHHHHHHT
T ss_pred             CeEEEEeecCCCCchHHHHHHHHHHHHh-cCCcEEEEeccC--CHHHHHHHHHHHHc
Confidence            3688999999999999999887653221 113567887644  46677777665544

>3cpj_B GTP-binding protein YPT31/YPT8; RAB GTPase, prenylation, vesicular transport, acetylation, golgi apparatus, lipoprotein, membrane; HET: GDP; 2.35A {Saccharomyces cerevisiae}

Probab=90.25  E-value=0.15  Score=43.48  Aligned_cols=25  Identities=28%  Similarity=0.320  Sum_probs=21.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ..--|.|+|.+|+|||||...+.+.
T Consensus        12 ~~~ki~v~G~~~vGKSsli~~l~~~   36 (223)
T 3cpj_B           12 LLFKIVLIGDSGVGKSNLLSRFTKN   36 (223)
T ss_dssp             EEEEEEEESCTTSSHHHHHHHHHHC
T ss_pred             eeeEEEEECcCCCCHHHHHHHHhcC
Confidence            3456899999999999999998765

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=90.18  E-value=0.15  Score=50.15  Aligned_cols=23  Identities=39%  Similarity=0.680  Sum_probs=20.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .+++|+|+.|+|||||++.++.-
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            36899999999999999999863

>2dpy_A FLII, flagellum-specific ATP synthase; beta barrel, alpha-beta structure, hydrolase; HET: ADP; 2.40A {Salmonella typhimurium}

Probab=90.15  E-value=0.15  Score=48.69  Aligned_cols=23  Identities=13%  Similarity=0.216  Sum_probs=20.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .+++|+|..|+|||||.+.+...
T Consensus       158 q~~~IvG~sGsGKSTLl~~Iag~  180 (438)
T 2dpy_A          158 QRMGLFAGSGVGKSVLLGMMARY  180 (438)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhcc
Confidence            68999999999999999998764

>3b60_A Lipid A export ATP-binding/permease protein MSBA; ABC transporter, lipid flippase, hydrolase, inner membrane, lipid transport, membrane; HET: ANP; 3.70A {Salmonella typhimurium} SCOP: c.37.1.12 f.37.1.1 PDB: 3b5y_A* 3b5z_A* 3b5w_A

Probab=90.07  E-value=0.22  Score=49.49  Aligned_cols=22  Identities=27%  Similarity=0.511  Sum_probs=20.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      .+++|+|+.|.|||||++.+..
T Consensus       370 ~~~~ivG~sGsGKSTLl~~l~g  391 (582)
T 3b60_A          370 KTVALVGRSGSGKSTIASLITR  391 (582)
T ss_dssp             CEEEEEECTTSSHHHHHHHHTT
T ss_pred             CEEEEECCCCCCHHHHHHHHhh
Confidence            4689999999999999999976

>3tqf_A HPR(Ser) kinase; transferase, hydrolase; 2.80A {Coxiella burnetii}

Probab=90.06  E-value=0.17  Score=41.59  Aligned_cols=22  Identities=27%  Similarity=0.348  Sum_probs=19.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      +-|.|.|.+|+||||||..+..
T Consensus        17 ~gvli~G~SGaGKStlal~L~~   38 (181)
T 3tqf_A           17 MGVLITGEANIGKSELSLALID   38 (181)
T ss_dssp             EEEEEEESSSSSHHHHHHHHHH
T ss_pred             EEEEEEcCCCCCHHHHHHHHHH
Confidence            4578999999999999998875

>1t9h_A YLOQ, probable GTPase ENGC; N-terminal beta-barrel domain with oligonucleotide binding fold, central GTP binding domain; 1.60A {Bacillus subtilis} SCOP: b.40.4.5 c.37.1.8

Probab=90.05  E-value=0.08  Score=47.98  Aligned_cols=23  Identities=17%  Similarity=0.328  Sum_probs=20.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .+++|+|++|+|||||.+.+...
T Consensus       174 ~~~~lvG~sG~GKSTLln~L~g~  196 (307)
T 1t9h_A          174 KTTVFAGQSGVGKSSLLNAISPE  196 (307)
T ss_dssp             SEEEEEESHHHHHHHHHHHHCC-
T ss_pred             CEEEEECCCCCCHHHHHHHhccc
Confidence            58999999999999999999763

>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=90.05  E-value=0.23  Score=49.28  Aligned_cols=22  Identities=27%  Similarity=0.496  Sum_probs=20.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      .+++|+|+.|.|||||++.+..
T Consensus       370 ~~~~ivG~sGsGKSTll~~l~g  391 (582)
T 3b5x_A          370 KTVALVGRSGSGKSTIANLFTR  391 (582)
T ss_pred             CEEEEECCCCCCHHHHHHHHhc
Confidence            4789999999999999999976

>3io3_A DEHA2D07832P; chaperone, membrane traffic, ATPase; HET: ADP; 1.80A {Debaryomyces hansenii}

Probab=90.05  E-value=0.2  Score=46.16  Aligned_cols=25  Identities=36%  Similarity=0.407  Sum_probs=21.1

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHhc
Q 038448          158 DGLSVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       158 ~~~~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      ...+++.+.|.||+||||+|..+..
T Consensus        16 ~~~~i~~~~gkGGvGKTt~a~~lA~   40 (348)
T 3io3_A           16 DSLKWIFVGGKGGVGKTTTSSSVAV   40 (348)
T ss_dssp             TTCSEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCcEEEEEeCCCCCcHHHHHHHHHH
Confidence            3568999999999999999977654

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=90.01  E-value=0.16  Score=49.88  Aligned_cols=23  Identities=39%  Similarity=0.559  Sum_probs=20.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .+++|+|+.|.|||||++.++.-
T Consensus       313 e~~~i~G~NGsGKSTLlk~l~Gl  335 (538)
T 1yqt_A          313 EVIGIVGPNGIGKTTFVKMLAGV  335 (538)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHTS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            47899999999999999999874

>3t5d_A Septin-7; GTP-binding protein, cytoskeleton, signaling protein; HET: GDP; 3.30A {Homo sapiens} PDB: 3tw4_A*

Probab=89.89  E-value=0.16  Score=45.11  Aligned_cols=23  Identities=22%  Similarity=0.434  Sum_probs=20.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      --|+|+|.+|+|||||...++..
T Consensus         9 ~~I~vvG~~g~GKSTLin~L~~~   31 (274)
T 3t5d_A            9 FTLMVVGESGLGKSTLINSLFLT   31 (274)
T ss_dssp             EEEEEEECTTSSHHHHHHHHSSS
T ss_pred             EEEEEECCCCCCHHHHHHHHhCC
Confidence            45889999999999999987754

>3a1s_A Iron(II) transport protein B; FEOB, iron transporter, small GTPase, G protein, GDI; HET: GDP; 1.50A {Thermotoga maritima} PDB: 3a1t_A* 3a1u_A* 3a1v_A* 3a1w_A

Probab=89.86  E-value=0.19  Score=44.28  Aligned_cols=24  Identities=21%  Similarity=0.358  Sum_probs=21.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ...|+++|.+|+|||||...+...
T Consensus         5 ~~kI~lvG~~nvGKTsL~n~l~g~   28 (258)
T 3a1s_A            5 MVKVALAGCPNVGKTSLFNALTGT   28 (258)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHTT
T ss_pred             ceEEEEECCCCCCHHHHHHHHHCC
Confidence            356899999999999999998764

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=89.79  E-value=0.17  Score=49.65  Aligned_cols=23  Identities=22%  Similarity=0.585  Sum_probs=21.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .+++|+|+.|+|||||.+.+..-
T Consensus        26 ei~gLiGpNGaGKSTLlkiL~Gl   48 (538)
T 3ozx_A           26 TILGVLGKNGVGKTTVLKILAGE   48 (538)
T ss_dssp             EEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CEEEEECCCCCcHHHHHHHHhcC
Confidence            79999999999999999998763

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=89.72  E-value=0.17  Score=49.61  Aligned_cols=22  Identities=27%  Similarity=0.457  Sum_probs=20.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      .+++|+|..|.|||||.+.+..
T Consensus        48 e~~~LvG~NGaGKSTLlk~l~G   69 (538)
T 1yqt_A           48 MVVGIVGPNGTGKSTAVKILAG   69 (538)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHT
T ss_pred             CEEEEECCCCCCHHHHHHHHhC
Confidence            6899999999999999999875

>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding, nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A {Thermococcus onnurineus}

Probab=89.71  E-value=0.15  Score=50.86  Aligned_cols=23  Identities=26%  Similarity=0.273  Sum_probs=20.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ..+.|+|++|+||||||+.+..-
T Consensus        61 ~~vll~Gp~GtGKTtlar~ia~~   83 (604)
T 3k1j_A           61 RHVLLIGEPGTGKSMLGQAMAEL   83 (604)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHT
T ss_pred             CEEEEEeCCCCCHHHHHHHHhcc
Confidence            47899999999999999999874

>3tmk_A Thymidylate kinase; phosphotransferase; HET: T5A; 2.00A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 2tmk_A* 1tmk_A*

Probab=89.68  E-value=0.19  Score=43.00  Aligned_cols=23  Identities=39%  Similarity=0.563  Sum_probs=21.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ..|.+-|+.|+||||++..+.+.
T Consensus         6 ~~i~~eG~~g~GKst~~~~l~~~   28 (216)
T 3tmk_A            6 KLILIEGLDRTGKTTQCNILYKK   28 (216)
T ss_dssp             CEEEEEECSSSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            68999999999999999999875

>3iqw_A Tail-anchored protein targeting factor GET3; ATPase, Zn binding, protein transport; HET: ANP; 3.00A {Chaetomium thermophilum} PDB: 3iqx_A* 3ibg_A*

Probab=89.68  E-value=0.42  Score=43.75  Aligned_cols=24  Identities=33%  Similarity=0.289  Sum_probs=20.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      ..+++.+.|-||+||||+|..+..
T Consensus        15 ~~~i~~~sgkGGvGKTt~a~~lA~   38 (334)
T 3iqw_A           15 SLRWIFVGGKGGVGKTTTSCSLAI   38 (334)
T ss_dssp             TCCEEEEECSTTSSHHHHHHHHHH
T ss_pred             CeEEEEEeCCCCccHHHHHHHHHH
Confidence            457888889999999999987764

>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=89.65  E-value=1.3  Score=40.31  Aligned_cols=156  Identities=5%  Similarity=-0.117  Sum_probs=88.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecCCCCHHHHHHHHHHHhhcCCCCCccchHHh---hchhhHh
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDFDIIRVTKSILKSIASDQLVDDHDLNLL---QKYNDWT  236 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~il~~l~~~~~~~~~~~~~l---~~~~~w~  236 (385)
                      .++..++|..|.||++.+..+.... ....|+....+.+....+...+...+-.. ........-.++..   -..+.++
T Consensus        18 ~~~yl~~G~e~~~~~~~~~~l~~~~-~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-plf~~~kvvii~~~~~kl~~~~~~   95 (343)
T 1jr3_D           18 RAAYLLLGNDPLLLQESQDAVRQVA-AAQGFEEHHTFSIDPNTDWNAIFSLCQAM-SLFASRQTLLLLLPENGPNAAINE   95 (343)
T ss_dssp             CSEEEEEESCHHHHHHHHHHHHHHH-HHHTCCEEEEEECCTTCCHHHHHHHHHHH-HHCCSCEEEEEECCSSCCCTTHHH
T ss_pred             CcEEEEECCcHHHHHHHHHHHHHHH-HhCCCCeeEEEEecCCCCHHHHHHHhcCc-CCccCCeEEEEECCCCCCChHHHH
Confidence            4789999999999999998886642 12234322223344556777666554321 11111011111111   1335566


Q ss_pred             hHhhhccCCCCCcEEEEEcCC-------hhHHhhcCC-CCcccCCCCChhhHHhhhhccccCCCCCCCCccHHHHHHHHH
Q 038448          237 NRSRLFEAGAPGSKIVFTTRN-------LGVAEKMGP-LPAYPLKELSNDDCLSVFSPHSLGEKDFSTHPSLKEIGEKIV  308 (385)
Q Consensus       237 ~l~~~l~~~~~gs~IivTTR~-------~~va~~~~~-~~~~~l~~L~~~~a~~Lf~~~a~~~~~~~~~~~l~~~~~~i~  308 (385)
                      .+...+....+++.+|++|..       ..+...+.. ...+...+++.++-...+...+-.. ..   .--.+.+..++
T Consensus        96 aLl~~le~p~~~~~~il~~~~~~~~~~~~k~~~~i~sr~~~~~~~~l~~~~l~~~l~~~~~~~-g~---~i~~~a~~~l~  171 (343)
T 1jr3_D           96 QLLTLTGLLHDDLLLIVRGNKLSKAQENAAWFTALANRSVQVTCQTPEQAQLPRWVAARAKQL-NL---ELDDAANQVLC  171 (343)
T ss_dssp             HHHHHHTTCBTTEEEEEEESCCCTTTTTSHHHHHHTTTCEEEEECCCCTTHHHHHHHHHHHHT-TC---EECHHHHHHHH
T ss_pred             HHHHHHhcCCCCeEEEEEcCCCChhhHhhHHHHHHHhCceEEEeeCCCHHHHHHHHHHHHHHc-CC---CCCHHHHHHHH
Confidence            677777655567777766543       244444433 3567888998888776665543211 11   11135567788


Q ss_pred             HHcCCChHHHHHH
Q 038448          309 KKCNGLPLVAKSL  321 (385)
Q Consensus       309 ~~c~glPLAi~~~  321 (385)
                      +.++|.+..+...
T Consensus       172 ~~~~gdl~~~~~e  184 (343)
T 1jr3_D          172 YCYEGNLLALAQA  184 (343)
T ss_dssp             HSSTTCHHHHHHH
T ss_pred             HHhchHHHHHHHH
Confidence            8888887776654

>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=89.56  E-value=0.54  Score=48.25  Aligned_cols=24  Identities=25%  Similarity=0.239  Sum_probs=21.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .+-|.++|++|.|||.||+++.+.
T Consensus       511 ~~gvLl~GPPGtGKT~lAkaiA~e  534 (806)
T 3cf2_A          511 SKGVLFYGPPGCGKTLLAKAIANE  534 (806)
T ss_dssp             CSCCEEESSTTSSHHHHHHHHHHT
T ss_pred             CceEEEecCCCCCchHHHHHHHHH
Confidence            455789999999999999999985

>1zcb_A G alpha I/13; GTP-binding, lipoprotein, membrane, transducer, signaling PR; HET: GDP; 2.00A {Mus musculus} SCOP: a.66.1.1 c.37.1.8 PDB: 3ab3_A* 3cx8_A* 3cx7_A* 3cx6_A* 1zca_A*

Probab=89.54  E-value=0.22  Score=46.19  Aligned_cols=22  Identities=32%  Similarity=0.513  Sum_probs=19.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHH
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLA  180 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v  180 (385)
                      ...-|.|.|.||+||||+++++
T Consensus        32 ~~~killlG~~~SGKST~~kq~   53 (362)
T 1zcb_A           32 RLVKILLLGAGESGKSTFLKQM   53 (362)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHH
T ss_pred             CccEEEEECCCCCcHHHHHHHH
Confidence            4567889999999999999875

>1dek_A Deoxynucleoside monophosphate kinase; transferase, phosphotransferase; HET: DGP; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1 PDB: 1del_A*

Probab=89.50  E-value=0.21  Score=43.47  Aligned_cols=22  Identities=36%  Similarity=0.440  Sum_probs=19.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      .+|+|.|+.|+||||+|..+-.
T Consensus         2 ~~i~ltG~~~sGK~tv~~~l~~   23 (241)
T 1dek_A            2 KLIFLSGVKRSGKDTTADFIMS   23 (241)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            4899999999999999988855

>3kjh_A CO dehydrogenase/acetyl-COA synthase complex, accessory protein COOC; Zn-bound dimer, nickel binding protein, ATPase; 1.90A {Carboxydothermus hydrogenoformans} PDB: 3kjg_A* 3kje_A 3kji_A*

Probab=89.48  E-value=0.16  Score=44.01  Aligned_cols=40  Identities=23%  Similarity=0.148  Sum_probs=25.2

Q ss_pred             EEEEcCCCCcHHHHHHHHhccccccccccceEEEEecCCCCH
Q 038448          163 IPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDFDI  204 (385)
Q Consensus       163 i~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~  204 (385)
                      |+|.|-||+||||+|..+....... . ..++-|......+.
T Consensus         3 I~vs~kGGvGKTt~a~~LA~~la~~-g-~~VlliD~D~~~~l   42 (254)
T 3kjh_A            3 LAVAGKGGVGKTTVAAGLIKIMASD-Y-DKIYAVDGDPDSCL   42 (254)
T ss_dssp             EEEECSSSHHHHHHHHHHHHHHTTT-C-SCEEEEEECTTSCH
T ss_pred             EEEecCCCCCHHHHHHHHHHHHHHC-C-CeEEEEeCCCCcCh
Confidence            6668999999999998876542211 1 23455555444443

>3q9l_A Septum site-determining protein MIND; ATPase, bacterial cell division inhibitor, MINC, MINE, cell hydrolase; HET: ATP; 2.34A {Escherichia coli} PDB: 3r9i_A* 3r9j_A*

Probab=89.48  E-value=0.22  Score=43.49  Aligned_cols=23  Identities=26%  Similarity=0.387  Sum_probs=18.3

Q ss_pred             eEEEEEcC-CCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGT-GRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~-gGiGKTtLA~~v~~~  183 (385)
                      ++|+|+|. ||+||||+|..+..-
T Consensus         3 ~vi~v~s~kgGvGKTt~a~~LA~~   26 (260)
T 3q9l_A            3 RIIVVTSGKGGVGKTTSSAAIATG   26 (260)
T ss_dssp             EEEEEECSSTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCcHHHHHHHHHHH
Confidence            57888764 899999999877653

>3bk7_A ABC transporter ATP-binding protein; ABC ATPase, iron-sulfur cluster, adenosine diphosphate, nucleotide-binding; HET: ADP; 2.80A {Pyrococcus abyssi} PDB: 3j15_B*

Probab=89.40  E-value=0.19  Score=50.10  Aligned_cols=23  Identities=39%  Similarity=0.559  Sum_probs=20.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .+++|+|+.|+|||||.+.+..-
T Consensus       383 ei~~i~G~NGsGKSTLlk~l~Gl  405 (607)
T 3bk7_A          383 EVIGIVGPNGIGKTTFVKMLAGV  405 (607)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHTS
T ss_pred             CEEEEECCCCCCHHHHHHHHhcC
Confidence            36899999999999999999864

>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=89.39  E-value=0.22  Score=42.81  Aligned_cols=23  Identities=22%  Similarity=-0.003  Sum_probs=19.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .++.|+|..|+||||++..+.+.
T Consensus        13 ~i~litG~mGsGKTT~ll~~~~r   35 (223)
T 2b8t_A           13 WIEFITGPMFAGKTAELIRRLHR   35 (223)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHHH
T ss_pred             EEEEEECCCCCcHHHHHHHHHHH
Confidence            68899999999999999777654

>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET: ATP; 7.20A {Saccharomyces cerevisiae}

Probab=89.31  E-value=0.19  Score=50.00  Aligned_cols=23  Identities=30%  Similarity=0.505  Sum_probs=20.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .+++|+|+.|.|||||++.+..-
T Consensus       379 Eiv~iiG~NGsGKSTLlk~l~Gl  401 (608)
T 3j16_B          379 EILVMMGENGTGKTTLIKLLAGA  401 (608)
T ss_dssp             CEEEEESCTTSSHHHHHHHHHTS
T ss_pred             eEEEEECCCCCcHHHHHHHHhcC
Confidence            35899999999999999999863

>3cwq_A Para family chromosome partitioning protein; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative; HET: ADP; 2.47A {Synechocystis SP}

Probab=89.23  E-value=0.23  Score=42.09  Aligned_cols=41  Identities=17%  Similarity=0.012  Sum_probs=26.2

Q ss_pred             EEEEE-cCCCCcHHHHHHHHhccccccccccceEEEEecCCCCHH
Q 038448          162 VIPII-GTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDFDII  205 (385)
Q Consensus       162 vi~I~-G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~  205 (385)
                      +|+|+ +-||+||||+|..+..-.  ...= .++-|......+..
T Consensus         2 vI~v~s~KGGvGKTT~a~~LA~~l--a~~g-~VlliD~D~q~~~~   43 (209)
T 3cwq_A            2 IITVASFKGGVGKTTTAVHLSAYL--ALQG-ETLLIDGDPNRSAT   43 (209)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHHH--HTTS-CEEEEEECTTCHHH
T ss_pred             EEEEEcCCCCCcHHHHHHHHHHHH--HhcC-CEEEEECCCCCCHH
Confidence            56675 669999999998887642  2222 45666665544443

>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C

Probab=89.23  E-value=0.085  Score=44.14  Aligned_cols=23  Identities=22%  Similarity=0.501  Sum_probs=4.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      --|.|+|.+|+|||||...+...
T Consensus        21 ~~i~v~G~~~~GKssli~~l~~~   43 (208)
T 2yc2_C           21 CKVAVVGEATVGKSALISMFTSK   43 (208)
T ss_dssp             EEEEEC-----------------
T ss_pred             eEEEEECCCCCCHHHHHHHHHhC
Confidence            46889999999999999888765

>2gks_A Bifunctional SAT/APS kinase; transferase, sulfurylase; HET: ADP; 2.31A {Aquifex aeolicus}

Probab=89.18  E-value=0.21  Score=49.17  Aligned_cols=25  Identities=20%  Similarity=0.154  Sum_probs=21.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ...+|.+.|++|+||||+|+.+...
T Consensus       371 ~~~~I~l~G~~GsGKSTia~~La~~  395 (546)
T 2gks_A          371 QGFCVWLTGLPCAGKSTIAEILATM  395 (546)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             cceEEEccCCCCCCHHHHHHHHHHH
Confidence            3578999999999999999998763

>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET: ATP; 7.20A {Saccharomyces cerevisiae}

Probab=89.12  E-value=0.2  Score=49.83  Aligned_cols=22  Identities=32%  Similarity=0.545  Sum_probs=20.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      .+++|+|+.|+|||||.+.+..
T Consensus       104 ei~~LvGpNGaGKSTLLkiL~G  125 (608)
T 3j16_B          104 QVLGLVGTNGIGKSTALKILAG  125 (608)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHT
T ss_pred             CEEEEECCCCChHHHHHHHHhc
Confidence            6899999999999999999875

>2qag_A Septin-2, protein NEDD5; cell cycle, cell division, GTP-binding, nucleotide-binding, phosphorylation, acetylation, alternative splicing, coiled coil; HET: GDP GTP; 4.00A {Homo sapiens}

Probab=89.01  E-value=0.17  Score=46.95  Aligned_cols=22  Identities=23%  Similarity=0.496  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcc
Q 038448          162 VIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      -|+|+|.+|+|||||...++..
T Consensus        39 ~I~vvG~~g~GKSTLln~L~~~   60 (361)
T 2qag_A           39 TLMVVGESGLGKSTLINSLFLT   60 (361)
T ss_dssp             CEEECCCTTSCHHHHHHHHTTC
T ss_pred             EEEEEcCCCCCHHHHHHHHhCC
Confidence            4689999999999999998764

>4i1u_A Dephospho-COA kinase; structural genomics, niaid, national institute of allergy AN infectious diseases; 2.05A {Burkholderia vietnamiensis} PDB: 4i1v_A*

Probab=89.00  E-value=0.22  Score=42.39  Aligned_cols=25  Identities=32%  Similarity=0.312  Sum_probs=21.5

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHhc
Q 038448          158 DGLSVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       158 ~~~~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      ...-.|+++|.-|+||||+++.+..
T Consensus         7 ~~~~~iglTGgigsGKStv~~~l~~   31 (210)
T 4i1u_A            7 HHMYAIGLTGGIGSGKTTVADLFAA   31 (210)
T ss_dssp             CSCCEEEEECCTTSCHHHHHHHHHH
T ss_pred             cceeEEEEECCCCCCHHHHHHHHHH
Confidence            4567899999999999999998754

>3r7w_A Gtpase1, GTP-binding protein GTR1; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} PDB: 4arz_A*

Probab=88.89  E-value=0.23  Score=44.93  Aligned_cols=23  Identities=22%  Similarity=0.537  Sum_probs=20.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .-|.++|.+|+|||||...+...
T Consensus         4 ~KI~lvG~~~vGKSSLi~~l~~~   26 (307)
T 3r7w_A            4 SKLLLMGRSGSGKSSMRSIIFSN   26 (307)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHSC
T ss_pred             eEEEEECCCCCCHHHHHHHHHhC
Confidence            45789999999999999998765

---

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	385
d2a5yb3	277	c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenor	2e-25

>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 =  101 bits (253), Expect = 2e-25
 Identities = 23/215 (10%), Positives = 54/215 (25%), Gaps = 32/215 (14%)

Query: 139 DKEKEETVKLLLRDDLRTDDGLSVIPIIGTGRIGKTTLAQLAYSDVR--VHNHFDLKAWT 196
           +   +  +K L       D     + + G    GK+ +A  A S     +  ++D   W 
Sbjct: 26  EYHVDRVIKKLDEMC---DLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWL 82

Query: 197 CVSEDFDIIRVTKSILKSIASDQLVDDHDLNLLQKYNDWTNRSRLFEA------------ 244
             S               +      D  +   ++       +  +  A            
Sbjct: 83  KDSGTAPKSTFDLFTDILLMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVFD 142

Query: 245 -----------GAPGSKIVFTTRNLGVAEKM-GPLPAYPLKELSNDDCLSVFSPHSLGEK 292
                           + + TTR++ ++           +  L  D+C      + +   
Sbjct: 143 DVVQEETIRWAQELRLRCLVTTRDVEISNAASQTCEFIEVTSLEIDECYDFLEAYGMPMP 202

Query: 293 DFSTHPSLKEIGEKIVKKCNGLPLVAKSLGGLLRG 327
                    ++  K ++  +G P            
Sbjct: 203 VGEKEE---DVLNKTIELSSGNPATLMMFFKSCEP 234

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	385
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	99.96
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	98.48
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	98.07
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	97.96
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	97.94
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	97.91
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	97.89
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	97.88
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	97.82
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	97.7
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	97.68
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	97.65
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	97.64
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	97.64
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	97.63
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	97.58
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	97.51
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	97.31
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	97.28
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	97.1
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	97.09
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	97.05
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	97.02
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	97.01
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	96.99
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	96.98
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	96.98
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	96.93
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	96.82
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	96.81
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	96.81
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	96.78
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	96.69
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	96.68
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	96.66
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	96.64
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	96.64
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	96.61
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	96.6
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	96.57
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	96.52
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	96.52
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	96.44
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	96.44
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	96.4
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	96.32
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	96.28
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	96.19
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	96.17
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	96.05
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	96.03
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	95.97
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	95.92
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	95.86
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	95.81
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	95.8
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	95.77
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	95.74
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	95.62
d2gnoa2	198	gamma subunit of DNA polymerase III, N-domain {The	95.61
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	95.61
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	95.61
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	95.57
d2qy9a2	211	GTPase domain of the signal recognition particle r	95.53
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	95.52
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	95.5
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	95.48
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	95.48
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	95.45
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	95.44
d1cp2a_	269	Nitrogenase iron protein {Clostridium pasteurianum	95.4
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	95.4
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	95.33
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	95.32
d1okkd2	207	GTPase domain of the signal recognition particle r	95.31
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	95.27
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	95.26
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	95.24
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	95.22
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	95.1
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	95.09
d1ihua2	279	Arsenite-translocating ATPase ArsA {Escherichia co	95.07
d1ls1a2	207	GTPase domain of the signal sequence recognition p	95.05
d1j8yf2	211	GTPase domain of the signal sequence recognition p	95.01
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	94.98
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	94.97
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	94.96
d1vmaa2	213	GTPase domain of the signal recognition particle r	94.94
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	94.9
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	94.89
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	94.88
d1g2912	240	Maltose transport protein MalK, N-terminal domain	94.82
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	94.73
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	94.7
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	94.67
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	94.65
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	94.61
d2afhe1	289	Nitrogenase iron protein {Azotobacter vinelandii [	94.61
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	94.49
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	94.48
d1ihua1	296	Arsenite-translocating ATPase ArsA {Escherichia co	94.47
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	94.45
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	94.43
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	94.4
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	94.36
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	94.36
d2awna2	232	Maltose transport protein MalK, N-terminal domain	94.35
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	94.28
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	94.25
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	94.24
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	94.18
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	94.18
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	94.18
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	94.16
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	94.09
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	94.05
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	94.03
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	94.02
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	93.96
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	93.86
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	93.81
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	93.81
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	93.79
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	93.79
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	93.78
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	93.77
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	93.76
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	93.76
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	93.72
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	93.7
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	93.7
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	93.67
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	93.66
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	93.62
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	93.62
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	93.59
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	93.58
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	93.56
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	93.54
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	93.53
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	93.5
d1nrjb_	209	Signal recognition particle receptor beta-subunit	93.47
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	93.46
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	93.45
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	93.45
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	93.44
d1hyqa_	232	Cell division regulator MinD {Archaeon Archaeoglob	93.43
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	93.42
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	93.37
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	93.36
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	93.34
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	93.31
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	93.3
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	93.26
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	93.25
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	93.25
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	93.23
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	93.22
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	93.19
d2fh5b1	207	Signal recognition particle receptor beta-subunit	93.13
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	93.11
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	93.1
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	93.08
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	93.08
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	93.0
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	92.91
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	92.82
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	92.79
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	92.76
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	92.74
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	92.72
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	92.66
d1g3qa_	237	Cell division regulator MinD {Archaeon Pyrococcus	92.66
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	92.64
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	92.63
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	92.62
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	92.62
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	92.62
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	92.61
d1deka_	241	Deoxynucleoside monophosphate kinase {Bacteriophag	92.59
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	92.56
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	92.54
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	92.5
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	92.48
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	92.48
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	92.47
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	92.47
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	92.41
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	92.31
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	92.3
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	92.09
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	92.07
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	92.05
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	92.02
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	91.89
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	91.87
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	91.77
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	91.68
d1tmka_	214	Thymidylate kinase {Baker's yeast (Saccharomyces c	91.63
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	91.33
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	90.97
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	90.94
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	90.79
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	90.77
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	90.74
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	90.6
d1kkma_	176	HPr kinase HprK C-terminal domain {Lactobacillus c	90.53
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	90.47
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	90.42
d1knxa2	177	HPr kinase HprK C-terminal domain {Mycoplasma pneu	90.42
d1byia_	224	Dethiobiotin synthetase {Escherichia coli [TaxId:	90.2
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	89.92
d1ko7a2	169	HPr kinase HprK C-terminal domain {Staphylococcus	89.79
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	89.52
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	89.02
d1ny5a2	247	Transcriptional activator sigm54 (NtrC1), C-termin	88.99
d1w36d1	359	Exodeoxyribonuclease V alpha chain (RecD) {Escheri	88.86
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	88.78
d1g7sa4	227	Initiation factor IF2/eIF5b, N-terminal (G) domain	88.22
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	87.77
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	86.92
d1xpua3	289	Transcription termination factor Rho, ATPase domai	86.73
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	86.62
d1p6xa_	333	Thymidine kinase {Equine herpesvirus type 4 [TaxId	85.91
d2jdid3	276	Central domain of beta subunit of F1 ATP synthase	85.88
d1e2ka_	329	Thymidine kinase {Herpes simplex virus type 1, dif	85.31
d1f5na2	277	Interferon-induced guanylate-binding protein 1 (GB	85.11
g1ii8.1	369	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	84.78
d1tuea_	205	Replication protein E1 helicase domain {Human papi	84.77
d1tq4a_	400	Interferon-inducible GTPase {Mouse (Mus musculus)	84.68
d1a1va1	136	HCV helicase domain {Human hepatitis C virus (HCV)	84.28
d1jala1	278	YchF GTP-binding protein N-terminal domain {Haemop	83.81
d2c78a3	204	Elongation factor Tu (EF-Tu), N-terminal (G) domai	82.78
d1qhla_	222	Cell division protein MukB {Escherichia coli [TaxI	82.73
d1osna_	331	Thymidine kinase {Varicella-zoster virus [TaxId: 1	82.11
d1uaaa1	306	DEXX box DNA helicase {Escherichia coli, RepD [Tax	82.11
d1pjra1	318	DEXX box DNA helicase {Bacillus stearothermophilus	81.96
g1xew.1	329	Smc head domain {Pyrococcus furiosus [TaxId: 2261]	81.76
d1n0ua2	341	Elongation factor 2 (eEF-2), N-terminal (G) domain	81.39
d1fx0a3	276	Central domain of alpha subunit of F1 ATP synthase	81.19
d1puja_	273	Probable GTPase YlqF {Bacillus subtilis [TaxId: 14	80.66
d1ni3a1	296	YchF GTP-binding protein N-terminal domain {Fissio	80.26
d1wxqa1	319	GTP-binding protein PH0525 {Pyrococcus horikoshii	80.01

>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=99.96  E-value=1.6e-29  Score=228.59  Aligned_cols=199  Identities=15%  Similarity=0.120  Sum_probs=140.7

Q ss_pred             hhhHHHHHHHHhcCCCCCCCCceEEEEEcCCCCcHHHHHHHHhcccc--ccccccceEEEEecCCCCHHHHHHHHHHHhh
Q 038448          139 DKEKEETVKLLLRDDLRTDDGLSVIPIIGTGRIGKTTLAQLAYSDVR--VHNHFDLKAWTCVSEDFDIIRVTKSILKSIA  216 (385)
Q Consensus       139 ~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~--~~~~F~~~~wv~vs~~~~~~~~~~~il~~l~  216 (385)
                      +.++++|+++|...   .+.+.++|+|+||||+||||||+++|++..  ...+|++++||++++.++...+...+...+.
T Consensus        26 ~~~~~~i~~~L~~~---~~~~~~~v~I~GmgGiGKTtLA~~v~~~~~~~~~~~f~~~~Wv~vs~~~~~~~l~~~~~~~~~  102 (277)
T d2a5yb3          26 EYHVDRVIKKLDEM---CDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGTAPKSTFDLFTDILLM  102 (277)
T ss_dssp             HHHHHHHHHHHHHH---TTSSSEEEEEECSTTSSHHHHHHHHHHHCSSTBTTTBSEEEEEECCCCSTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhc---cCCCceEEEEECCCCCCHHHHHHHHHHhhhhhhhhcCceEEEEEecCCCCHHHHHHHHHHHHH
Confidence            56677888888653   234678999999999999999999998643  6778999999999999887777666544432


Q ss_pred             ---cCCCC----CccchHH----------hh-------chhhHhhH-hhhccCCCCCcEEEEEcCChhHHhhcCCC-Ccc
Q 038448          217 ---SDQLV----DDHDLNL----------LQ-------KYNDWTNR-SRLFEAGAPGSKIVFTTRNLGVAEKMGPL-PAY  270 (385)
Q Consensus       217 ---~~~~~----~~~~~~~----------l~-------~~~~w~~l-~~~l~~~~~gs~IivTTR~~~va~~~~~~-~~~  270 (385)
                         .....    .....+.          +.       -++.|+.. ...+  ...||+||||||+..++..+... ..|
T Consensus       103 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~kr~LlVLDDv~~~~~~~~~--~~~~srilvTTR~~~v~~~~~~~~~~~  180 (277)
T d2a5yb3         103 LKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVVQEETIRWA--QELRLRCLVTTRDVEISNAASQTCEFI  180 (277)
T ss_dssp             HTTTSCCTTCCCCTTCCHHHHHHHHHHHHTTSTTEEEEEEEECCHHHHHHH--HHTTCEEEEEESBGGGGGGCCSCEEEE
T ss_pred             HhcchhhcCCccchhhhhHHHHHHHHHHHhccCCeeEecchhhHHhhhhhh--cccCceEEEEeehHHHHHhcCCCCceE
Confidence               22111    0111110          01       23334321 1111  23589999999999999887654 679


Q ss_pred             cCCCCChhhHHhhhhccccCCCCCCCCccHHHHHHHHHHHcCCChHHHHHHHHHhhcccCCCCccCcHHHHHHHHHHHHH
Q 038448          271 PLKELSNDDCLSVFSPHSLGEKDFSTHPSLKEIGEKIVKKCNGLPLVAKSLGGLLRGFLNHESDKKQMENLGRKYFQELY  350 (385)
Q Consensus       271 ~l~~L~~~~a~~Lf~~~a~~~~~~~~~~~l~~~~~~i~~~c~glPLAi~~~~~~L~g~~~~~~~~~~~e~~~~~~~~~Lv  350 (385)
                      +|++|+.++||+||..++|....   .+...+++++|+++|+|+||||+++|+.|++        ++.+. ..+..++|-
T Consensus       181 ~l~~L~~~ea~~Lf~~~~~~~~~---~~~~~~~~~~iv~~c~GlPLAl~~ig~~l~~--------k~~~~-~~~~~~~L~  248 (277)
T d2a5yb3         181 EVTSLEIDECYDFLEAYGMPMPV---GEKEEDVLNKTIELSSGNPATLMMFFKSCEP--------KTFEK-MAQLNNKLE  248 (277)
T ss_dssp             ECCCCCHHHHHHHHHHTSCCCC-----CHHHHHHHHHHHHHTTCHHHHHHHHTTCCS--------SSHHH-HHHHHHHHH
T ss_pred             ECCCCCHHHHHHHHHHHhCCccC---chhhHHHHHHHHHHhCCCHHHHHHHHHHhcc--------CCHHH-HHHHHHHHh
Confidence            99999999999999999876432   3456788999999999999999999999842        23333 345666776


Q ss_pred             hccc
Q 038448          351 SRLF  354 (385)
Q Consensus       351 ~rsl  354 (385)
                      ++++
T Consensus       249 ~~~~  252 (277)
T d2a5yb3         249 SRGL  252 (277)
T ss_dssp             HHCS
T ss_pred             cCcH
Confidence            6544

>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=98.48  E-value=5.6e-08  Score=85.25  Aligned_cols=52  Identities=17%  Similarity=0.215  Sum_probs=37.3

Q ss_pred             cccCCCCChhhHHhhhhccccCCCCCCCCccHHHHHHHHHHHcCCChHHHHHHHHHhh
Q 038448          269 AYPLKELSNDDCLSVFSPHSLGEKDFSTHPSLKEIGEKIVKKCNGLPLVAKSLGGLLR  326 (385)
Q Consensus       269 ~~~l~~L~~~~a~~Lf~~~a~~~~~~~~~~~l~~~~~~i~~~c~glPLAi~~~~~~L~  326 (385)
                      .+.|.+++.+++.+++.+..-. ... ..+.    ..+|++.++|.|..+..++..+.
T Consensus       202 ~i~L~~l~~~e~~~~l~~~~~~-~~~-~~~~----~~~i~~~~~G~P~~L~~~~~~~~  253 (283)
T d2fnaa2         202 TVELKPFSREEAIEFLRRGFQE-ADI-DFKD----YEVVYEKIGGIPGWLTYFGFIYL  253 (283)
T ss_dssp             EEEECCCCHHHHHHHHHHHHHH-HTC-CCCC----HHHHHHHHCSCHHHHHHHHHHHH
T ss_pred             EEeeCCCCHHHHHHHHHhhhhh-cCC-CHHH----HHHHHHHhCCCHHHHHHHHHHHH
Confidence            4689999999999988765311 111 1122    46899999999999999887653

>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=98.07  E-value=1.6e-05  Score=68.73  Aligned_cols=60  Identities=10%  Similarity=0.025  Sum_probs=42.5

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHhcccccccccc-ceEEEEecCCCCHHHHHHHHHHHhhcCC
Q 038448          158 DGLSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFD-LKAWTCVSEDFDIIRVTKSILKSIASDQ  219 (385)
Q Consensus       158 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~-~~~wv~vs~~~~~~~~~~~il~~l~~~~  219 (385)
                      .....+.|+|++|+||||+|+.+++.  ....+. ..+|+...........+..+........
T Consensus        41 ~~~~~lll~GppGtGKT~l~~~l~~~--l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  101 (276)
T d1fnna2          41 HHYPRATLLGRPGTGKTVTLRKLWEL--YKDKTTARFVYINGFIYRNFTAIIGEIARSLNIPF  101 (276)
T ss_dssp             SSCCEEEEECCTTSSHHHHHHHHHHH--HTTSCCCEEEEEETTTCCSHHHHHHHHHHHTTCCC
T ss_pred             CCCCceEEECCCCCCHHHHHHHHHHH--HhcccCCcEEEecchhhhhhhhhhhhhHHhhhhhh
Confidence            35678999999999999999999875  333332 2356666666667777777777665543

>d1sxjb2 c.37.1.20 (B:7-230) Replication factor C4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.96  E-value=1.1e-05  Score=68.11  Aligned_cols=165  Identities=15%  Similarity=0.063  Sum_probs=87.5

Q ss_pred             hHHHHHHHHhcCCCCCCCCceEEEEEcCCCCcHHHHHHHHhccccccccc-c-ceEEEEecCCCCHHHHHHHHHHHhhcC
Q 038448          141 EKEETVKLLLRDDLRTDDGLSVIPIIGTGRIGKTTLAQLAYSDVRVHNHF-D-LKAWTCVSEDFDIIRVTKSILKSIASD  218 (385)
Q Consensus       141 ~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F-~-~~~wv~vs~~~~~~~~~~~il~~l~~~  218 (385)
                      -++.+.+|+...      ...-+.++|++|+||||+|+.+.+.  +...+ . ...-++.+...+...+...+.......
T Consensus        23 ~~~~L~~~~~~~------~~~~~ll~Gp~G~GKTt~a~~la~~--l~~~~~~~~~~~~n~~~~~~~~~i~~~~~~~~~~~   94 (224)
T d1sxjb2          23 TIDRLQQIAKDG------NMPHMIISGMPGIGKTTSVHCLAHE--LLGRSYADGVLELNASDDRGIDVVRNQIKHFAQKK   94 (224)
T ss_dssp             HHHHHHHHHHSC------CCCCEEEECSTTSSHHHHHHHHHHH--HHGGGHHHHEEEECTTSCCSHHHHHTHHHHHHHBC
T ss_pred             HHHHHHHHHHcC------CCCeEEEECCCCCCchhhHHHHHHH--HhccccccccccccccccCCceehhhHHHHHHHhh
Confidence            345566666443      2334779999999999999988764  22111 1 233344555444444433333322222


Q ss_pred             CCCCcc-----chHHhh--chhhHhhHhhhccCCCCCcEEEEEcCCh-hHHhhc-CCCCcccCCCCChhhHHhhhhcccc
Q 038448          219 QLVDDH-----DLNLLQ--KYNDWTNRSRLFEAGAPGSKIVFTTRNL-GVAEKM-GPLPAYPLKELSNDDCLSVFSPHSL  289 (385)
Q Consensus       219 ~~~~~~-----~~~~l~--~~~~w~~l~~~l~~~~~gs~IivTTR~~-~va~~~-~~~~~~~l~~L~~~~a~~Lf~~~a~  289 (385)
                      ......     -+++..  .......+...+......+++++||.+. .+...+ +....+++.+++.++-...+.+.+.
T Consensus        95 ~~~~~~~~kviiiDe~d~~~~~~~~~ll~~~e~~~~~~~~i~~~~~~~~i~~~l~sr~~~i~~~~~~~~~i~~~l~~i~~  174 (224)
T d1sxjb2          95 LHLPPGKHKIVILDEADSMTAGAQQALRRTMELYSNSTRFAFACNQSNKIIEPLQSQCAILRYSKLSDEDVLKRLLQIIK  174 (224)
T ss_dssp             CCCCTTCCEEEEEESGGGSCHHHHHTTHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEEEECCCCCHHHHHHHHHHHHH
T ss_pred             ccCCCcceEEEEEecccccchhHHHHHhhhccccccceeeeeccCchhhhhhHHHHHHHHhhhcccchhhhHHHHHHHHH
Confidence            110000     011111  2223333444444445566666666543 332222 2235689999999998888876542


Q ss_pred             CCCCCCCCccHHHHHHHHHHHcCCChHH
Q 038448          290 GEKDFSTHPSLKEIGEKIVKKCNGLPLV  317 (385)
Q Consensus       290 ~~~~~~~~~~l~~~~~~i~~~c~glPLA  317 (385)
                      ... ...+   .+....|++.|+|-+--
T Consensus       175 ~e~-~~i~---~~~l~~I~~~s~Gd~R~  198 (224)
T d1sxjb2         175 LED-VKYT---NDGLEAIIFTAEGDMRQ  198 (224)
T ss_dssp             HHT-CCBC---HHHHHHHHHHHTTCHHH
T ss_pred             hcc-cCCC---HHHHHHHHHHcCCcHHH
Confidence            211 1111   35678899999998743

>d1sxjc2 c.37.1.20 (C:12-238) Replication factor C3 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C3
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.94  E-value=2.7e-05  Score=65.74  Aligned_cols=165  Identities=13%  Similarity=0.083  Sum_probs=86.0

Q ss_pred             hHHHHHHHHhcCCCCCCCCceEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecCCCCHHHHHHHHHHHhhcCCC
Q 038448          141 EKEETVKLLLRDDLRTDDGLSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDFDIIRVTKSILKSIASDQL  220 (385)
Q Consensus       141 ~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~il~~l~~~~~  220 (385)
                      .++.+.+|+....      ...+-++|++|+||||+|+.+.+............-++.+...+.......+.........
T Consensus        22 ~~~~L~~~i~~~~------~~~lLl~Gp~G~GKttl~~~la~~l~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~   95 (227)
T d1sxjc2          22 VITTVRKFVDEGK------LPHLLFYGPPGTGKTSTIVALAREIYGKNYSNMVLELNASDDRGIDVVRNQIKDFASTRQI   95 (227)
T ss_dssp             HHHHHHHHHHTTC------CCCEEEECSSSSSHHHHHHHHHHHHHTTSHHHHEEEECTTSCCSHHHHHTHHHHHHHBCCS
T ss_pred             HHHHHHHHHHcCC------CCeEEEECCCCCChhHHHHHHHHHhhcCCCcceeEEecccccCCeeeeecchhhccccccc
Confidence            3455566664432      2346799999999999999998742111111122223334444443332222222221111


Q ss_pred             CC----ccchHHhh--chhhHhhHhhhccCCCCCcEEEEEcCCh-hHHhhc-CCCCcccCCCCChhhHHhhhhccccCCC
Q 038448          221 VD----DHDLNLLQ--KYNDWTNRSRLFEAGAPGSKIVFTTRNL-GVAEKM-GPLPAYPLKELSNDDCLSVFSPHSLGEK  292 (385)
Q Consensus       221 ~~----~~~~~~l~--~~~~w~~l~~~l~~~~~gs~IivTTR~~-~va~~~-~~~~~~~l~~L~~~~a~~Lf~~~a~~~~  292 (385)
                      ..    .--++++.  ....-..+...+......+.++++|... .+...+ .....+.+.+++.++-..++.+.+....
T Consensus        96 ~~~~~kiiiiDe~d~~~~~~~~~Ll~~le~~~~~~~~~~~~~~~~~i~~~i~sr~~~i~~~~~~~~~i~~~l~~I~~~e~  175 (227)
T d1sxjc2          96 FSKGFKLIILDEADAMTNAAQNALRRVIERYTKNTRFCVLANYAHKLTPALLSQCTRFRFQPLPQEAIERRIANVLVHEK  175 (227)
T ss_dssp             SSCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHTTT
T ss_pred             cCCCeEEEEEeccccchhhHHHHHHHHhhhcccceeeccccCcHHHhHHHHHHHHhhhcccccccccccccccccccccc
Confidence            00    11122222  1222233555555555677777777653 222222 2235688999999998887776543221


Q ss_pred             CCCCCccHHHHHHHHHHHcCCCh
Q 038448          293 DFSTHPSLKEIGEKIVKKCNGLP  315 (385)
Q Consensus       293 ~~~~~~~l~~~~~~i~~~c~glP  315 (385)
                       ...+   .+....|++.++|-.
T Consensus       176 -i~i~---~~~l~~i~~~s~Gd~  194 (227)
T d1sxjc2         176 -LKLS---PNAEKALIELSNGDM  194 (227)
T ss_dssp             -CCBC---HHHHHHHHHHHTTCH
T ss_pred             -ccCC---HHHHHHHHHHcCCcH
Confidence             1111   356788999999864

>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=97.91  E-value=5.1e-05  Score=64.53  Aligned_cols=54  Identities=15%  Similarity=-0.012  Sum_probs=34.4

Q ss_pred             CcccCCCCChhhHHhhhhccccCCCCCCCCccHHHHHHHHHHHcCCChHHHHHHHHHh
Q 038448          268 PAYPLKELSNDDCLSVFSPHSLGEKDFSTHPSLKEIGEKIVKKCNGLPLVAKSLGGLL  325 (385)
Q Consensus       268 ~~~~l~~L~~~~a~~Lf~~~a~~~~~~~~~~~l~~~~~~i~~~c~glPLAi~~~~~~L  325 (385)
                      ..+.+...+.++...++...+.... .   ....+....|++.++|.+-.+..+....
T Consensus       158 ~~~~~~~~~~~~~~~i~~~~~~~~~-i---~~~~~~l~~ia~~s~gd~R~a~~~l~~~  211 (239)
T d1ixsb2         158 IVEHLEYYTPEELAQGVMRDARLLG-V---RITEEAALEIGRRSRGTMRVAKRLFRRV  211 (239)
T ss_dssp             EEEECCCCCHHHHHHHHHHHHGGGC-C---CBCHHHHHHHHHHTTSSHHHHHHHHHHH
T ss_pred             eeeEeeccChhhhhHHHHHHHHHhC-C---ccchHHHHHHHHHcCCCHHHHHHHHHHH
Confidence            4577888888888777665542211 1   1225678899999999876554443333

>d1in4a2 c.37.1.20 (A:17-254) Holliday junction helicase RuvB {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermotoga maritima [TaxId: 2336]

Probab=97.89  E-value=3.7e-05  Score=65.34  Aligned_cols=152  Identities=16%  Similarity=0.123  Sum_probs=74.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecCCCCHHHHHHHHHHHhhcCCCCCccchHHhh---------
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDFDIIRVTKSILKSIASDQLVDDHDLNLLQ---------  230 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~il~~l~~~~~~~~~~~~~l~---------  230 (385)
                      .+-+.++|++|+||||+|+.+.+.  ....   .+.++.+.......+ ..++...........+..+.+.         
T Consensus        35 ~~~~L~~GPpGtGKT~lA~~la~~--~~~~---~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~ide~~~~~~~~~~~l~~  108 (238)
T d1in4a2          35 LDHVLLAGPPGLGKTTLAHIIASE--LQTN---IHVTSGPVLVKQGDM-AAILTSLERGDVLFIDEIHRLNKAVEELLYS  108 (238)
T ss_dssp             CCCEEEESSTTSSHHHHHHHHHHH--HTCC---EEEEETTTCCSHHHH-HHHHHHCCTTCEEEEETGGGCCHHHHHHHHH
T ss_pred             CCeEEEECCCCCcHHHHHHHHHhc--cCCC---cccccCcccccHHHH-HHHHHhhccCCchHHHHHHHhhhHHHhhccc
Confidence            345779999999999999999874  2222   334554444444433 3344433222111111222111         


Q ss_pred             chhhHh--------hHhhhccCCCCCcEEEEEcCCh-hHHhh--cCCCCcccCCCCChhhHHhhhhccccCCCCCCCCcc
Q 038448          231 KYNDWT--------NRSRLFEAGAPGSKIVFTTRNL-GVAEK--MGPLPAYPLKELSNDDCLSVFSPHSLGEKDFSTHPS  299 (385)
Q Consensus       231 ~~~~w~--------~l~~~l~~~~~gs~IivTTR~~-~va~~--~~~~~~~~l~~L~~~~a~~Lf~~~a~~~~~~~~~~~  299 (385)
                      ..+...        ..........+...+|.+|... .....  ......+.++..+.++...++...+.....    ..
T Consensus       109 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~I~at~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~l~~~~~~~~~----~~  184 (238)
T d1in4a2         109 AIEDFQIDIMIGKGPSAKSIRIDIQPFTLVGATTRSGLLSSPLRSRFGIILELDFYTVKELKEIIKRAASLMDV----EI  184 (238)
T ss_dssp             HHHTSCCCC---------------CCCEEEEEESCGGGSCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHTTC----CB
T ss_pred             ceeeeeeeeeecCcccccccccCCCCeEEEEecCCCccccccceeeeeEEEEecCCCHHHHHHHHHHhhhhccc----hh
Confidence            000000        0000000112233455555443 33221  122245689999999988888765422211    12


Q ss_pred             HHHHHHHHHHHcCCChHHHHHH
Q 038448          300 LKEIGEKIVKKCNGLPLVAKSL  321 (385)
Q Consensus       300 l~~~~~~i~~~c~glPLAi~~~  321 (385)
                      ..+....|++.++|.+-.+..+
T Consensus       185 ~~~~l~~i~~~s~gd~R~ai~~  206 (238)
T d1in4a2         185 EDAAAEMIAKRSRGTPRIAIRL  206 (238)
T ss_dssp             CHHHHHHHHHTSTTCHHHHHHH
T ss_pred             hHHHHHHHHHhCCCCHHHHHHH
Confidence            2456788899999987655443

>d1sxjd2 c.37.1.20 (D:26-262) Replication factor C2 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C2
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.88  E-value=1.7e-05  Score=67.36  Aligned_cols=169  Identities=14%  Similarity=0.076  Sum_probs=87.0

Q ss_pred             HHHHHHHHhcCCCCCCCCceEEEEEcCCCCcHHHHHHHHhccccccc-cccceEEEEecCCCCHHHHHHHHHHHhhcCCC
Q 038448          142 KEETVKLLLRDDLRTDDGLSVIPIIGTGRIGKTTLAQLAYSDVRVHN-HFDLKAWTCVSEDFDIIRVTKSILKSIASDQL  220 (385)
Q Consensus       142 ~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~-~F~~~~wv~vs~~~~~~~~~~~il~~l~~~~~  220 (385)
                      ++.+.+|+...      ....+.++|++|+||||+|+.+++.-.-.. .......++.+.......+...+ ........
T Consensus        21 ~~~l~~~i~~~------~~~~lll~Gp~G~GKTtl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~   93 (237)
T d1sxjd2          21 VTVLKKTLKSA------NLPHMLFYGPPGTGKTSTILALTKELYGPDLMKSRILELNASDERGISIVREKV-KNFARLTV   93 (237)
T ss_dssp             HHHHHHHTTCT------TCCCEEEECSTTSSHHHHHHHHHHHHHHHHHHTTSEEEECSSSCCCHHHHTTHH-HHHHHSCC
T ss_pred             HHHHHHHHHcC------CCCeEEEECCCCCChHHHHHHHHHHHcCCcccccchhheeccccccchHHHHHH-HHHhhhhh
Confidence            45566666332      334478999999999999999987421111 11223344444444443333222 22211111


Q ss_pred             CC--c-------------cchHHhh--chhhHhhHhhhccCCCCCcEEEEEcCCh-hHHhhcC-CCCcccCCCCChhhHH
Q 038448          221 VD--D-------------HDLNLLQ--KYNDWTNRSRLFEAGAPGSKIVFTTRNL-GVAEKMG-PLPAYPLKELSNDDCL  281 (385)
Q Consensus       221 ~~--~-------------~~~~~l~--~~~~w~~l~~~l~~~~~gs~IivTTR~~-~va~~~~-~~~~~~l~~L~~~~a~  281 (385)
                      ..  .             --++++.  ....+..+...+.......++|+||... .+..... ....+++.+++.++..
T Consensus        94 ~~~~~~~~~~~~~~~~~viiiDe~d~l~~~~~~~l~~~~~~~~~~~~~i~~~~~~~~~~~~l~sr~~~i~f~~~~~~~~~  173 (237)
T d1sxjd2          94 SKPSKHDLENYPCPPYKIIILDEADSMTADAQSALRRTMETYSGVTRFCLICNYVTRIIDPLASQCSKFRFKALDASNAI  173 (237)
T ss_dssp             CCCCTTHHHHSCCCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHHSEEEECCCCCHHHHH
T ss_pred             hhhhHHHHhhccccCceEEEEecccccCHHHHHHHhhccccccccccccccccccccccccccchhhhhccccccccccc
Confidence            00  0             0011111  2233344444444445556677665542 2222111 1256889999999999


Q ss_pred             hhhhccccCCCCCCCCccHHHHHHHHHHHcCCCh-HHHHHH
Q 038448          282 SVFSPHSLGEKDFSTHPSLKEIGEKIVKKCNGLP-LVAKSL  321 (385)
Q Consensus       282 ~Lf~~~a~~~~~~~~~~~l~~~~~~i~~~c~glP-LAi~~~  321 (385)
                      .++.+.+.... ...+   .+..+.|++.++|-+ .|+..+
T Consensus       174 ~~L~~i~~~e~-i~i~---~~~l~~ia~~s~gd~R~ai~~L  210 (237)
T d1sxjd2         174 DRLRFISEQEN-VKCD---DGVLERILDISAGDLRRGITLL  210 (237)
T ss_dssp             HHHHHHHHTTT-CCCC---HHHHHHHHHHTSSCHHHHHHHH
T ss_pred             hhhhhhhhhhc-CcCC---HHHHHHHHHHcCCCHHHHHHHH
Confidence            88877653322 1111   356788999998754 555544

>d1jbka_ c.37.1.20 (A:) ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=97.82  E-value=7.8e-05  Score=60.86  Aligned_cols=139  Identities=15%  Similarity=0.104  Sum_probs=81.3

Q ss_pred             hhhhHHHHHHHHhcCCCCCCCCceEEEEEcCCCCcHHHHHHHHhccc---ccccc-ccceEEE-E----ecCCC---CHH
Q 038448          138 KDKEKEETVKLLLRDDLRTDDGLSVIPIIGTGRIGKTTLAQLAYSDV---RVHNH-FDLKAWT-C----VSEDF---DII  205 (385)
Q Consensus       138 ~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~---~~~~~-F~~~~wv-~----vs~~~---~~~  205 (385)
                      ++++.++++..|.....      .-+.++|.+|+|||+++..+....   .+... .+..+|. +    ++...   ..+
T Consensus        27 Rd~Ei~~l~~iL~r~~k------~n~lLvG~pGVGKTalv~~LA~ri~~~~vp~~L~~~~i~~ld~~~LiAg~~~rG~~E  100 (195)
T d1jbka_          27 RDEEIRRTIQVLQRRTK------NNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMGALVAGAKYRGEFE  100 (195)
T ss_dssp             CHHHHHHHHHHHTSSSS------CEEEEECCTTSCHHHHHHHHHHHHHHTCSCGGGTTCEEEEECHHHHHTTTCSHHHHH
T ss_pred             cHHHHHHHHHHHhccCC------CCeEEEecCCcccHHHHHHHHHHHHhCCCCHHHcCceEEEeeHHHHhccCCccHHHH
Confidence            36778888888866432      456799999999999987666432   22222 2445553 3    22221   456


Q ss_pred             HHHHHHHHHhhcCCCC---CccchHHhh-------chhhHhhHhhhccCCCCCcEEEEEcCChhHHhhcCCC-------C
Q 038448          206 RVTKSILKSIASDQLV---DDHDLNLLQ-------KYNDWTNRSRLFEAGAPGSKIVFTTRNLGVAEKMGPL-------P  268 (385)
Q Consensus       206 ~~~~~il~~l~~~~~~---~~~~~~~l~-------~~~~w~~l~~~l~~~~~gs~IivTTR~~~va~~~~~~-------~  268 (385)
                      .-++.++..+......   ..+++..+-       ..+.-+-+++++..  ..-++|.||..++....+...       .
T Consensus       101 ~rl~~il~e~~~~~~~iILfIDeih~l~~~g~~~g~~d~~~~Lkp~L~r--g~l~~IgatT~eey~~~~e~d~aL~rrF~  178 (195)
T d1jbka_         101 ERLKGVLNDLAKQEGNVILFIDELHTMVGAGKADGAMDAGNMLKPALAR--GELHCVGATTLDEYRQYIEKDAALERRFQ  178 (195)
T ss_dssp             HHHHHHHHHHHHSTTTEEEEEETGGGGTT------CCCCHHHHHHHHHT--TSCCEEEEECHHHHHHHTTTCHHHHTTEE
T ss_pred             HHHHHHHHHHhcCCCcEEEEcchHHHHhcCCCCCCcccHHHHHHHHHhC--CCceEEecCCHHHHHHHHHcCHHHHhcCC
Confidence            6677888877544321   122222221       11223345555543  345788888777666554433       4


Q ss_pred             cccCCCCChhhHHhhh
Q 038448          269 AYPLKELSNDDCLSVF  284 (385)
Q Consensus       269 ~~~l~~L~~~~a~~Lf  284 (385)
                      .+.+..++.+++..++
T Consensus       179 ~I~V~Ep~~e~t~~IL  194 (195)
T d1jbka_         179 KVFVAEPSVEDTIAIL  194 (195)
T ss_dssp             EEECCCCCHHHHHTTC
T ss_pred             EeecCCCCHHHHHHHh
Confidence            5778888888877654

>d1iqpa2 c.37.1.20 (A:2-232) Replication factor C {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=97.70  E-value=1.8e-05  Score=67.04  Aligned_cols=164  Identities=11%  Similarity=0.065  Sum_probs=80.7

Q ss_pred             HHHHHHHHhcCCCCCCCCceEEEEEcCCCCcHHHHHHHHhccccccccccc-eEEEEecCCCCHHHHHHHHHHHhhcCCC
Q 038448          142 KEETVKLLLRDDLRTDDGLSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDL-KAWTCVSEDFDIIRVTKSILKSIASDQL  220 (385)
Q Consensus       142 ~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~-~~wv~vs~~~~~~~~~~~il~~l~~~~~  220 (385)
                      ++.+.+|+...      ..+-+.++|++|+||||+|+.+.+... ...+.. .+-++.+...+...+...+.........
T Consensus        33 ~~~l~~~i~~~------~~~~lll~Gp~G~GKTtla~~iak~l~-~~~~~~~~~e~n~s~~~~~~~~~~~~~~~~~~~~~  105 (231)
T d1iqpa2          33 VKRLKHYVKTG------SMPHLLFAGPPGVGKTTAALALARELF-GENWRHNFLELNASDERGINVIREKVKEFARTKPI  105 (231)
T ss_dssp             HHHHHHHHHHT------CCCEEEEESCTTSSHHHHHHHHHHHHH-GGGHHHHEEEEETTCHHHHHTTHHHHHHHHHSCCG
T ss_pred             HHHHHHHHHcC------CCCeEEEECCCCCcHHHHHHHHHHHHH-hcccCCCeeEEecCcccchhHHHHHHHHHHhhhhc
Confidence            34555566433      334578999999999999999877421 112221 2223333322222111222211111110


Q ss_pred             ----CCccchHHhh--chhhHhhHhhhccCCCCCcEEEEEcCC-hhHHhhcC-CCCcccCCCCChhhHHhhhhccccCCC
Q 038448          221 ----VDDHDLNLLQ--KYNDWTNRSRLFEAGAPGSKIVFTTRN-LGVAEKMG-PLPAYPLKELSNDDCLSVFSPHSLGEK  292 (385)
Q Consensus       221 ----~~~~~~~~l~--~~~~w~~l~~~l~~~~~gs~IivTTR~-~~va~~~~-~~~~~~l~~L~~~~a~~Lf~~~a~~~~  292 (385)
                          ...--+++..  ....+..+...+........+|.||.. ..+...+. ....+.+.+.+.++....+.+.+....
T Consensus       106 ~~~~~~iilide~d~~~~~~~~~ll~~l~~~~~~~~~i~~~n~~~~i~~~l~sR~~~i~~~~~~~~~~~~~l~~~~~~e~  185 (231)
T d1iqpa2         106 GGASFKIIFLDEADALTQDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQSRCAIFRFRPLRDEDIAKRLRYIAENEG  185 (231)
T ss_dssp             GGCSCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHTEEEEECCCCCHHHHHHHHHHHHHTTT
T ss_pred             cCCCceEEeehhhhhcchhHHHHHhhhcccCCcceEEEeccCChhhchHhHhCccccccccccchhhHHHHHHHHHHHhC
Confidence                0000011111  233444555555444444555655543 33322221 225688889999888877776653211


Q ss_pred             CCCCCccHHHHHHHHHHHcCCChH
Q 038448          293 DFSTHPSLKEIGEKIVKKCNGLPL  316 (385)
Q Consensus       293 ~~~~~~~l~~~~~~i~~~c~glPL  316 (385)
                       .   .--.+..+.|++.|+|-+-
T Consensus       186 -i---~i~~~~l~~I~~~~~gdiR  205 (231)
T d1iqpa2         186 -L---ELTEEGLQAILYIAEGDMR  205 (231)
T ss_dssp             -C---EECHHHHHHHHHHHTTCHH
T ss_pred             -C---CCCHHHHHHHHHHcCCCHH
Confidence             1   1124566789999988643

>d1sxja2 c.37.1.20 (A:295-547) Replication factor C1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.68  E-value=0.00016  Score=61.71  Aligned_cols=42  Identities=21%  Similarity=0.075  Sum_probs=29.6

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecCCCCH
Q 038448          158 DGLSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDFDI  204 (385)
Q Consensus       158 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~  204 (385)
                      ...+.+.++|++|+||||+|+.+++..  .   ....+++.+...+.
T Consensus        50 ~~~~~lll~GPpG~GKTt~a~~la~~~--~---~~~~~~~~~~~~~~   91 (253)
T d1sxja2          50 GVFRAAMLYGPPGIGKTTAAHLVAQEL--G---YDILEQNASDVRSK   91 (253)
T ss_dssp             TSCSEEEEECSTTSSHHHHHHHHHHHT--T---CEEEEECTTSCCCH
T ss_pred             CCCceEEEECCCCCCHHHHHHHHHHHH--H---hhhhccccccchhh
Confidence            345789999999999999999998852  1   12345655554443

>d1l8qa2 c.37.1.20 (A:77-289) Chromosomal replication initiation factor DnaA {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Chromosomal replication initiation factor DnaA
species: Aquifex aeolicus [TaxId: 63363]

Probab=97.65  E-value=9.2e-06  Score=68.21  Aligned_cols=119  Identities=14%  Similarity=0.140  Sum_probs=67.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecCCCCHHHHHHHHHHHh------------hcCCCCCccchHH
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDFDIIRVTKSILKSI------------ASDQLVDDHDLNL  228 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~il~~l------------~~~~~~~~~~~~~  228 (385)
                      ..+-|+|.+|+|||.|++++++.  .......+++++..      ++...+...+            ...+.-..++++.
T Consensus        37 n~l~l~G~~G~GKTHLl~A~~~~--~~~~~~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~dll~iDDi~~  108 (213)
T d1l8qa2          37 NPIFIYGSVGTGKTHLLQAAGNE--AKKRGYRVIYSSAD------DFAQAMVEHLKKGTINEFRNMYKSVDLLLLDDVQF  108 (213)
T ss_dssp             SSEEEECSSSSSHHHHHHHHHHH--HHHTTCCEEEEEHH------HHHHHHHHHHHHTCHHHHHHHHHTCSEEEEECGGG
T ss_pred             CcEEEECCCCCcHHHHHHHHHHH--hccCccceEEechH------HHHHHHHHHHHccchhhHHHHHhhccchhhhhhhh
Confidence            44789999999999999999986  44444556677543      2322222222            2111112344555


Q ss_pred             hhchhhHhh-HhhhccC-CCCCcEEEEEcCChh---------HHhhcCCCCcccCCCCChhhHHhhhhccc
Q 038448          229 LQKYNDWTN-RSRLFEA-GAPGSKIVFTTRNLG---------VAEKMGPLPAYPLKELSNDDCLSVFSPHS  288 (385)
Q Consensus       229 l~~~~~w~~-l~~~l~~-~~~gs~IivTTR~~~---------va~~~~~~~~~~l~~L~~~~a~~Lf~~~a  288 (385)
                      +.....|+. +...+.. ...|.+||+||+...         +...+.....+.++ +++++-..++++++
T Consensus       109 i~~~~~~~~~lf~lin~~~~~~~~iiits~~~p~~l~~~~~dL~SRL~~g~~~~i~-p~d~~~~~iL~~~a  178 (213)
T d1l8qa2         109 LSGKERTQIEFFHIFNTLYLLEKQIILASDRHPQKLDGVSDRLVSRFEGGILVEIE-LDNKTRFKIIKEKL  178 (213)
T ss_dssp             GTTCHHHHHHHHHHHHHHHHTTCEEEEEESSCGGGCTTSCHHHHHHHHTSEEEECC-CCHHHHHHHHHHHH
T ss_pred             hcCchHHHHHHHHHHHHHhhccceEEEecCCcchhccccchHHHHHhhCceEEEEC-CCcHHHHHHHHHHH
Confidence            555666765 3333322 246778999998532         22233334456664 45555566666554

>d1sxje2 c.37.1.20 (E:4-255) Replication factor C5 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C5
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.64  E-value=9.4e-05  Score=63.19  Aligned_cols=81  Identities=11%  Similarity=0.140  Sum_probs=46.0

Q ss_pred             hhHhhHhhhccCCCCCcEEEEEcCChh-HHhhc-CCCCcccCCCCChhhHHhhhhccccCCCCCCCCccHHHHHHHHHHH
Q 038448          233 NDWTNRSRLFEAGAPGSKIVFTTRNLG-VAEKM-GPLPAYPLKELSNDDCLSVFSPHSLGEKDFSTHPSLKEIGEKIVKK  310 (385)
Q Consensus       233 ~~w~~l~~~l~~~~~gs~IivTTR~~~-va~~~-~~~~~~~l~~L~~~~a~~Lf~~~a~~~~~~~~~~~l~~~~~~i~~~  310 (385)
                      +.+..+...+......+++|+||.+.+ +.... +....+++.+++.++..+++...+-. ......  ..+..+.|++.
T Consensus       146 ~~~~~l~~~~e~~~~~~~~Il~tn~~~~i~~~l~sR~~~i~~~~~~~~~~~~~l~~i~~~-e~~~~~--~~~~l~~i~~~  222 (252)
T d1sxje2         146 DAQAALRRTMEKYSKNIRLIMVCDSMSPIIAPIKSQCLLIRCPAPSDSEISTILSDVVTN-ERIQLE--TKDILKRIAQA  222 (252)
T ss_dssp             HHHHHHHHHHHHSTTTEEEEEEESCSCSSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHH-HTCEEC--CSHHHHHHHHH
T ss_pred             ccchhhhcccccccccccceeeeccccchhhhhhcchheeeecccchhhHHHHHHHHHHH-cCCCCC--cHHHHHHHHHH
Confidence            344445555544455677777776432 21111 11246789999999988877654311 111111  12456788999


Q ss_pred             cCCChH
Q 038448          311 CNGLPL  316 (385)
Q Consensus       311 c~glPL  316 (385)
                      +.|-+-
T Consensus       223 s~Gd~R  228 (252)
T d1sxje2         223 SNGNLR  228 (252)
T ss_dssp             HTTCHH
T ss_pred             cCCcHH
Confidence            988764

>d1r6bx2 c.37.1.20 (X:169-436) ClpA, an Hsp100 chaperone, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpA, an Hsp100 chaperone, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=97.64  E-value=0.0014  Score=56.15  Aligned_cols=143  Identities=16%  Similarity=0.178  Sum_probs=86.0

Q ss_pred             hhhhhHHHHHHHHhcCCCCCCCCceEEEEEcCCCCcHHHHHHHHhccc---cccccc-cceEEE-Ee-------cCCCCH
Q 038448          137 EKDKEKEETVKLLLRDDLRTDDGLSVIPIIGTGRIGKTTLAQLAYSDV---RVHNHF-DLKAWT-CV-------SEDFDI  204 (385)
Q Consensus       137 ~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~---~~~~~F-~~~~wv-~v-------s~~~~~  204 (385)
                      +++++.+.++..|.....      .-+.+||.+|+|||+++..+....   .+.... ...+|. ++       +..-..
T Consensus        22 gRd~Ei~~l~~iL~r~~k------~n~lLVG~~GvGKTalv~~la~ri~~~~vp~~l~~~~i~~l~~~~liag~~~~g~~   95 (268)
T d1r6bx2          22 GREKELERAIQVLCRRRK------NNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSLLAGTKYRGDF   95 (268)
T ss_dssp             SCHHHHHHHHHHHTSSSS------CEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCCC---CCCCCSSCH
T ss_pred             ChHHHHHHHHHHHhcCcc------CCcEEECCCCCcHHHHHHHHHHHHHhCCcccccccceeEEeeechHhccCccchhH
Confidence            447788999999965432      456699999999999887766431   122222 345554 21       112357


Q ss_pred             HHHHHHHHHHhhcCCCC--CccchHHhh-------chhhHhh-HhhhccCCCCCcEEEEEcCChhHHhhcCCC-------
Q 038448          205 IRVTKSILKSIASDQLV--DDHDLNLLQ-------KYNDWTN-RSRLFEAGAPGSKIVFTTRNLGVAEKMGPL-------  267 (385)
Q Consensus       205 ~~~~~~il~~l~~~~~~--~~~~~~~l~-------~~~~w~~-l~~~l~~~~~gs~IivTTR~~~va~~~~~~-------  267 (385)
                      +..++.|+..+......  ..+++..+-       +..+... +++++.  ...-++|.||..++........       
T Consensus        96 e~r~~~i~~~~~~~~~iIlfiDeih~l~~~g~~~g~~~d~a~~Lkp~L~--rg~i~vIgatT~eey~~~~e~d~al~rrF  173 (268)
T d1r6bx2          96 EKRFKALLKQLEQDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLS--SGKIRVIGSTTYQEFSNIFEKDRALARRF  173 (268)
T ss_dssp             HHHHHHHHHHHSSSSCEEEEETTTTTTTTSCCSSSCHHHHHHHHSSCSS--SCCCEEEEEECHHHHHCCCCCTTSSGGGE
T ss_pred             HHHHHHHHHHhhccCCceEEecchHHHhcCCCCCCccccHHHHhhHHHh--CCCCeEEEeCCHHHHHHHHhhcHHHHhhh
Confidence            78888888888654321  112222221       1112233 334443  2345788888877777655433       


Q ss_pred             CcccCCCCChhhHHhhhhcc
Q 038448          268 PAYPLKELSNDDCLSVFSPH  287 (385)
Q Consensus       268 ~~~~l~~L~~~~a~~Lf~~~  287 (385)
                      ..+.+.+++.+++..++...
T Consensus       174 ~~I~V~Eps~e~t~~IL~~~  193 (268)
T d1r6bx2         174 QKIDITEPSIEETVQIINGL  193 (268)
T ss_dssp             EEEECCCCCHHHHHHHHHHH
T ss_pred             cccccCCCCHHHHHHHHHHh
Confidence            35778888888888877643

>d1w5sa2 c.37.1.20 (A:7-293) CDC6-like protein APE0152, N-terminal domain {Aeropyrum pernix [TaxId: 56636]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6-like protein APE0152, N-terminal domain
species: Aeropyrum pernix [TaxId: 56636]

Probab=97.63  E-value=0.0006  Score=58.69  Aligned_cols=59  Identities=20%  Similarity=0.182  Sum_probs=37.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhccccc----cccccceEEEEecCCCCHHHHHHHHHHHhhcC
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSDVRV----HNHFDLKAWTCVSEDFDIIRVTKSILKSIASD  218 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~~~~----~~~F~~~~wv~vs~~~~~~~~~~~il~~l~~~  218 (385)
                      ..++.++|++|+|||++++.+++...-    ........++...........+..+...+...
T Consensus        46 ~~~l~l~GppGtGKT~l~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  108 (287)
T d1w5sa2          46 NMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVNAFNAPNLYTILSLIVRQTGYP  108 (287)
T ss_dssp             EEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEEEGGGCCSHHHHHHHHHHHHTCC
T ss_pred             ceEEEeECCCCCCHHHHHHHHHHHHHhhcccccCCceeeeeccccccchhhHHHHHhhhcccc
Confidence            345677899999999999999875210    01112345666666666666666666665543

>d1a5ta2 c.37.1.20 (A:1-207) delta prime subunit of DNA polymerase III, N-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: delta prime subunit of DNA polymerase III, N-domain
species: Escherichia coli [TaxId: 562]

Probab=97.58  E-value=0.00042  Score=57.41  Aligned_cols=150  Identities=7%  Similarity=-0.029  Sum_probs=87.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhccc-----c-------------cccc-ccceEEEEecCC--CCHHHHHHHHHHHhhcC
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSDV-----R-------------VHNH-FDLKAWTCVSED--FDIIRVTKSILKSIASD  218 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~~-----~-------------~~~~-F~~~~wv~vs~~--~~~~~~~~~il~~l~~~  218 (385)
                      ...+.++|++|+||||+|+.+.+.-     .             +... .....++.....  .-..+..+++.+.+...
T Consensus        24 ~h~lLl~Gp~G~GKtt~a~~~a~~l~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~i~~~~ir~l~~~~~~~  103 (207)
T d1a5ta2          24 HHALLIQALPGMGDDALIYALSRYLLCQQPQGHKSCGHCRGCQLMQAGTHPDYYTLAPEKGKNTLGVDAVREVTEKLNEH  103 (207)
T ss_dssp             CSEEEEECCTTSCHHHHHHHHHHHHTCSSCBTTBCCSCSHHHHHHHHTCCTTEEEECCCTTCSSBCHHHHHHHHHHTTSC
T ss_pred             CeEEEEECCCCCcHHHHHHHHHHhcccccccccccccccchhhhhhhccccccchhhhhhcccccccchhhHHhhhhhhc
Confidence            4568999999999999999776421     0             0011 122334433221  11234455666666443


Q ss_pred             CCCC---ccchHHhh--chhhHhhHhhhccCCCCCcEEEEEcCChh-HHhhc-CCCCcccCCCCChhhHHhhhhccccCC
Q 038448          219 QLVD---DHDLNLLQ--KYNDWTNRSRLFEAGAPGSKIVFTTRNLG-VAEKM-GPLPAYPLKELSNDDCLSVFSPHSLGE  291 (385)
Q Consensus       219 ~~~~---~~~~~~l~--~~~~w~~l~~~l~~~~~gs~IivTTR~~~-va~~~-~~~~~~~l~~L~~~~a~~Lf~~~a~~~  291 (385)
                      ....   .--+++..  ..+....+...+-....++.+|+||.+.. +...+ +....+.+.+++.++....+....   
T Consensus       104 ~~~~~~kviIide~d~l~~~a~n~Llk~lEep~~~~~fIl~t~~~~~ll~tI~SRc~~i~~~~~~~~~~~~~L~~~~---  180 (207)
T d1a5ta2         104 ARLGGAKVVWVTDAALLTDAAANALLKTLEEPPAETWFFLATREPERLLATLRSRCRLHYLAPPPEQYAVTWLSREV---  180 (207)
T ss_dssp             CTTSSCEEEEESCGGGBCHHHHHHHHHHHTSCCTTEEEEEEESCGGGSCHHHHTTSEEEECCCCCHHHHHHHHHHHC---
T ss_pred             cccCccceEEechhhhhhhhhhHHHHHHHHhhcccceeeeeecChhhhhhhhcceeEEEecCCCCHHHHHHHHHHcC---
Confidence            3211   01112222  34456667777766667888888777653 43333 223578999999999988886543   


Q ss_pred             CCCCCCccHHHHHHHHHHHcCCChHHH
Q 038448          292 KDFSTHPSLKEIGEKIVKKCNGLPLVA  318 (385)
Q Consensus       292 ~~~~~~~~l~~~~~~i~~~c~glPLAi  318 (385)
                       +  .+   ...+..|++.++|.|-.+
T Consensus       181 -~--~~---~~~~~~i~~~s~Gs~r~a  201 (207)
T d1a5ta2         181 -T--MS---QDALLAALRLSAGSPGAA  201 (207)
T ss_dssp             -C--CC---HHHHHHHHHHTTTCHHHH
T ss_pred             -C--CC---HHHHHHHHHHcCCCHHHH
Confidence             1  11   355777899999988544

>d1njfa_ c.37.1.20 (A:) delta prime subunit of DNA polymerase III, N-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: delta prime subunit of DNA polymerase III, N-domain
species: Escherichia coli [TaxId: 562]

Probab=97.51  E-value=0.00055  Score=57.97  Aligned_cols=170  Identities=11%  Similarity=0.034  Sum_probs=91.2

Q ss_pred             HHHHHHHHhcCCCCCCCCceEEEEEcCCCCcHHHHHHHHhccccccc-------------------cccceEEEEecCCC
Q 038448          142 KEETVKLLLRDDLRTDDGLSVIPIIGTGRIGKTTLAQLAYSDVRVHN-------------------HFDLKAWTCVSEDF  202 (385)
Q Consensus       142 ~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~-------------------~F~~~~wv~vs~~~  202 (385)
                      ++.+.+++....     -...+.++|++|+||||+|+.+.+......                   .+.....+..+...
T Consensus        21 ~~~L~~~i~~~~-----~~~~~Ll~Gp~G~GKtt~a~~~~~~l~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~   95 (239)
T d1njfa_          21 LTALANGLSLGR-----IHHAYLFSGTRGVGKTSIARLLAKGLNCETGITATPCGVCDNCREIEQGRFVDLIEIDAASRT   95 (239)
T ss_dssp             HHHHHHHHHTTC-----CCSEEEEECSTTSSHHHHHHHHHHHHHCTTCSCSSCCSCSHHHHHHHHTCCTTEEEEETTCSS
T ss_pred             HHHHHHHHHcCC-----CCeeEEEECCCCCcHHHHHHHHHHHhcCccccccCccccchHHHHHHcCCCCeEEEecchhcC
Confidence            344555554332     235678999999999999988754311000                   01123455544443


Q ss_pred             CHHHHHHHHHHHhhcCCCCC---ccchHHhh--chhhHhhHhhhccCCCCCcEEEEEcCCh-hHHhhcC-CCCcccCCCC
Q 038448          203 DIIRVTKSILKSIASDQLVD---DHDLNLLQ--KYNDWTNRSRLFEAGAPGSKIVFTTRNL-GVAEKMG-PLPAYPLKEL  275 (385)
Q Consensus       203 ~~~~~~~~il~~l~~~~~~~---~~~~~~l~--~~~~w~~l~~~l~~~~~gs~IivTTR~~-~va~~~~-~~~~~~l~~L  275 (385)
                      ... ..+++++.+.......   .--++++.  ..+.-..+...+......+.+|+||.+. .+..... ....+.+.++
T Consensus        96 ~i~-~ir~~~~~~~~~~~~~~~kviiIde~d~l~~~~q~~Llk~lE~~~~~~~~il~tn~~~~i~~~i~SRc~~i~~~~~  174 (239)
T d1njfa_          96 KVE-DTRDLLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTILSRCLQFHLKAL  174 (239)
T ss_dssp             SHH-HHHHHHHSCCCSCSSSSSEEEEEETGGGSCHHHHHHHHHHHHSCCTTEEEEEEESCGGGSCHHHHTTSEEEECCCC
T ss_pred             CHH-HHHHHHHHHHhccccCCCEEEEEECcccCCHHHHHHHHHHHhcCCCCeEEEEEcCCccccChhHhhhhcccccccC
Confidence            333 3455666554332111   01122222  2223344555665555677787777653 2222222 2256889999


Q ss_pred             ChhhHHhhhhccccCCCCCCCCccHHHHHHHHHHHcCCChH-HHHHH
Q 038448          276 SNDDCLSVFSPHSLGEKDFSTHPSLKEIGEKIVKKCNGLPL-VAKSL  321 (385)
Q Consensus       276 ~~~~a~~Lf~~~a~~~~~~~~~~~l~~~~~~i~~~c~glPL-Ai~~~  321 (385)
                      +.++-...+...+-.... .   --.+....|++.++|.|- |+..+
T Consensus       175 ~~~~i~~~l~~i~~~e~~-~---~~~~~l~~i~~~s~Gd~R~ain~l  217 (239)
T d1njfa_         175 DVEQIRHQLEHILNEEHI-A---HEPRALQLLARAAEGSLRDALSLT  217 (239)
T ss_dssp             CHHHHHHHHHHHHHHHTC-C---BCHHHHHHHHHHTTTCHHHHHHHH
T ss_pred             cHHHhhhHHHHHHhhhcc-C---CCHHHHHHHHHHcCCCHHHHHHHH
Confidence            998887777655421111 1   113567789999999884 55443

>d1qvra2 c.37.1.20 (A:149-535) ClpB, AAA+ modules {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Thermus thermophilus [TaxId: 274]

Probab=97.31  E-value=0.00049  Score=62.48  Aligned_cols=141  Identities=13%  Similarity=0.121  Sum_probs=78.0

Q ss_pred             hhhhhHHHHHHHHhcCCCCCCCCceEEEEEcCCCCcHHHHHHHHh----cccccccc-ccceEEE-EecC-----C--CC
Q 038448          137 EKDKEKEETVKLLLRDDLRTDDGLSVIPIIGTGRIGKTTLAQLAY----SDVRVHNH-FDLKAWT-CVSE-----D--FD  203 (385)
Q Consensus       137 ~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~----~~~~~~~~-F~~~~wv-~vs~-----~--~~  203 (385)
                      +++.+.+.+++.|.....      .-+.+||.+|+|||+++..+.    +. .+... .+.++|. +++.     .  -.
T Consensus        26 gr~~ei~~~~~~L~r~~k------~n~llvG~~GvGKtaiv~~la~~i~~~-~vp~~l~~~~i~~ld~~~l~ag~~~~g~   98 (387)
T d1qvra2          26 GRDEEIRRVIQILLRRTK------NNPVLIGEPGVGKTAIVEGLAQRIVKG-DVPEGLKGKRIVSLQMGSLLAGAKYRGE   98 (387)
T ss_dssp             SCHHHHHHHHHHHHCSSC------CCCEEEECTTSCHHHHHHHHHHHHHHT-CSCTTSTTCEEEEECC-----------C
T ss_pred             CcHHHHHHHHHHHhcCCC------CCCeEECCCCCCHHHHHHHHHHHHHhC-CCCHHHcCceEEEeeHhhhhcccCcchh
Confidence            347788999999976543      234678999999999775443    33 23222 3455654 3222     1  25


Q ss_pred             HHHHHHHHHHHhhcCCCC---CccchHHhh-------chhhHhhHhhhccCCCCCcEEEEEcCChhHHhhcCCC------
Q 038448          204 IIRVTKSILKSIASDQLV---DDHDLNLLQ-------KYNDWTNRSRLFEAGAPGSKIVFTTRNLGVAEKMGPL------  267 (385)
Q Consensus       204 ~~~~~~~il~~l~~~~~~---~~~~~~~l~-------~~~~w~~l~~~l~~~~~gs~IivTTR~~~va~~~~~~------  267 (385)
                      ...-++.|+..+......   ..+++..+-       ..+.-+-++++|..+  .-++|-||...+... +...      
T Consensus        99 ~e~r~~~i~~~~~~~~~~~ilfide~h~l~~~g~~~g~~d~a~~Lkp~L~rg--~~~~I~~tT~~ey~~-~e~d~al~rr  175 (387)
T d1qvra2          99 FEERLKAVIQEVVQSQGEVILFIDELHTVVGAGKAEGAVDAGNMLKPALARG--ELRLIGATTLDEYRE-IEKDPALERR  175 (387)
T ss_dssp             HHHHHHHHHHHHHTTCSSEEEEECCC-------------------HHHHHTT--CCCEEEEECHHHHHH-HTTCTTTCSC
T ss_pred             HHHHHHHHHHHhccCCCceEEEeccHHHHhcCCCCCCcccHHHHHHHHHhCC--CcceeeecCHHHHHH-hcccHHHHHh
Confidence            677778888887654421   122222221       123333455555432  346777776655543 3322      


Q ss_pred             -CcccCCCCChhhHHhhhhcc
Q 038448          268 -PAYPLKELSNDDCLSVFSPH  287 (385)
Q Consensus       268 -~~~~l~~L~~~~a~~Lf~~~  287 (385)
                       ..+.+.+++.+++..++...
T Consensus       176 F~~v~v~ep~~~~~~~il~~~  196 (387)
T d1qvra2         176 FQPVYVDEPTVEETISILRGL  196 (387)
T ss_dssp             CCCEEECCCCHHHHHHHHHHH
T ss_pred             cccccCCCCcHHHHHHHHHHH
Confidence             56789999999998887644

>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=97.28  E-value=0.0011  Score=56.25  Aligned_cols=147  Identities=10%  Similarity=0.077  Sum_probs=74.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecC---CC--CHHHHHHHHHHHhhcCCCC--CccchHHhh-
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSE---DF--DIIRVTKSILKSIASDQLV--DDHDLNLLQ-  230 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~---~~--~~~~~~~~il~~l~~~~~~--~~~~~~~l~-  230 (385)
                      ..+-|.++|++|+|||+||+.+.+.  ...+   .+-++.+.   .+  .....+++++.......+.  -.++++.+- 
T Consensus        41 ~~~giLl~GppGtGKT~la~aia~~--~~~~---~~~i~~~~l~~~~~g~~~~~l~~~f~~a~~~~p~Ii~iDeid~l~~  115 (247)
T d1ixza_          41 IPKGVLLVGPPGVGKTHLARAVAGE--ARVP---FITASGSDFVEMFVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGR  115 (247)
T ss_dssp             CCSEEEEECCTTSSHHHHHHHHHHH--TTCC---EEEEEHHHHHHSCTTHHHHHHHHHHHHHTTSSSEEEEEETHHHHHC
T ss_pred             CCceEEEecCCCCChhHHHHHHHHH--cCCC---EEEEEhHHhhhccccHHHHHHHHHHHHHHHcCCEEEEEEChhhhCc
Confidence            3466899999999999999999974  2222   22333222   11  1233455565555433321  123333331 


Q ss_pred             ------------chhhHhhHhhhccCCCCCcE-E-EEEcCChhHH-hhc----CCCCcccCCCCChhhHHhhhhccccCC
Q 038448          231 ------------KYNDWTNRSRLFEAGAPGSK-I-VFTTRNLGVA-EKM----GPLPAYPLKELSNDDCLSVFSPHSLGE  291 (385)
Q Consensus       231 ------------~~~~w~~l~~~l~~~~~gs~-I-ivTTR~~~va-~~~----~~~~~~~l~~L~~~~a~~Lf~~~a~~~  291 (385)
                                  .......+...+......++ + |-||...... ..+    .-...+.+.+.+.++-..+|.......
T Consensus       116 ~r~~~~~~~~~~~~~~~~~ll~~~d~~~~~~~vivi~tTn~~~~ld~al~R~~Rf~~~i~~~~P~~~eR~~il~~~l~~~  195 (247)
T d1ixza_         116 KRGSGVGGGNDEREQTLNQLLVEMDGFEKDTAIVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGK  195 (247)
T ss_dssp             ---------CHHHHHHHHHHHHHHHTCCTTCCEEEEEEESCGGGSCGGGGSTTSSCEEEECCSCCHHHHHHHHHHHHTTS
T ss_pred             cCCCCCCCCcHHHHHHHHHHHHHhhCCCCCCCEEEEEeCCCccccCHhHcCCCCCcEEEEECCcCHHHHHHHHHHHhccc
Confidence                        00112223333322222223 3 3466654322 222    122468899999999988887665322


Q ss_pred             CCCCCCccHHHHHHHHHHHcCCCh
Q 038448          292 KDFSTHPSLKEIGEKIVKKCNGLP  315 (385)
Q Consensus       292 ~~~~~~~~l~~~~~~i~~~c~glP  315 (385)
                      . .....++    ..+++.|.|+.
T Consensus       196 ~-~~~~~~~----~~la~~t~g~s  214 (247)
T d1ixza_         196 P-LAEDVDL----ALLAKRTPGFV  214 (247)
T ss_dssp             C-BCTTCCH----HHHHHTCTTCC
T ss_pred             C-CccccCH----HHHHHHCCCCC
Confidence            1 1122233    45667777753

>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=97.10  E-value=0.00011  Score=59.19  Aligned_cols=25  Identities=20%  Similarity=0.207  Sum_probs=22.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      -.+.|.|.|++|+||||||+.+...
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            3588999999999999999999774

>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=97.09  E-value=0.00027  Score=60.79  Aligned_cols=37  Identities=16%  Similarity=0.269  Sum_probs=27.8

Q ss_pred             HHHHhcCCCCCCCCceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          146 VKLLLRDDLRTDDGLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       146 ~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      +..+..... ....++.|.++|++|+||||||+.+++.
T Consensus        19 ~~~~~~~~~-~~~~P~~ilL~GpPGtGKT~la~~la~~   55 (273)
T d1gvnb_          19 LEELIQGKK-AVESPTAFLLGGQPGSGKTSLRSAIFEE   55 (273)
T ss_dssp             HHHHHTTCC-CCSSCEEEEEECCTTSCTHHHHHHHHHH
T ss_pred             HHHHHhccc-CCCCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            344444333 4456788999999999999999999884

>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=97.05  E-value=0.00013  Score=57.93  Aligned_cols=24  Identities=21%  Similarity=0.270  Sum_probs=21.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ++|++|+|.+|+|||||+.++.+.
T Consensus         2 ~Pvi~itG~~GSGKTTL~~~L~~~   25 (170)
T d1np6a_           2 IPLLAFAAWSGTGKTTLLKKLIPA   25 (170)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHH
Confidence            369999999999999999999764

>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=97.02  E-value=0.00017  Score=56.31  Aligned_cols=22  Identities=32%  Similarity=0.339  Sum_probs=19.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      ++|.|+|++|+||||||+.+..
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

>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=97.01  E-value=0.0032  Score=53.61  Aligned_cols=147  Identities=10%  Similarity=0.036  Sum_probs=75.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecCCC-----CHHHHHHHHHHHhhcCCCC--CccchHHhh-
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDF-----DIIRVTKSILKSIASDQLV--DDHDLNLLQ-  230 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~-----~~~~~~~~il~~l~~~~~~--~~~~~~~l~-  230 (385)
                      ..+-+.++|++|+|||+||+.+.+..  ..+|   +-++.+.-.     ....-++.++.......+.  -.++++.+- 
T Consensus        44 ~~~~iLL~GppGtGKT~la~~iA~~~--~~~~---~~i~~~~l~~~~~g~~~~~l~~~f~~A~~~~P~il~iDeiD~l~~  118 (256)
T d1lv7a_          44 IPKGVLMVGPPGTGKTLLAKAIAGEA--KVPF---FTISGSDFVEMFVGVGASRVRDMFEQAKKAAPCIIFIDEIDAVGR  118 (256)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHHH--TCCE---EEECSCSSTTSCCCCCHHHHHHHHHHHHTTCSEEEEETTHHHHTC
T ss_pred             CCCeEEeeCCCCCCccHHHHHHHHHc--CCCE---EEEEhHHhhhcchhHHHHHHHHHHHHHHHcCCEEEEEEChhhhCc
Confidence            45678899999999999999998742  2221   223322211     1234455566555433321  123344332 


Q ss_pred             --------chhh----HhhHhhhccC--CCCCcEEEEEcCChhHH-hhc-C---CCCcccCCCCChhhHHhhhhccccCC
Q 038448          231 --------KYND----WTNRSRLFEA--GAPGSKIVFTTRNLGVA-EKM-G---PLPAYPLKELSNDDCLSVFSPHSLGE  291 (385)
Q Consensus       231 --------~~~~----w~~l~~~l~~--~~~gs~IivTTR~~~va-~~~-~---~~~~~~l~~L~~~~a~~Lf~~~a~~~  291 (385)
                              ....    ...+...+..  ...+--||.||...... ..+ .   -...+.+...+.++-..+|....- .
T Consensus       119 ~r~~~~~~~~~~~~~~~~~ll~~~d~~~~~~~v~vIatTn~~~~ld~al~R~gRfd~~i~i~~P~~~~R~~il~~~l~-~  197 (256)
T d1lv7a_         119 QRGAGLGGGHDEREQTLNQMLVEMDGFEGNEGIIVIAATNRPDVLDPALLRPGRFDRQVVVGLPDVRGREQILKVHMR-R  197 (256)
T ss_dssp             CCSTTSCCTTCHHHHHHHHHHHHHHTCCSSSCEEEEEEESCTTTSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHT-T
T ss_pred             cCCCCCCCCcHHHHHHHHHHHHHhhCCCCCCCEEEEEeCCCcccCCHhHcCCCCCCEEEECCCcCHHHHHHHHHHhcc-C
Confidence                    0111    2223333322  22333455577754332 222 1   235688999999888888876542 2


Q ss_pred             CCCCCCccHHHHHHHHHHHcCCCh
Q 038448          292 KDFSTHPSLKEIGEKIVKKCNGLP  315 (385)
Q Consensus       292 ~~~~~~~~l~~~~~~i~~~c~glP  315 (385)
                      .......++    ..+++.+.|+.
T Consensus       198 ~~~~~~~~~----~~la~~t~G~s  217 (256)
T d1lv7a_         198 VPLAPDIDA----AIIARGTPGFS  217 (256)
T ss_dssp             SCBCTTCCH----HHHHHTCTTCC
T ss_pred             CCcCcccCH----HHHHHhCCCCC
Confidence            221222233    45677788764

>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=96.99  E-value=0.00014  Score=57.27  Aligned_cols=23  Identities=22%  Similarity=0.289  Sum_probs=20.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      +.|.++|++|+||||+|+.+...
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            46888899999999999999874

>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=96.98  E-value=0.00023  Score=56.98  Aligned_cols=25  Identities=20%  Similarity=0.081  Sum_probs=22.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .-.+|.|+|++|+||||+|+.+...
T Consensus         5 ~g~~I~l~G~~GsGKTTia~~La~~   29 (183)
T d1m8pa3           5 QGFTIFLTGYMNSGKDAIARALQVT   29 (183)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHH
Confidence            4478999999999999999999874

>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=96.98  E-value=0.00042  Score=56.31  Aligned_cols=26  Identities=42%  Similarity=0.422  Sum_probs=23.1

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          158 DGLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       158 ~~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .+.-+|+|.|.+|+||||||+.+...
T Consensus        20 ~~~~iIgI~G~~GSGKSTla~~L~~~   45 (198)
T d1rz3a_          20 AGRLVLGIDGLSRSGKTTLANQLSQT   45 (198)
T ss_dssp             SSSEEEEEEECTTSSHHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            46779999999999999999999764

>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=96.93  E-value=0.00022  Score=56.68  Aligned_cols=22  Identities=23%  Similarity=0.324  Sum_probs=20.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      ++|.|.|++|+||||+|+.+..
T Consensus         3 klI~i~G~~GsGKTTva~~L~~   24 (176)
T d2bdta1           3 KLYIITGPAGVGKSTTCKRLAA   24 (176)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            6899999999999999999875

>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=96.82  E-value=0.00037  Score=55.31  Aligned_cols=27  Identities=15%  Similarity=0.283  Sum_probs=23.8

Q ss_pred             CCCceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          157 DDGLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       157 ~~~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      +...+++.|.|++|+||||+|+.+...
T Consensus         3 ~~~~~iivl~G~~GsGKsT~a~~La~~   29 (171)
T d1knqa_           3 NHDHHIYVLMGVSGSGKSAVASEVAHQ   29 (171)
T ss_dssp             CTTSEEEEEECSTTSCHHHHHHHHHHH
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            456789999999999999999999764

>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=96.81  E-value=0.00024  Score=56.46  Aligned_cols=23  Identities=39%  Similarity=0.421  Sum_probs=20.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ..|.|.|++|+||||+|+.+...
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            45779999999999999999763

>d1qf9a_ c.37.1.1 (A:) UMP/CMP kinase {Dictyostelium discoideum [TaxId: 44689]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: UMP/CMP kinase
species: Dictyostelium discoideum [TaxId: 44689]

Probab=96.81  E-value=0.00036  Score=56.91  Aligned_cols=26  Identities=23%  Similarity=0.222  Sum_probs=23.3

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          158 DGLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       158 ~~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ..+.+|.|+|++|+||||+|+.+..+
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            46789999999999999999999864

>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=96.78  E-value=0.00026  Score=56.79  Aligned_cols=23  Identities=30%  Similarity=0.312  Sum_probs=20.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      +.|.|+|++|+|||||++.+...
T Consensus         2 k~v~ItG~~GtGKTtl~~~i~~~   24 (189)
T d2i3ba1           2 RHVFLTGPPGVGKTTLIHKASEV   24 (189)
T ss_dssp             CCEEEESCCSSCHHHHHHHHHHH
T ss_pred             cEEEEECCCCCcHHHHHHHHHHH
Confidence            56899999999999999998865

>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=96.69  E-value=0.00049  Score=56.24  Aligned_cols=27  Identities=33%  Similarity=0.382  Sum_probs=24.1

Q ss_pred             CCCceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          157 DDGLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       157 ~~~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .+..+||.|.|++|+||||+|+.+...
T Consensus         5 ~~~~~iI~i~GppGSGKsT~a~~La~~   31 (196)
T d1ukza_           5 PDQVSVIFVLGGPGAGKGTQCEKLVKD   31 (196)
T ss_dssp             TTTCEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCCcEEEEECCCCCCHHHHHHHHHHH
Confidence            357899999999999999999999874

>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=96.68  E-value=0.00048  Score=55.23  Aligned_cols=26  Identities=23%  Similarity=0.248  Sum_probs=23.1

Q ss_pred             CCCceEEEEEcCCCCcHHHHHHHHhc
Q 038448          157 DDGLSVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       157 ~~~~~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      .+.+.+|.++|++|+||||+|+.+..
T Consensus        11 ~~~p~liil~G~pGsGKST~a~~l~~   36 (172)
T d1yj5a2          11 SPNPEVVVAVGFPGAGKSTFIQEHLV   36 (172)
T ss_dssp             CSSCCEEEEECCTTSSHHHHHHHHTG
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHH
Confidence            35678999999999999999998865

>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=96.66  E-value=0.00043  Score=57.05  Aligned_cols=24  Identities=21%  Similarity=0.239  Sum_probs=21.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      +.+|.++|.+|+||||||+++...
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            468999999999999999999864

>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=96.64  E-value=0.00055  Score=54.42  Aligned_cols=26  Identities=31%  Similarity=0.323  Sum_probs=22.1

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          158 DGLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       158 ~~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      +....|.|.|++|+||||+|+.+...
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            34567899999999999999999864

>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=96.64  E-value=0.00047  Score=54.83  Aligned_cols=24  Identities=21%  Similarity=0.223  Sum_probs=21.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .++|.|.|.+|+||||+|+.+...
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            478999999999999999999874

>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=96.61  E-value=0.00035  Score=56.77  Aligned_cols=25  Identities=20%  Similarity=0.108  Sum_probs=21.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .-.+|.++|++|+||||+|+.+...
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            3468889999999999999999763

>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=96.60  E-value=0.00048  Score=55.33  Aligned_cols=23  Identities=35%  Similarity=0.533  Sum_probs=21.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ++|.|.|++|+||||+++.+...
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            69999999999999999998764

>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=96.57  E-value=0.00052  Score=54.44  Aligned_cols=23  Identities=30%  Similarity=0.359  Sum_probs=21.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ++++|+|..|+|||||+.++...
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            68999999999999999998764

>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=96.52  E-value=0.00066  Score=53.97  Aligned_cols=24  Identities=21%  Similarity=0.224  Sum_probs=21.4

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      -++|.|.|++|+||||+|+.+...
T Consensus         4 g~iI~l~G~~GsGKSTia~~La~~   27 (176)
T d1zp6a1           4 GNILLLSGHPGSGKSTIAEALANL   27 (176)
T ss_dssp             TEEEEEEECTTSCHHHHHHHHHTC
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHH
Confidence            478999999999999999999763

>d1e32a2 c.37.1.20 (A:201-458) Membrane fusion ATPase VCP/p97 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Membrane fusion ATPase VCP/p97
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=96.52  E-value=0.0043  Score=52.86  Aligned_cols=147  Identities=10%  Similarity=0.064  Sum_probs=74.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecC---CC--CHHHHHHHHHHHhhcCCCC--CccchHHhh-
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSE---DF--DIIRVTKSILKSIASDQLV--DDHDLNLLQ-  230 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~---~~--~~~~~~~~il~~l~~~~~~--~~~~~~~l~-  230 (385)
                      ..+-|.++|++|+|||+||+.+.+.  ...+|   +.++.+.   .+  .....+..++.......+.  -.++++.+- 
T Consensus        37 ~~~giLL~GppGtGKT~l~~ala~~--~~~~~---~~i~~~~l~~~~~g~~~~~l~~~f~~A~~~~p~il~iDeid~l~~  111 (258)
T d1e32a2          37 PPRGILLYGPPGTGKTLIARAVANE--TGAFF---FLINGPEIMSKLAGESESNLRKAFEEAEKNAPAIIFIDELDAIAP  111 (258)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHH--TTCEE---EEECHHHHTTSCTTHHHHHHHHHHHHHHHTCSEEEEESSGGGTCC
T ss_pred             CCceeEEecCCCCCchHHHHHHHHH--hCCeE---EEEEchhhcccccccHHHHHHHHHHHHHhcCCeEEEehhhhhhcc
Confidence            3466889999999999999999884  22222   2233211   11  1233344444443322221  123333322 


Q ss_pred             -----chhhHh----hHhhhccC--CCCCcEEEEEcCChhHHh-hcC----CCCcccCCCCChhhHHhhhhccccCCCCC
Q 038448          231 -----KYNDWT----NRSRLFEA--GAPGSKIVFTTRNLGVAE-KMG----PLPAYPLKELSNDDCLSVFSPHSLGEKDF  294 (385)
Q Consensus       231 -----~~~~w~----~l~~~l~~--~~~gs~IivTTR~~~va~-~~~----~~~~~~l~~L~~~~a~~Lf~~~a~~~~~~  294 (385)
                           ..+...    .+...+..  ...+.-||.||....-.. .+.    -...+++...+.++-..+|.... .....
T Consensus       112 ~r~~~~~~~~~~~~~~~~~~~~~~~~~~~vlvi~tTn~~~~ld~al~r~gRfd~~i~~~~P~~~~R~~il~~~l-~~~~~  190 (258)
T d1e32a2         112 KREKTHGEVERRIVSQLLTLMDGLKQRAHVIVMAATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHT-KNMKL  190 (258)
T ss_dssp             HHHHCCCTTHHHHHHHHHHHHHTCCCSSCEEEEEEESCGGGSCGGGTSTTSSCEEEECCCCCHHHHHHHHHHTT-TTSCB
T ss_pred             CCCCCCCchHHHHHHHhccccccccccCCccEEEeCCCccccchhhhhcccccceeECCCCCHHHHHHHhhhhc-cCccc
Confidence                 111111    12222222  223334566887654432 121    23568899999999988887664 22222


Q ss_pred             CCCccHHHHHHHHHHHcCCCh
Q 038448          295 STHPSLKEIGEKIVKKCNGLP  315 (385)
Q Consensus       295 ~~~~~l~~~~~~i~~~c~glP  315 (385)
                      ....+    ...|++.+.|+-
T Consensus       191 ~~~~~----~~~la~~t~G~s  207 (258)
T d1e32a2         191 ADDVD----LEQVANETHGHV  207 (258)
T ss_dssp             CTTCC----HHHHHHHCTTCC
T ss_pred             ccccc----hhhhhhcccCCC
Confidence            22222    356888888864

>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=96.44  E-value=0.00066  Score=53.82  Aligned_cols=21  Identities=19%  Similarity=0.272  Sum_probs=18.0

Q ss_pred             EEEEcCCCCcHHHHHHHHhcc
Q 038448          163 IPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       163 i~I~G~gGiGKTtLA~~v~~~  183 (385)
                      |.++|++|+||||+++.+...
T Consensus         4 IvliG~~G~GKSTig~~La~~   24 (165)
T d2iyva1           4 AVLVGLPGSGKSTIGRRLAKA   24 (165)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            445699999999999999874

>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=96.44  E-value=0.00046  Score=60.90  Aligned_cols=24  Identities=29%  Similarity=0.292  Sum_probs=21.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .+-+.++|++|+|||.||+.+.+.
T Consensus        49 ~~~iLl~GPpG~GKT~lAkalA~~   72 (309)
T d1ofha_          49 PKNILMIGPTGVGKTEIARRLAKL   72 (309)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHHH
T ss_pred             CceEEEECCCCCCHHHHHHHHhhc
Confidence            466779999999999999999874

>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=96.40  E-value=0.00071  Score=53.48  Aligned_cols=21  Identities=43%  Similarity=0.433  Sum_probs=19.1

Q ss_pred             EEEEcCCCCcHHHHHHHHhcc
Q 038448          163 IPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       163 i~I~G~gGiGKTtLA~~v~~~  183 (385)
                      |.|+||+|+||||+++.+...
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            678899999999999999875

>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=96.32  E-value=0.00077  Score=53.69  Aligned_cols=22  Identities=23%  Similarity=0.235  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcc
Q 038448          162 VIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .|.++|++|+||||+|+.+...
T Consensus         4 ~Iil~G~~GsGKSTia~~LA~~   25 (170)
T d1e6ca_           4 PIFMVGARGCGMTTVGRELARA   25 (170)
T ss_dssp             CEEEESCTTSSHHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            4668899999999999999874

>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=96.28  E-value=0.00094  Score=53.27  Aligned_cols=21  Identities=38%  Similarity=0.447  Sum_probs=19.1

Q ss_pred             EEEEcCCCCcHHHHHHHHhcc
Q 038448          163 IPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       163 i~I~G~gGiGKTtLA~~v~~~  183 (385)
                      |.|+|++|+|||||++.+...
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            789999999999999998763

>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=96.19  E-value=0.0012  Score=53.56  Aligned_cols=24  Identities=21%  Similarity=0.180  Sum_probs=21.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      +.+|.|.|++|+||||.|+.+++.
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            368999999999999999999874

>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=96.17  E-value=0.0012  Score=53.01  Aligned_cols=23  Identities=17%  Similarity=0.170  Sum_probs=20.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ++|.|.|++|+||||+++.+...
T Consensus         2 kiivi~G~~GsGKTT~~~~La~~   24 (194)
T d1nksa_           2 KIGIVTGIPGVGKSTVLAKVKEI   24 (194)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            68899999999999999999764

>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=96.05  E-value=0.0017  Score=52.50  Aligned_cols=25  Identities=24%  Similarity=0.393  Sum_probs=20.8

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          158 DGLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       158 ~~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .++++| |+|++|+||||+|+.+...
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            356777 7899999999999999763

>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=96.03  E-value=0.0017  Score=53.60  Aligned_cols=24  Identities=17%  Similarity=0.134  Sum_probs=21.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      +-||+|.|..|+||||+|+.+...
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            468999999999999999988664

>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=95.97  E-value=0.0015  Score=54.05  Aligned_cols=23  Identities=35%  Similarity=0.384  Sum_probs=21.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      +||+|-|++|+||||+|+.+.++
T Consensus         4 piI~I~GppGSGKgT~ak~La~~   26 (225)
T d1ckea_           4 PVITIDGPSGAGKGTLCKAMAEA   26 (225)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHH
Confidence            59999999999999999999875

>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=95.92  E-value=0.0017  Score=52.52  Aligned_cols=23  Identities=26%  Similarity=0.251  Sum_probs=20.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ..|.|.|++|+||||+|+.+.+.
T Consensus         4 m~I~i~GppGsGKsT~a~~La~~   26 (189)
T d1zaka1           4 LKVMISGAPASGKGTQCELIKTK   26 (189)
T ss_dssp             CCEEEEESTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            45779999999999999998764

>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=95.86  E-value=0.0024  Score=51.62  Aligned_cols=23  Identities=35%  Similarity=0.320  Sum_probs=20.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHh
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAY  181 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~  181 (385)
                      .+-+|+|+|+.|+||||+|..+-
T Consensus         2 ~p~IIgitG~~gSGKstva~~l~   24 (191)
T d1uf9a_           2 HPIIIGITGNIGSGKSTVAALLR   24 (191)
T ss_dssp             CCEEEEEEECTTSCHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHH
Confidence            45799999999999999998773

>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=95.81  E-value=0.0046  Score=52.28  Aligned_cols=25  Identities=28%  Similarity=0.296  Sum_probs=22.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .++-|.++|++|+|||++|+.+++.
T Consensus        39 p~~~vLL~GppGtGKT~la~alA~~   63 (246)
T d1d2na_          39 PLVSVLLEGPPHSGKTALAAKIAEE   63 (246)
T ss_dssp             SEEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCeEEEEECcCCCCHHHHHHHHhhc
Confidence            4567889999999999999999885

>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=95.80  E-value=0.0027  Score=52.35  Aligned_cols=26  Identities=27%  Similarity=0.138  Sum_probs=22.5

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          158 DGLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       158 ~~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      +.-.+|-+.|++|+||||||+.+...
T Consensus        22 ~kg~vIwltGlsGsGKTTia~~L~~~   47 (208)
T d1m7ga_          22 QRGLTIWLTGLSASGKSTLAVELEHQ   47 (208)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            34579999999999999999998763

>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=95.77  E-value=0.0021  Score=51.36  Aligned_cols=21  Identities=24%  Similarity=0.298  Sum_probs=18.9

Q ss_pred             EEEEcCCCCcHHHHHHHHhcc
Q 038448          163 IPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       163 i~I~G~gGiGKTtLA~~v~~~  183 (385)
                      |.|.|++|+||||+|+.+...
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            679999999999999999764

>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=95.74  E-value=0.0026  Score=51.67  Aligned_cols=25  Identities=20%  Similarity=0.215  Sum_probs=22.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ..++|.|.|++|+||||+|..+...
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            4589999999999999999999763

>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=95.62  E-value=0.0026  Score=50.92  Aligned_cols=22  Identities=23%  Similarity=0.205  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcc
Q 038448          162 VIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .|.|.|++|+||||+|+.++..
T Consensus         2 ~I~i~G~pGsGKsT~a~~La~~   23 (181)
T d2cdna1           2 RVLLLGPPGAGKGTQAVKLAEK   23 (181)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            3678899999999999999874

>d2gnoa2 c.37.1.20 (A:11-208) gamma subunit of DNA polymerase III, N-domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: gamma subunit of DNA polymerase III, N-domain
species: Thermotoga maritima [TaxId: 2336]

Probab=95.61  E-value=0.025  Score=45.84  Aligned_cols=98  Identities=11%  Similarity=-0.101  Sum_probs=57.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcccc--ccccccceEEEEecC-CCCHHHHHHHHHHHhhcCCCCCc---cchHHhh--
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSDVR--VHNHFDLKAWTCVSE-DFDIIRVTKSILKSIASDQLVDD---HDLNLLQ--  230 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~~~--~~~~F~~~~wv~vs~-~~~~~~~~~~il~~l~~~~~~~~---~~~~~l~--  230 (385)
                      ....+.++|.+|+||||+|..+.+...  ...|. -..++.-.. ...+.. .+++.+.+........   --++...  
T Consensus        14 ~~~~~l~~G~~g~gk~~~a~~l~~~i~~~~~~h~-D~~~i~~~~~~I~Id~-IR~i~~~~~~~~~~~~~KviIId~ad~l   91 (198)
T d2gnoa2          14 EGISILINGEDLSYPREVSLELPEYVEKFPPKAS-DVLEIDPEGENIGIDD-IRTIKDFLNYSPELYTRKYVIVHDCERM   91 (198)
T ss_dssp             SSEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTT-TEEEECCSSSCBCHHH-HHHHHHHHTSCCSSSSSEEEEETTGGGB
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHHHhccccCCC-CEEEEeCCcCCCCHHH-HHHHHHHHhhCcccCCCEEEEEeCcccc
Confidence            458899999999999999998776421  11122 244554322 223444 4457766655432111   1122222  


Q ss_pred             chhhHhhHhhhccCCCCCcEEEEEcCCh
Q 038448          231 KYNDWTNRSRLFEAGAPGSKIVFTTRNL  258 (385)
Q Consensus       231 ~~~~w~~l~~~l~~~~~gs~IivTTR~~  258 (385)
                      +.+.+..+...+-.-..++.+|++|.+.
T Consensus        92 ~~~aqNaLLK~LEEPp~~t~fiLit~~~  119 (198)
T d2gnoa2          92 TQQAANAFLKALEEPPEYAVIVLNTRRW  119 (198)
T ss_dssp             CHHHHHHTHHHHHSCCTTEEEEEEESCG
T ss_pred             chhhhhHHHHHHhCCCCCceeeeccCCh
Confidence            5566777777776656677777766654

>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=95.61  E-value=0.0035  Score=50.70  Aligned_cols=24  Identities=25%  Similarity=0.260  Sum_probs=19.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .-.|.|.|++|+||||+|+.+...
T Consensus         6 ~mrIiliG~PGSGKtT~a~~La~~   29 (189)
T d2ak3a1           6 LLRAAIMGAPGSGKGTVSSRITKH   29 (189)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             ceeEEEECCCCCCHHHHHHHHHHH
Confidence            345567899999999999999874

>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=95.61  E-value=0.01  Score=52.04  Aligned_cols=59  Identities=15%  Similarity=0.142  Sum_probs=37.6

Q ss_pred             HHHHHHHHHHHH--hhhhhhHHHHHHHHh---cCCCCCCCCceEEEEEcCCCCcHHHHHHHHhc
Q 038448          124 AKIEDRTIRLQE--IEKDKEKEETVKLLL---RDDLRTDDGLSVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       124 ~~i~~~~~~l~~--i~~~~~~~~l~~~L~---~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      ..++++.++|..  +++++.++.+...+.   .+....+....++.++|++|+|||.||+.+..
T Consensus        11 ~~l~~l~~~L~~~viGQ~~a~~~v~~~v~~~~~~l~~~~~p~~~~lf~Gp~GvGKT~lak~la~   74 (315)
T d1r6bx3          11 DTLKNLGDRLKMLVFGQDKAIEALTEAIKMARAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSK   74 (315)
T ss_dssp             HHHHHHHHHHTTTSCSCHHHHHHHHHHHHHHHTTCSCTTSCSEEEEEECSTTSSHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCeecChHHHHHHHHHHHHHHHccCCCCCCCceEEEEECCCcchhHHHHHHHHh
Confidence            345666666654  333555666555442   12221233456889999999999999999876

>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=95.57  E-value=0.0028  Score=50.80  Aligned_cols=22  Identities=27%  Similarity=0.255  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcc
Q 038448          162 VIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .|.|.|++|+||||+|+.++..
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            3678999999999999999874

>d2qy9a2 c.37.1.10 (A:285-495) GTPase domain of the signal recognition particle receptor FtsY {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Escherichia coli [TaxId: 562]

Probab=95.53  E-value=0.015  Score=47.65  Aligned_cols=58  Identities=14%  Similarity=0.110  Sum_probs=35.9

Q ss_pred             CCCceEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecCCCCH--HHHHHHHHHHhhc
Q 038448          157 DDGLSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDFDI--IRVTKSILKSIAS  217 (385)
Q Consensus       157 ~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~--~~~~~~il~~l~~  217 (385)
                      .+.+.||.++|+.|+||||.+-++...  .+ .....+.+-..+.|..  .+-++...+.++.
T Consensus         6 ~~~p~vi~lvGptGvGKTTTiAKLA~~--~~-~~g~kV~lit~Dt~R~gA~eQL~~~a~~l~v   65 (211)
T d2qy9a2           6 GKAPFVILMVGVNGVGKTTTIGKLARQ--FE-QQGKSVMLAAGDTFRAAAVEQLQVWGQRNNI   65 (211)
T ss_dssp             SCTTEEEEEECCTTSCHHHHHHHHHHH--HH-TTTCCEEEECCCTTCHHHHHHHHHHHHHTTC
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHH--HH-HCCCcEEEEecccccccchhhhhhhhhhcCC
Confidence            356789999999999999876666543  22 2233455554455544  3445555555544

>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=95.52  E-value=0.0031  Score=50.90  Aligned_cols=23  Identities=30%  Similarity=0.459  Sum_probs=20.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      +.|.|+|++|+|||||++.+...
T Consensus         2 rpIvl~GpsG~GK~tl~~~L~~~   24 (186)
T d1gkya_           2 RPIVISGPSGTGKSTLLKKLFAE   24 (186)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHh
Confidence            34789999999999999999774

>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=95.50  E-value=0.0029  Score=52.36  Aligned_cols=23  Identities=35%  Similarity=0.443  Sum_probs=20.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      -+|+|-|++|+||||+|+.+..+
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            46889999999999999999875

>d1tf7a2 c.37.1.11 (A:256-497) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Circadian clock protein KaiC
species: Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]

Probab=95.48  E-value=0.006  Score=51.00  Aligned_cols=40  Identities=20%  Similarity=0.111  Sum_probs=32.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecC
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSE  200 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~  200 (385)
                      .-.++.|+|.+|+|||+||.++..+  ...+...++|++...
T Consensus        25 ~gsl~li~G~pGsGKT~l~~qia~~--~~~~~~~~~~is~e~   64 (242)
T d1tf7a2          25 KDSIILATGATGTGKTLLVSRFVEN--ACANKERAILFAYEE   64 (242)
T ss_dssp             SSCEEEEEECTTSSHHHHHHHHHHH--HHTTTCCEEEEESSS
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHH--HHHhccccceeeccC
Confidence            4578999999999999999998876  445666788888654

>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=95.48  E-value=0.0035  Score=50.27  Aligned_cols=23  Identities=22%  Similarity=0.403  Sum_probs=20.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ++|.|+|++|+|||||++.+...
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

>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=95.45  E-value=0.008  Score=52.95  Aligned_cols=26  Identities=19%  Similarity=0.104  Sum_probs=23.1

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          158 DGLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       158 ~~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ++..+|+|+|.||+|||||...+...
T Consensus        52 ~~~~~IgitG~pGaGKSTLi~~l~~~   77 (327)
T d2p67a1          52 GNTLRLGVTGTPGAGKSTFLEAFGML   77 (327)
T ss_dssp             SCSEEEEEEECTTSCHHHHHHHHHHH
T ss_pred             CCceEEEeeCCCCCCHHHHHHHHHHH
Confidence            56899999999999999999888654

>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=95.44  E-value=0.0031  Score=51.11  Aligned_cols=22  Identities=23%  Similarity=0.434  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcc
Q 038448          162 VIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .|.|+|++|+|||||++.+...
T Consensus         2 pIvl~GPsGsGK~tl~~~L~~~   23 (190)
T d1lvga_           2 PVVLSGPSGAGKSTLLKKLFQE   23 (190)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHh
Confidence            3679999999999999998764

>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=95.40  E-value=0.0039  Score=53.32  Aligned_cols=23  Identities=39%  Similarity=0.484  Sum_probs=19.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      +.|+|+|-||+||||+|..+..-
T Consensus         2 r~Iai~gKGGvGKTT~a~nLA~~   24 (269)
T d1cp2a_           2 RQVAIYGKGGIGKSTTTQNLTSG   24 (269)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHH
T ss_pred             CEEEEECCCcCCHHHHHHHHHHH
Confidence            68999999999999999776553

>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=95.40  E-value=0.009  Score=52.52  Aligned_cols=26  Identities=23%  Similarity=0.137  Sum_probs=22.9

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          158 DGLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       158 ~~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .+..+|+|.|+||+|||||...+...
T Consensus        49 ~~~~~igitG~pGaGKSTli~~l~~~   74 (323)
T d2qm8a1          49 GRAIRVGITGVPGVGKSTTIDALGSL   74 (323)
T ss_dssp             CCSEEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCceEEeeeCCCCCCHHHHHHHHHHH
Confidence            46799999999999999999887753

>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=95.33  E-value=0.0043  Score=50.24  Aligned_cols=27  Identities=22%  Similarity=0.010  Sum_probs=22.9

Q ss_pred             CCCceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          157 DDGLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       157 ~~~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      +..+-+|+|-|..|+||||+++.+...
T Consensus         6 ~~kp~~I~ieG~~GsGKTTl~~~L~~~   32 (197)
T d2vp4a1           6 GTQPFTVLIEGNIGSGKTTYLNHFEKY   32 (197)
T ss_dssp             TCCCEEEEEECSTTSCHHHHHHTTGGG
T ss_pred             CCCceEEEEECCCCCCHHHHHHHHHHH
Confidence            345679999999999999999988753

>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=95.32  E-value=0.012  Score=48.84  Aligned_cols=47  Identities=15%  Similarity=0.158  Sum_probs=32.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhccccccccc----cceEEEEecCCCCHH
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSDVRVHNHF----DLKAWTCVSEDFDII  205 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F----~~~~wv~vs~~~~~~  205 (385)
                      .-+++-|.|.+|+||||||.++..+......+    ..++|++....++..
T Consensus        33 ~G~~~li~G~pGsGKT~l~lq~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~   83 (251)
T d1szpa2          33 TGSITELFGEFRTGKSQLCHTLAVTCQIPLDIGGGEGKCLYIDTEGTFRPV   83 (251)
T ss_dssp             SSSEEEEEESTTSSHHHHHHHHTTTTTSCTTTTCCSCEEEEEESSSCCCGG
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHhhhhhhhccCCceEEEEeecchHHHH
Confidence            44799999999999999998887653222112    357788876665543

>d1okkd2 c.37.1.10 (D:97-303) GTPase domain of the signal recognition particle receptor FtsY {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Thermus aquaticus [TaxId: 271]

Probab=95.31  E-value=0.018  Score=46.92  Aligned_cols=59  Identities=12%  Similarity=-0.038  Sum_probs=37.8

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecC-CCCHHHHHHHHHHHhhcC
Q 038448          158 DGLSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSE-DFDIIRVTKSILKSIASD  218 (385)
Q Consensus       158 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~-~~~~~~~~~~il~~l~~~  218 (385)
                      ++.+||.++|+.|+||||.+-++..... +.. ..+..|+... .....+-++...+.++..
T Consensus         4 ~~~~vi~lvGptGvGKTTTiaKLA~~~~-~~g-~kV~lit~Dt~R~gA~eQL~~~a~~l~i~   63 (207)
T d1okkd2           4 PKGRVVLVVGVNGVGKTTTIAKLGRYYQ-NLG-KKVMFCAGDTFRAAGGTQLSEWGKRLSIP   63 (207)
T ss_dssp             CSSSEEEEECSTTSSHHHHHHHHHHHHH-TTT-CCEEEECCCCSSTTHHHHHHHHHHHHTCC
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHH-HCC-CcEEEEEeccccccchhhHhhcccccCce
Confidence            4568999999999999987766655322 122 3456666543 345556666666666543

>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=95.27  E-value=0.004  Score=49.77  Aligned_cols=21  Identities=29%  Similarity=0.265  Sum_probs=18.1

Q ss_pred             EEEEcCCCCcHHHHHHHHhcc
Q 038448          163 IPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       163 i~I~G~gGiGKTtLA~~v~~~  183 (385)
                      |.|.|++|+||||+|+.+...
T Consensus         5 Ivl~G~pGSGKtT~a~~La~~   25 (180)
T d1akya1           5 MVLIGPPGAGKGTQAPNLQER   25 (180)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            447799999999999999764

>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=95.26  E-value=0.0039  Score=49.89  Aligned_cols=23  Identities=9%  Similarity=0.368  Sum_probs=20.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      +.|.|+|++|+|||||++.+...
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            57899999999999999998853

>d1sq5a_ c.37.1.6 (A:) Pantothenate kinase PanK {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Pantothenate kinase PanK
species: Escherichia coli [TaxId: 562]

Probab=95.24  E-value=0.011  Score=51.49  Aligned_cols=26  Identities=27%  Similarity=0.339  Sum_probs=23.2

Q ss_pred             CCCceEEEEEcCCCCcHHHHHHHHhc
Q 038448          157 DDGLSVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       157 ~~~~~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      ...+-+|+|.|..|+||||+|+.+..
T Consensus        77 ~k~P~iIGIaG~sgSGKSTla~~L~~  102 (308)
T d1sq5a_          77 QRIPYIISIAGSVAVGKSTTARVLQA  102 (308)
T ss_dssp             CCCCEEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCCCEEEEEeCCCCCCCcHHHHHHHH
Confidence            45778999999999999999998875

>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=95.22  E-value=0.0043  Score=49.46  Aligned_cols=22  Identities=32%  Similarity=0.368  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcc
Q 038448          162 VIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .|.|.|++|+||||+|+.+...
T Consensus         2 ~I~i~G~pGSGKsT~~~~La~~   23 (179)
T d1e4va1           2 RIILLGAPVAGKGTQAQFIMEK   23 (179)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            3668999999999999999864

>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=95.10  E-value=0.0071  Score=49.31  Aligned_cols=22  Identities=36%  Similarity=0.486  Sum_probs=20.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      .+++|+|+.|+|||||.+.++.
T Consensus        28 ei~~l~G~NGsGKSTLl~~i~g   49 (200)
T d1sgwa_          28 NVVNFHGPNGIGKTTLLKTIST   49 (200)
T ss_dssp             CCEEEECCTTSSHHHHHHHHTT
T ss_pred             CEEEEECCCCChHHHHHHHHhc
Confidence            5899999999999999999987

>d1l2ta_ c.37.1.12 (A:) MJ0796 {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: MJ0796
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=95.09  E-value=0.0083  Score=49.91  Aligned_cols=34  Identities=15%  Similarity=0.280  Sum_probs=26.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhccccccccccceEEEE
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTC  197 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~  197 (385)
                      .+++|+|+.|+|||||.+.+..   ....-.+.+++.
T Consensus        32 e~~~iiG~sGsGKSTLl~~i~g---l~~p~sG~I~~~   65 (230)
T d1l2ta_          32 EFVSIMGPSGSGKSTMLNIIGC---LDKPTEGEVYID   65 (230)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTT---SSCCSEEEEEET
T ss_pred             CEEEEECCCCCCcchhhHhccC---CCCCCcceeEEC
Confidence            5899999999999999998876   333345566663

>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=95.07  E-value=0.0082  Score=51.41  Aligned_cols=25  Identities=32%  Similarity=0.515  Sum_probs=20.9

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHhc
Q 038448          158 DGLSVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       158 ~~~~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      ++.+||.+.|-||+||||+|-.+..
T Consensus        18 ~~~~iii~sGKGGVGKTT~a~nLA~   42 (279)
T d1ihua2          18 NEHGLIMLMGKGGVGKTTMAAAIAV   42 (279)
T ss_dssp             TSCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHH
Confidence            5679999999999999998766543

>d1ls1a2 c.37.1.10 (A:89-295) GTPase domain of the signal sequence recognition protein Ffh {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal sequence recognition protein Ffh
species: Thermus aquaticus [TaxId: 271]

Probab=95.05  E-value=0.018  Score=47.06  Aligned_cols=57  Identities=11%  Similarity=-0.020  Sum_probs=33.8

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecCCCC--HHHHHHHHHHHhhc
Q 038448          158 DGLSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDFD--IIRVTKSILKSIAS  217 (385)
Q Consensus       158 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~--~~~~~~~il~~l~~  217 (385)
                      .+.+||.++|++|+||||.+.++....  ...-..+..++. +.+.  ..+-++...+.++.
T Consensus         8 ~~~~vi~lvGp~GvGKTTTiaKLA~~~--~~~g~kV~lit~-Dt~R~gA~eQL~~~a~~l~v   66 (207)
T d1ls1a2           8 KDRNLWFLVGLQGSGKTTTAAKLALYY--KGKGRRPLLVAA-DTQRPAAREQLRLLGEKVGV   66 (207)
T ss_dssp             CSSEEEEEECCTTTTHHHHHHHHHHHH--HHTTCCEEEEEC-CSSCHHHHHHHHHHHHHHTC
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHH--HHCCCcEEEEec-ccccchHHHHHHHHHHhcCC
Confidence            456899999999999998776665432  222223444544 3333  34445555555544

>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=95.01  E-value=0.0065  Score=49.87  Aligned_cols=59  Identities=17%  Similarity=0.083  Sum_probs=29.7

Q ss_pred             CCCceEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecC-CCCHHHHHHHHHHHhhc
Q 038448          157 DDGLSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSE-DFDIIRVTKSILKSIAS  217 (385)
Q Consensus       157 ~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~-~~~~~~~~~~il~~l~~  217 (385)
                      ...+.||.++|+.|+||||.+-++..... .... .+..|+... .....+-++...+.++.
T Consensus         9 ~k~p~vi~lvGptGvGKTTTiAKLA~~~~-~~g~-kV~lit~Dt~R~ga~eQL~~~a~~l~v   68 (211)
T d1j8yf2           9 DKIPYVIMLVGVQGTGKATTAGKLAYFYK-KKGF-KVGLVGADVYRPAALEQLQQLGQQIGV   68 (211)
T ss_dssp             SSSSEEEEEECSCCC----HHHHHHHHHH-HTTC-CEEEEECCCSSHHHHHHHHHHHHHHTC
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHHHH-HCCC-ceEEEEeeccccchhHHHHHhccccCc
Confidence            45689999999999999886655554322 2222 355555432 12223334444444443

>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=94.98  E-value=0.0078  Score=48.56  Aligned_cols=27  Identities=22%  Similarity=0.491  Sum_probs=23.6

Q ss_pred             CCCceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          157 DDGLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       157 ~~~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .++++.|+|+|.+|+|||||...+.+.
T Consensus        20 ~~~~~~I~lvG~~n~GKSTLin~L~g~   46 (195)
T d1svia_          20 EGGLPEIALAGRSNVGKSSFINSLINR   46 (195)
T ss_dssp             CSCCCEEEEEEBTTSSHHHHHHHHHTC
T ss_pred             CCCCCEEEEECCCCCCHHHHHHHhcCC
Confidence            456778999999999999999999864

>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=94.97  E-value=0.0059  Score=50.98  Aligned_cols=22  Identities=32%  Similarity=0.329  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcc
Q 038448          162 VIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ||+|+|+.|.|||||...+..+
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            7999999999999999988653

>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=94.96  E-value=0.015  Score=47.69  Aligned_cols=23  Identities=26%  Similarity=0.380  Sum_probs=20.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ..|+|-|+.|+||||++..+.+.
T Consensus         4 ~lI~ieG~dGsGKsT~~~~L~~~   26 (209)
T d1nn5a_           4 ALIVLEGVDRAGKSTQSRKLVEA   26 (209)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            57899999999999999998774

>d1vmaa2 c.37.1.10 (A:82-294) GTPase domain of the signal recognition particle receptor FtsY {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Thermotoga maritima [TaxId: 2336]

Probab=94.94  E-value=0.0085  Score=49.25  Aligned_cols=59  Identities=15%  Similarity=0.046  Sum_probs=35.6

Q ss_pred             CCCceEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecC-CCCHHHHHHHHHHHhhc
Q 038448          157 DDGLSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSE-DFDIIRVTKSILKSIAS  217 (385)
Q Consensus       157 ~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~-~~~~~~~~~~il~~l~~  217 (385)
                      ...+.||.++|+.|+||||.+-++....  ..+=..+..++... .....+-++...+.++.
T Consensus         8 ~~~p~vi~lvGptGvGKTTTiAKLAa~~--~~~~~kV~lit~Dt~R~gA~eQL~~~a~~l~i   67 (213)
T d1vmaa2           8 PEPPFVIMVVGVNGTGKTTSCGKLAKMF--VDEGKSVVLAAADTFRAAAIEQLKIWGERVGA   67 (213)
T ss_dssp             SSSCEEEEEECCTTSSHHHHHHHHHHHH--HHTTCCEEEEEECTTCHHHHHHHHHHHHHHTC
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHHH--HHCCCceEEEeecccccchhHHHHHHhhhcCc
Confidence            3567899999999999998665655432  22223455565543 22334455555555544

>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=94.90  E-value=0.011  Score=49.46  Aligned_cols=33  Identities=12%  Similarity=0.045  Sum_probs=25.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhccccccccccceEEE
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWT  196 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv  196 (385)
                      .+++|+|+.|.|||||.+.+..-   ...-...+|+
T Consensus        25 e~~~liGpnGaGKSTll~~i~Gl---~~p~~G~I~~   57 (240)
T d2onka1          25 DYCVLLGPTGAGKSVFLELIAGI---VKPDRGEVRL   57 (240)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHTS---SCCSEEEEEE
T ss_pred             EEEEEECCCCChHHHHHHHHHcC---CCCCceEEEE
Confidence            47889999999999999999873   3333455555

>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=94.89  E-value=0.0098  Score=50.46  Aligned_cols=33  Identities=24%  Similarity=0.264  Sum_probs=25.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhccccccccccceEEE
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWT  196 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv  196 (385)
                      .+++|+|+.|.|||||++.+..   +...-...+++
T Consensus        29 Ei~~iiG~sGsGKSTLl~~i~G---l~~p~~G~I~~   61 (258)
T d1b0ua_          29 DVISIIGSSGSGKSTFLRCINF---LEKPSEGAIIV   61 (258)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTT---SSCCSEEEEEE
T ss_pred             CEEEEECCCCCcHHHHHHHHHc---CccCCCCCEEE
Confidence            6899999999999999999986   33334455554

>d1pzna2 c.37.1.11 (A:96-349) DNA repair protein Rad51, catalytic domain {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=94.88  E-value=0.028  Score=46.85  Aligned_cols=49  Identities=20%  Similarity=0.215  Sum_probs=33.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcccccc----ccccceEEEEecCCCCHHHH
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSDVRVH----NHFDLKAWTCVSEDFDIIRV  207 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~----~~F~~~~wv~vs~~~~~~~~  207 (385)
                      .=+++.|.|.+|+||||||.++..+....    ......+|+......+...+
T Consensus        35 ~G~~~li~G~pGsGKT~~~lq~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   87 (254)
T d1pzna2          35 TQAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTENTFRPERI   87 (254)
T ss_dssp             SSEEEEEEESTTSSHHHHHHHHHHHTTSCGGGTSCSCEEEEEESSSCCCHHHH
T ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHhhchHHhcCCCceEEEEeccchhHHHHH
Confidence            44799999999999999999886542111    11345678877666665433

>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=94.82  E-value=0.012  Score=49.31  Aligned_cols=22  Identities=23%  Similarity=0.377  Sum_probs=20.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      .+++|+|+.|.|||||++.++.
T Consensus        30 e~~~liG~sGaGKSTll~~i~g   51 (240)
T d1g2912          30 EFMILLGPSGCGKTTTLRMIAG   51 (240)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHT
T ss_pred             CEEEEECCCCChHHHHHHHHhc
Confidence            5899999999999999999975

>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=94.73  E-value=0.011  Score=49.82  Aligned_cols=33  Identities=21%  Similarity=0.247  Sum_probs=25.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhccccccccccceEEE
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWT  196 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv  196 (385)
                      .+++|+|..|.|||||++.+..   .-..-...+++
T Consensus        41 e~vaivG~sGsGKSTLl~li~g---l~~p~~G~I~i   73 (251)
T d1jj7a_          41 EVTALVGPNGSGKSTVAALLQN---LYQPTGGQLLL   73 (251)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTT---SSCCSEEEEEE
T ss_pred             CEEEEECCCCCcHHHHHHHHhc---ccCCCcCEEEE
Confidence            6899999999999999999976   22333444544

>d1r8sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF1 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF1 [TaxId: 9606]

Probab=94.70  E-value=0.0068  Score=46.78  Aligned_cols=22  Identities=27%  Similarity=0.255  Sum_probs=19.1

Q ss_pred             EEEEcCCCCcHHHHHHHHhccc
Q 038448          163 IPIIGTGRIGKTTLAQLAYSDV  184 (385)
Q Consensus       163 i~I~G~gGiGKTtLA~~v~~~~  184 (385)
                      |.|+|.+|+|||||..++..+.
T Consensus         3 ivlvG~~~vGKSsLi~~l~~~~   24 (160)
T d1r8sa_           3 ILMVGLDAAGKTTILYKLKLGE   24 (160)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHhcCC
Confidence            5699999999999999987653

>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=94.67  E-value=0.008  Score=46.74  Aligned_cols=23  Identities=30%  Similarity=0.247  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHhccc
Q 038448          162 VIPIIGTGRIGKTTLAQLAYSDV  184 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v~~~~  184 (385)
                      -|+|+|.+|+|||||..++.++.
T Consensus         7 kI~ivG~~~vGKSSLi~~~~~~~   29 (169)
T d1upta_           7 RILILGLDGAGKTTILYRLQVGE   29 (169)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            37799999999999999987764

>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=94.65  E-value=0.012  Score=49.72  Aligned_cols=22  Identities=27%  Similarity=0.511  Sum_probs=20.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      .+++|+|+.|.|||||++.+..
T Consensus        42 e~iaivG~sGsGKSTLl~ll~g   63 (253)
T d3b60a1          42 KTVALVGRSGSGKSTIASLITR   63 (253)
T ss_dssp             CEEEEEECTTSSHHHHHHHHTT
T ss_pred             CEEEEECCCCChHHHHHHHHhc
Confidence            5899999999999999999975

>d1v5wa_ c.37.1.11 (A:) Meiotic recombination protein DMC1/LIM15 homolog {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Meiotic recombination protein DMC1/LIM15 homolog
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.61  E-value=0.049  Score=45.24  Aligned_cols=48  Identities=15%  Similarity=0.104  Sum_probs=33.9

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHhcccc----ccccccceEEEEecCCCCHH
Q 038448          158 DGLSVIPIIGTGRIGKTTLAQLAYSDVR----VHNHFDLKAWTCVSEDFDII  205 (385)
Q Consensus       158 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~----~~~~F~~~~wv~vs~~~~~~  205 (385)
                      +.-+++.|.|.+|+|||++|.++..+..    ....+..+.|+.....+...
T Consensus        35 p~G~~~~i~G~~GsGKT~lalq~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   86 (258)
T d1v5wa_          35 ESMAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFIDTENTFRPD   86 (258)
T ss_dssp             CSSEEEEEECCTTCTHHHHHHHHHHHTTSCBTTTBCCCEEEEEESSSCCCHH
T ss_pred             cCCEEEEEECCCCCCHHHHHHHHHHHHHhhhhcccccceEEEechHHHHHHH
Confidence            3457999999999999999998865321    12334567788776665543

>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=94.61  E-value=0.0088  Score=51.64  Aligned_cols=22  Identities=36%  Similarity=0.436  Sum_probs=18.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      +.|+|.|-||+||||+|..+..
T Consensus         3 r~IaisgKGGVGKTT~a~NLA~   24 (289)
T d2afhe1           3 RQCAIYGKGGIGKSTTTQNLVA   24 (289)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            6788999999999998877654

>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=94.49  E-value=0.015  Score=48.47  Aligned_cols=22  Identities=23%  Similarity=0.394  Sum_probs=20.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      .+++|+|+.|.|||||.+.+..
T Consensus        33 e~~~liGpsGaGKSTLl~~i~G   54 (239)
T d1v43a3          33 EFLVLLGPSGCGKTTTLRMIAG   54 (239)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHT
T ss_pred             CEEEEECCCCChHHHHHHHHHc
Confidence            5899999999999999999976

>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=94.48  E-value=0.0094  Score=49.90  Aligned_cols=23  Identities=26%  Similarity=0.342  Sum_probs=21.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .+++|+|+.|.|||||++.++.-
T Consensus        32 e~~~iiG~sGsGKSTLl~~i~Gl   54 (240)
T d3dhwc1          32 QIYGVIGASGAGKSTLIRCVNLL   54 (240)
T ss_dssp             CEEEEEESTTSSHHHHHHHHTTS
T ss_pred             CEEEEECCCCCCHHHHHHHHcCC
Confidence            68999999999999999999873

>d1ihua1 c.37.1.10 (A:1-296) Arsenite-translocating ATPase ArsA {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Arsenite-translocating ATPase ArsA
species: Escherichia coli [TaxId: 562]

Probab=94.47  E-value=0.017  Score=49.57  Aligned_cols=24  Identities=21%  Similarity=0.252  Sum_probs=20.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      .+++|.+.|-||+||||+|..+..
T Consensus         7 ~p~~i~~sGKGGVGKTTvaa~lA~   30 (296)
T d1ihua1           7 IPPYLFFTGKGGVGKTSISCATAI   30 (296)
T ss_dssp             CCSEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCeEEEEECCCcChHHHHHHHHHH
Confidence            468899999999999998866654

>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=94.45  E-value=0.012  Score=50.56  Aligned_cols=27  Identities=19%  Similarity=0.155  Sum_probs=22.9

Q ss_pred             CCCceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          157 DDGLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       157 ~~~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ...+-+|+|.|..|+|||||+..+...
T Consensus        24 ~~~P~iIGi~G~qGSGKSTl~~~l~~~   50 (286)
T d1odfa_          24 NKCPLFIFFSGPQGSGKSFTSIQIYNH   50 (286)
T ss_dssp             CCSCEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCCCEEEEeECCCCCCHHHHHHHHHHH
Confidence            345679999999999999999887653

>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=94.43  E-value=0.029  Score=48.95  Aligned_cols=59  Identities=17%  Similarity=0.230  Sum_probs=35.4

Q ss_pred             HHHHHHHHHHHH--hhhhhhHHHHHHHHhc---CCCCCCCCceEEEEEcCCCCcHHHHHHHHhc
Q 038448          124 AKIEDRTIRLQE--IEKDKEKEETVKLLLR---DDLRTDDGLSVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       124 ~~i~~~~~~l~~--i~~~~~~~~l~~~L~~---~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      .++..+.++|+.  +++++-.+.|.+.+..   +....+....++.++|++|+|||.||+.+..
T Consensus        12 ~~l~~l~~~L~~~v~GQ~~ai~~v~~~i~~~~~~l~~~~kp~~~~lf~Gp~G~GKt~lak~la~   75 (315)
T d1qvra3          12 EKLLRLEEELHKRVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAA   75 (315)
T ss_dssp             HHHHSHHHHHHHHSCSCHHHHHHHHHHHHHHGGGCSCSSSCSEEEEEBSCSSSSHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCeEeCHHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCcchHHHHHHHHHH
Confidence            344455555544  2335555666554432   1211223345888999999999999988765

>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=94.40  E-value=0.016  Score=48.63  Aligned_cols=22  Identities=41%  Similarity=0.581  Sum_probs=20.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      ..++|+|..|.|||||++.+..
T Consensus        30 e~vaIvG~sGsGKSTLl~ll~g   51 (241)
T d2pmka1          30 EVIGIVGRSGSGKSTLTKLIQR   51 (241)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTT
T ss_pred             CEEEEECCCCCCHHHHHHHHHh
Confidence            5799999999999999999976

>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=94.36  E-value=0.011  Score=49.27  Aligned_cols=25  Identities=28%  Similarity=0.402  Sum_probs=22.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      +++.|+|=|+-|+||||+++.+...
T Consensus         1 ~pk~IviEG~~GsGKST~~~~L~~~   25 (241)
T d2ocpa1           1 GPRRLSIEGNIAVGKSTFVKLLTKT   25 (241)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHH
Confidence            4689999999999999999999764

>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=94.36  E-value=0.01  Score=48.46  Aligned_cols=23  Identities=17%  Similarity=0.247  Sum_probs=20.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .+|.|+|++|+|||||.+.+...
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            57889999999999999998763

>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=94.35  E-value=0.011  Score=49.16  Aligned_cols=22  Identities=23%  Similarity=0.440  Sum_probs=20.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      .+++|+|+.|.|||||.+.+..
T Consensus        27 ei~~liGpsGsGKSTLl~~i~G   48 (232)
T d2awna2          27 EFVVFVGPSGCGKSTLLRMIAG   48 (232)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHT
T ss_pred             CEEEEECCCCChHHHHHHHHhc
Confidence            6899999999999999999875

>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=94.28  E-value=0.018  Score=48.23  Aligned_cols=22  Identities=32%  Similarity=0.392  Sum_probs=20.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      ..++|+|+.|.|||||++.+..
T Consensus        29 e~vaivG~sGsGKSTLl~ll~g   50 (242)
T d1mv5a_          29 SIIAFAGPSGGGKSTIFSLLER   50 (242)
T ss_dssp             EEEEEECCTTSSHHHHHHHHTT
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            6899999999999999999864

>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=94.25  E-value=0.011  Score=48.27  Aligned_cols=19  Identities=26%  Similarity=0.389  Sum_probs=17.8

Q ss_pred             EEEEEcCCCCcHHHHHHHH
Q 038448          162 VIPIIGTGRIGKTTLAQLA  180 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v  180 (385)
                      +|+|+|+.|+||||+|..+
T Consensus         5 iIgitG~igSGKStv~~~l   23 (208)
T d1vhta_           5 IVALTGGIGSGKSTVANAF   23 (208)
T ss_dssp             EEEEECCTTSCHHHHHHHH
T ss_pred             EEEEECCCcCCHHHHHHHH
Confidence            8999999999999999866

>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=94.24  E-value=0.0068  Score=52.14  Aligned_cols=24  Identities=17%  Similarity=0.296  Sum_probs=18.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      ...||+|.|.+|+||||+++.+.+
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            456999999999999999988765

>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=94.18  E-value=0.012  Score=46.50  Aligned_cols=21  Identities=29%  Similarity=0.311  Sum_probs=18.8

Q ss_pred             EEEEcCCCCcHHHHHHHHhcc
Q 038448          163 IPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       163 i~I~G~gGiGKTtLA~~v~~~  183 (385)
                      |.++|.+|+|||||+.++.++
T Consensus         6 ivvvG~~~vGKTsli~r~~~~   26 (173)
T d2a5ja1           6 YIIIGDTGVGKSCLLLQFTDK   26 (173)
T ss_dssp             EEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHhcC
Confidence            678999999999999998765

>d1n0wa_ c.37.1.11 (A:) DNA repair protein Rad51, catalytic domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.18  E-value=0.011  Score=47.96  Aligned_cols=24  Identities=25%  Similarity=0.277  Sum_probs=21.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      =.++.|.|.+|+|||+||.++..+
T Consensus        23 G~v~~i~G~~GsGKT~l~l~la~~   46 (242)
T d1n0wa_          23 GSITEMFGEFRTGKTQICHTLAVT   46 (242)
T ss_dssp             TSEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CEEEEEEeCCCCCHHHHHHHHHHH
Confidence            378999999999999999888754

>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=94.18  E-value=0.014  Score=45.57  Aligned_cols=21  Identities=24%  Similarity=0.570  Sum_probs=18.5

Q ss_pred             EEEEcCCCCcHHHHHHHHhcc
Q 038448          163 IPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       163 i~I~G~gGiGKTtLA~~v~~~  183 (385)
                      |.++|.+|+|||||...+.++
T Consensus         5 v~liG~~~vGKSsLi~rl~~~   25 (164)
T d1z2aa1           5 MVVVGNGAVGKSSMIQRYCKG   25 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            679999999999999988754

>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=94.16  E-value=0.012  Score=45.90  Aligned_cols=21  Identities=33%  Similarity=0.474  Sum_probs=19.0

Q ss_pred             EEEEcCCCCcHHHHHHHHhcc
Q 038448          163 IPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       163 i~I~G~gGiGKTtLA~~v~~~  183 (385)
                      |.++|.+|+|||||..++.++
T Consensus         5 v~liG~~~vGKTsLl~~~~~~   25 (165)
T d1z06a1           5 IIVIGDSNVGKTCLTYRFCAG   25 (165)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            679999999999999988765

>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=94.09  E-value=0.013  Score=45.90  Aligned_cols=22  Identities=27%  Similarity=0.273  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcc
Q 038448          162 VIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      -|.|+|.+|+|||+|+.++.++
T Consensus         6 KivlvG~~~vGKTsli~~~~~~   27 (166)
T d1z0fa1           6 KYIIIGDMGVGKSCLLHQFTEK   27 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3779999999999999988754

>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=94.05  E-value=0.014  Score=45.83  Aligned_cols=21  Identities=24%  Similarity=0.529  Sum_probs=18.5

Q ss_pred             EEEEcCCCCcHHHHHHHHhcc
Q 038448          163 IPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       163 i~I~G~gGiGKTtLA~~v~~~  183 (385)
                      |.++|.+|+|||||...+.++
T Consensus         5 i~viG~~~vGKTsLi~r~~~~   25 (171)
T d2erxa1           5 VAVFGAGGVGKSSLVLRFVKG   25 (171)
T ss_dssp             EEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            568999999999999988765

>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=94.03  E-value=0.014  Score=50.25  Aligned_cols=23  Identities=30%  Similarity=0.499  Sum_probs=20.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .+++|+|+.|.|||||++.+..-
T Consensus        63 e~vaivG~nGsGKSTLl~~i~Gl   85 (281)
T d1r0wa_          63 EMLAITGSTGSGKTSLLMLILGE   85 (281)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHTS
T ss_pred             CEEEEECCCCChHHHHHHHHhCC
Confidence            67999999999999999999753

>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=94.02  E-value=0.014  Score=45.56  Aligned_cols=21  Identities=24%  Similarity=0.412  Sum_probs=18.8

Q ss_pred             EEEEcCCCCcHHHHHHHHhcc
Q 038448          163 IPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       163 i~I~G~gGiGKTtLA~~v~~~  183 (385)
                      |.|+|.+|+|||||..++.++
T Consensus         5 i~ivG~~~~GKTsLi~~l~~~   25 (165)
T d1ksha_           5 LLMLGLDNAGKTTILKKFNGE   25 (165)
T ss_dssp             EEEECSTTSSHHHHHHHHTTC
T ss_pred             EEEECCCCCCHHHHHHHHcCC
Confidence            679999999999999998764

>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=93.96  E-value=0.014  Score=47.52  Aligned_cols=21  Identities=33%  Similarity=0.376  Sum_probs=18.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHh
Q 038448          161 SVIPIIGTGRIGKTTLAQLAY  181 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~  181 (385)
                      -+|+|+|..|+||||+|+.+-
T Consensus         3 ~iIgITG~igSGKStv~~~l~   23 (205)
T d1jjva_           3 YIVGLTGGIGSGKTTIANLFT   23 (205)
T ss_dssp             EEEEEECSTTSCHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHH
Confidence            489999999999999998763

>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=93.86  E-value=0.041  Score=44.71  Aligned_cols=23  Identities=30%  Similarity=0.290  Sum_probs=20.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      +.|+|-|+.|+||||++..+...
T Consensus         3 kfIviEG~dGsGKsT~~~~L~~~   25 (210)
T d4tmka_           3 KYIVIEGLEGAGKTTARNVVVET   25 (210)
T ss_dssp             CEEEEEECTTSCHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHH
Confidence            46889999999999999998764

>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=93.81  E-value=0.015  Score=45.23  Aligned_cols=21  Identities=29%  Similarity=0.450  Sum_probs=18.7

Q ss_pred             EEEEcCCCCcHHHHHHHHhcc
Q 038448          163 IPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       163 i~I~G~gGiGKTtLA~~v~~~  183 (385)
                      |.++|.+|+|||+|+.++.++
T Consensus         3 v~vvG~~~vGKTsLi~r~~~~   23 (164)
T d1yzqa1           3 LVFLGEQSVGKTSLITRFMYD   23 (164)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678999999999999988754

>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=93.81  E-value=0.017  Score=45.29  Aligned_cols=22  Identities=27%  Similarity=0.433  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcc
Q 038448          162 VIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .|+|+|.+|+|||||..++...
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            5899999999999999998753

>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=93.79  E-value=0.016  Score=45.54  Aligned_cols=21  Identities=38%  Similarity=0.488  Sum_probs=18.7

Q ss_pred             EEEEcCCCCcHHHHHHHHhcc
Q 038448          163 IPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       163 i~I~G~gGiGKTtLA~~v~~~  183 (385)
                      |.++|.+|+|||||...+.++
T Consensus         8 i~vvG~~~vGKTsLi~~l~~~   28 (169)
T d3raba_           8 ILIIGNSSVGKTSFLFRYADD   28 (169)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHcC
Confidence            789999999999999988654

>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=93.79  E-value=0.015  Score=45.63  Aligned_cols=22  Identities=32%  Similarity=0.430  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcc
Q 038448          162 VIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      -|.++|.+|+|||||...+.++
T Consensus         7 Ki~lvG~~~vGKTsLi~~l~~~   28 (171)
T d2ew1a1           7 KIVLIGNAGVGKTCLVRRFTQG   28 (171)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3779999999999999988764

>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=93.78  E-value=0.017  Score=46.10  Aligned_cols=22  Identities=23%  Similarity=0.308  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcc
Q 038448          162 VIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      -|.|+|.+|+|||||+..+.++
T Consensus         7 Ki~ivG~~~vGKTsLi~~l~~~   28 (186)
T d2f7sa1           7 KLLALGDSGVGKTTFLYRYTDN   28 (186)
T ss_dssp             EEEEESCTTSSHHHHHHHHHCS
T ss_pred             EEEEECCCCcCHHHHHHHHhcC
Confidence            3679999999999999998765

>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=93.77  E-value=0.025  Score=47.34  Aligned_cols=33  Identities=21%  Similarity=0.135  Sum_probs=25.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhccccccccccceEEE
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWT  196 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv  196 (385)
                      .+++|+|+.|.|||||.+.+..-   ...-...+.+
T Consensus        33 ei~~liGpnGaGKSTl~~~i~Gl---~~p~~G~I~~   65 (240)
T d1ji0a_          33 QIVTLIGANGAGKTTTLSAIAGL---VRAQKGKIIF   65 (240)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTS---SCCSEEEEEE
T ss_pred             CEEEEECCCCCcHHHHHHHHhCC---CCCCccEEEe
Confidence            58999999999999999999873   2333445544

>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=93.76  E-value=0.013  Score=48.59  Aligned_cols=22  Identities=27%  Similarity=0.362  Sum_probs=20.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      .+++|+|+.|.|||||.+.+..
T Consensus        27 e~~~liGpsGaGKSTll~~l~G   48 (229)
T d3d31a2          27 EYFVILGPTGAGKTLFLELIAG   48 (229)
T ss_dssp             CEEEEECCCTHHHHHHHHHHHT
T ss_pred             CEEEEECCCCCcHHHHHHHHhc
Confidence            5899999999999999999986

>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=93.76  E-value=0.017  Score=45.26  Aligned_cols=21  Identities=24%  Similarity=0.444  Sum_probs=18.6

Q ss_pred             EEEEcCCCCcHHHHHHHHhcc
Q 038448          163 IPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       163 i~I~G~gGiGKTtLA~~v~~~  183 (385)
                      |.++|.+|+|||+|+..+.+.
T Consensus         4 i~lvG~~~vGKTsLi~~~~~~   24 (168)
T d2gjsa1           4 VLLLGAPGVGKSALARIFGGV   24 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEECCCCcCHHHHHHHHhCC
Confidence            678999999999999988764

>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=93.72  E-value=0.016  Score=45.30  Aligned_cols=22  Identities=18%  Similarity=0.360  Sum_probs=19.0

Q ss_pred             EEEEcCCCCcHHHHHHHHhccc
Q 038448          163 IPIIGTGRIGKTTLAQLAYSDV  184 (385)
Q Consensus       163 i~I~G~gGiGKTtLA~~v~~~~  184 (385)
                      |.|+|.+|+|||||..++.++.
T Consensus         7 i~lvG~~~vGKTsli~rl~~~~   28 (167)
T d1z0ja1           7 VCLLGDTGVGKSSIMWRFVEDS   28 (167)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            6688999999999999987653

>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=93.70  E-value=0.033  Score=49.59  Aligned_cols=26  Identities=27%  Similarity=0.060  Sum_probs=23.0

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          158 DGLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       158 ~~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      +..+.+.++|++|+|||++|..+.+.
T Consensus       152 ~~~~~~~~~g~~~~gk~~~~~~~~~~  177 (362)
T d1svma_         152 PKKRYWLFKGPIDSGKTTLAAALLEL  177 (362)
T ss_dssp             TTCCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCcCeEEEECCCCCCHHHHHHHHHHH
Confidence            35578999999999999999999874

>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=93.70  E-value=0.016  Score=45.26  Aligned_cols=21  Identities=29%  Similarity=0.551  Sum_probs=18.6

Q ss_pred             EEEEcCCCCcHHHHHHHHhcc
Q 038448          163 IPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       163 i~I~G~gGiGKTtLA~~v~~~  183 (385)
                      |.|+|.+|+|||+|..++.++
T Consensus         6 ivlvG~~~vGKTsLi~r~~~~   26 (167)
T d1z08a1           6 VVLLGEGCVGKTSLVLRYCEN   26 (167)
T ss_dssp             EEEECCTTSCHHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            679999999999999988754

>d2i1qa2 c.37.1.11 (A:65-322) DNA repair protein Rad51, catalytic domain {Archaeon Methanococcus voltae [TaxId: 2188]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Archaeon Methanococcus voltae [TaxId: 2188]

Probab=93.67  E-value=0.043  Score=45.35  Aligned_cols=24  Identities=25%  Similarity=0.245  Sum_probs=21.4

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      =.++.|.|.+|+|||++|.++..+
T Consensus        34 G~l~~i~G~~G~GKT~~~l~~a~~   57 (258)
T d2i1qa2          34 QSVTEFAGVFGSGKTQIMHQSCVN   57 (258)
T ss_dssp             TEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHHH
Confidence            379999999999999999988754

>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=93.66  E-value=0.017  Score=45.17  Aligned_cols=21  Identities=24%  Similarity=0.566  Sum_probs=18.8

Q ss_pred             EEEEcCCCCcHHHHHHHHhcc
Q 038448          163 IPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       163 i~I~G~gGiGKTtLA~~v~~~  183 (385)
                      |.++|-+|+|||||..++.++
T Consensus         6 i~lvG~~~vGKTsLi~r~~~~   26 (167)
T d1kaoa_           6 VVVLGSGGVGKSALTVQFVTG   26 (167)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678999999999999988765

>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=93.62  E-value=0.017  Score=45.26  Aligned_cols=21  Identities=19%  Similarity=0.412  Sum_probs=18.6

Q ss_pred             EEEEcCCCCcHHHHHHHHhcc
Q 038448          163 IPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       163 i~I~G~gGiGKTtLA~~v~~~  183 (385)
                      |.++|.+|+|||||+.++.++
T Consensus         9 i~vvG~~~vGKTsLi~~l~~~   29 (170)
T d1r2qa_           9 LVLLGESAVGKSSLVLRFVKG   29 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            679999999999999988754

>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=93.62  E-value=0.018  Score=48.09  Aligned_cols=22  Identities=27%  Similarity=0.418  Sum_probs=20.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      .+++|+|+.|.|||||.+.+..
T Consensus        32 e~~~iiG~sGsGKSTll~~i~g   53 (242)
T d1oxxk2          32 ERFGILGPSGAGKTTFMRIIAG   53 (242)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHT
T ss_pred             CEEEEECCCCCcHHHHHHHHHc
Confidence            6899999999999999999976

>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=93.59  E-value=0.027  Score=47.51  Aligned_cols=23  Identities=35%  Similarity=0.378  Sum_probs=21.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .+++|+|+.|.|||||++.+..-
T Consensus        31 ei~~liG~nGaGKSTLl~~i~Gl   53 (254)
T d1g6ha_          31 DVTLIIGPNGSGKSTLINVITGF   53 (254)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CEEEEECCCCCcHHHHHHHHHCC
Confidence            58999999999999999999874

>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=93.58  E-value=0.018  Score=45.33  Aligned_cols=22  Identities=32%  Similarity=0.502  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcc
Q 038448          162 VIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      -|.++|.+|+|||||...+.++
T Consensus         4 Ki~~vG~~~vGKSsLi~~~~~~   25 (175)
T d1ky3a_           4 KVIILGDSGVGKTSLMHRYVND   25 (175)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHcC
Confidence            4789999999999999988754

>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=93.56  E-value=0.023  Score=44.90  Aligned_cols=24  Identities=25%  Similarity=0.390  Sum_probs=21.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ...|+|+|.+|+|||||...+.+.
T Consensus         5 ~~~I~lvG~~~~GKSSLin~l~~~   28 (178)
T d1wf3a1           5 SGFVAIVGKPNVGKSTLLNNLLGV   28 (178)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC
Confidence            468999999999999999999865

>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=93.54  E-value=0.018  Score=45.11  Aligned_cols=21  Identities=24%  Similarity=0.463  Sum_probs=18.7

Q ss_pred             EEEEcCCCCcHHHHHHHHhcc
Q 038448          163 IPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       163 i~I~G~gGiGKTtLA~~v~~~  183 (385)
                      |.++|.+|+|||+|...+.++
T Consensus         5 i~lvG~~~vGKTsli~r~~~~   25 (168)
T d2atva1           5 LAIFGRAGVGKSALVVRFLTK   25 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            578999999999999998865

>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=93.53  E-value=0.013  Score=48.72  Aligned_cols=24  Identities=25%  Similarity=0.285  Sum_probs=21.4

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .+.|+|-|+.|+||||+++.+...
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            478999999999999999988764

>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=93.50  E-value=0.018  Score=44.86  Aligned_cols=22  Identities=32%  Similarity=0.415  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcc
Q 038448          162 VIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      -|.++|.+|+|||||..++.++
T Consensus         4 Ki~vvG~~~vGKTSli~~l~~~   25 (166)
T d1g16a_           4 KILLIGDSGVGKSCLLVRFVED   25 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3779999999999999988764

>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=93.47  E-value=0.02  Score=46.32  Aligned_cols=23  Identities=39%  Similarity=0.463  Sum_probs=20.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ..|.|+|.+|+|||||..++.+.
T Consensus         4 p~V~lvG~~n~GKTSLln~l~~~   26 (209)
T d1nrjb_           4 PSIIIAGPQNSGKTSLLTLLTTD   26 (209)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            47899999999999999999765

>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=93.46  E-value=0.019  Score=45.20  Aligned_cols=22  Identities=23%  Similarity=0.320  Sum_probs=18.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcc
Q 038448          162 VIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      -|.++|.+|+|||||+.++..+
T Consensus         7 KI~lvG~~~vGKTsll~~~~~~   28 (174)
T d2bmea1           7 KFLVIGNAGTGKSCLLHQFIEK   28 (174)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3789999999999999987644

>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=93.45  E-value=0.023  Score=44.76  Aligned_cols=25  Identities=28%  Similarity=0.400  Sum_probs=21.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      -...|+|+|.+|+|||||..++.+.
T Consensus         4 ~~~~I~iiG~~nvGKSSLin~L~~~   28 (179)
T d1egaa1           4 YCGFIAIVGRPNVGKSTLLNKLLGQ   28 (179)
T ss_dssp             EEEEEEEECSSSSSHHHHHHHHHTC
T ss_pred             cccEEEEECCCCCCHHHHHHHHhCC
Confidence            3567999999999999999999864

>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=93.45  E-value=0.019  Score=45.09  Aligned_cols=22  Identities=23%  Similarity=0.457  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcc
Q 038448          162 VIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      -|.++|.+|+|||+|...+.++
T Consensus         7 Ki~lvG~~~vGKTsLi~r~~~~   28 (171)
T d2erya1           7 RLVVVGGGGVGKSALTIQFIQS   28 (171)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            3778999999999999987764

>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=93.44  E-value=0.019  Score=45.26  Aligned_cols=22  Identities=23%  Similarity=0.394  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcc
Q 038448          162 VIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      -|.++|.+|+|||||+..+.++
T Consensus         6 Ki~vvG~~~vGKTsLi~~~~~~   27 (175)
T d2f9la1           6 KVVLIGDSGVGKSNLLSRFTRN   27 (175)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3789999999999999988664

>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=93.43  E-value=0.021  Score=47.05  Aligned_cols=37  Identities=19%  Similarity=0.109  Sum_probs=26.8

Q ss_pred             eEEEEE-cCCCCcHHHHHHHHhccccccccccceEEEEec
Q 038448          161 SVIPII-GTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVS  199 (385)
Q Consensus       161 ~vi~I~-G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs  199 (385)
                      +||+|+ |-||+||||+|..+...  ....-..+++|...
T Consensus         2 kvIav~s~KGGvGKTtia~nlA~~--la~~g~~VlliD~D   39 (232)
T d1hyqa_           2 RTITVASGKGGTGKTTITANLGVA--LAQLGHDVTIVDAD   39 (232)
T ss_dssp             EEEEEEESSSCSCHHHHHHHHHHH--HHHTTCCEEEEECC
T ss_pred             EEEEEECCCCCChHHHHHHHHHHH--HHhCCCCEEEEeCC
Confidence            789998 67999999999887654  22333356677654

>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=93.42  E-value=0.027  Score=44.23  Aligned_cols=23  Identities=22%  Similarity=0.439  Sum_probs=19.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      --|.|+|.+|+|||+|...+.++
T Consensus         7 ~Kv~lvG~~~vGKTsLi~r~~~~   29 (173)
T d2fn4a1           7 HKLVVVGGGGVGKSALTIQFIQS   29 (173)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCcCHHHHHHHHHhC
Confidence            34679999999999999988764

>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=93.37  E-value=0.02  Score=46.35  Aligned_cols=22  Identities=32%  Similarity=0.382  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcc
Q 038448          162 VIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .|+|-|+-|+||||++..+...
T Consensus         2 lI~ieG~dGsGKST~~~~L~~~   23 (208)
T d1gsia_           2 LIAIEGVDGAGKRTLVEKLSGA   23 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            5889999999999999988763

>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=93.36  E-value=0.02  Score=47.81  Aligned_cols=23  Identities=26%  Similarity=0.381  Sum_probs=20.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .+++|+|+.|.|||||.+.+..-
T Consensus        29 ei~glvG~nGaGKSTLl~~l~G~   51 (238)
T d1vpla_          29 EIFGLIGPNGAGKTTTLRIISTL   51 (238)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CEEEEECCCCCCHHHHHHHHhcC
Confidence            68999999999999999999763

>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=93.34  E-value=0.02  Score=44.64  Aligned_cols=23  Identities=26%  Similarity=0.387  Sum_probs=19.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .-|.|+|.+|+|||||...+.++
T Consensus         5 ~Kv~liG~~~vGKTsLl~~~~~~   27 (167)
T d1xtqa1           5 RKIAILGYRSVGKSSLTIQFVEG   27 (167)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCcCHHHHHHHHHhC
Confidence            45778999999999999987654

>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=93.31  E-value=0.021  Score=44.58  Aligned_cols=21  Identities=24%  Similarity=0.582  Sum_probs=18.9

Q ss_pred             EEEEcCCCCcHHHHHHHHhcc
Q 038448          163 IPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       163 i~I~G~gGiGKTtLA~~v~~~  183 (385)
                      |.++|.+|+|||||..++.++
T Consensus         6 i~viG~~~vGKTsli~~l~~~   26 (166)
T d1ctqa_           6 LVVVGAGGVGKSALTIQLIQN   26 (166)
T ss_dssp             EEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            778999999999999998765

>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=93.30  E-value=0.021  Score=43.81  Aligned_cols=22  Identities=32%  Similarity=0.477  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcc
Q 038448          162 VIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      -|.++|.+|+|||||...+.+.
T Consensus         2 KI~liG~~nvGKSSLln~l~~~   23 (166)
T d2qtvb1           2 KLLFLGLDNAGKTTLLHMLKND   23 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4789999999999999988764

>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=93.26  E-value=0.023  Score=44.69  Aligned_cols=24  Identities=29%  Similarity=0.426  Sum_probs=20.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ..-|.++|.+|+|||||..++...
T Consensus        13 ~~kI~lvG~~~vGKTsLl~~l~~~   36 (186)
T d1f6ba_          13 TGKLVFLGLDNAGKTTLLHMLKDD   36 (186)
T ss_dssp             CEEEEEEEETTSSHHHHHHHHSCC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            345779999999999999988654

>d1fzqa_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL3 [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL3 [TaxId: 10090]

Probab=93.25  E-value=0.03  Score=43.89  Aligned_cols=23  Identities=35%  Similarity=0.410  Sum_probs=19.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      --|.++|.+|+|||||..++...
T Consensus        17 ~kI~vvG~~~vGKSsLi~~l~~~   39 (176)
T d1fzqa_          17 VRILLLGLDNAGKTTLLKQLASE   39 (176)
T ss_dssp             EEEEEEESTTSSHHHHHHHHCCS
T ss_pred             EEEEEECCCCCCHHHHHHHHhcC
Confidence            44779999999999999998765

>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=93.25  E-value=0.022  Score=44.52  Aligned_cols=21  Identities=24%  Similarity=0.540  Sum_probs=18.5

Q ss_pred             EEEEcCCCCcHHHHHHHHhcc
Q 038448          163 IPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       163 i~I~G~gGiGKTtLA~~v~~~  183 (385)
                      |.++|.+|+|||+|..++..+
T Consensus         6 ivvvG~~~vGKTsli~r~~~~   26 (167)
T d1c1ya_           6 LVVLGSGGVGKSALTVQFVQG   26 (167)
T ss_dssp             EEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHcC
Confidence            678999999999999988655

>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=93.23  E-value=0.022  Score=47.09  Aligned_cols=25  Identities=28%  Similarity=0.311  Sum_probs=22.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .+.|..|.|+-|.|||||.+++...
T Consensus         2 ~iPv~iitGFLGaGKTTll~~lL~~   26 (222)
T d1nija1           2 PIAVTLLTGFLGAGKTTLLRHILNE   26 (222)
T ss_dssp             CEEEEEEEESSSSSCHHHHHHHHHS
T ss_pred             CCCEEEEeeCCCCCHHHHHHHHHhc
Confidence            5689999999999999999998764

>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=93.22  E-value=0.015  Score=46.02  Aligned_cols=21  Identities=19%  Similarity=0.336  Sum_probs=19.0

Q ss_pred             EEEEcCCCCcHHHHHHHHhcc
Q 038448          163 IPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       163 i~I~G~gGiGKTtLA~~v~~~  183 (385)
                      |+|+|.+|+|||||...+.+.
T Consensus         4 VaivG~~nvGKSTLin~L~~~   24 (180)
T d1udxa2           4 VGLVGYPNAGKSSLLAAMTRA   24 (180)
T ss_dssp             EEEECCGGGCHHHHHHHHCSS
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            899999999999999998753

>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=93.19  E-value=0.024  Score=48.15  Aligned_cols=148  Identities=11%  Similarity=0.013  Sum_probs=73.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEe----cCCC-CHHHHHHHHHHHhhcCCCC--CccchHHhh-
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCV----SEDF-DIIRVTKSILKSIASDQLV--DDHDLNLLQ-  230 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v----s~~~-~~~~~~~~il~~l~~~~~~--~~~~~~~l~-  230 (385)
                      ..+-|.++|++|.|||+||+.+++.  ..-+|   +-++.    +... .....++.++.......+.  -.++++.+- 
T Consensus        40 ~~~giLL~Gp~GtGKT~l~~ala~~--~~~~~---~~~~~~~l~~~~~~~~~~~l~~~f~~A~~~~p~il~ideid~l~~  114 (265)
T d1r7ra3          40 PSKGVLFYGPPGCGKTLLAKAIANE--CQANF---ISIKGPELLTMWFGESEANVREIFDKARQAAPCVLFFDELDSIAK  114 (265)
T ss_dssp             CCCEEEEBCCTTSSHHHHHHHHHHH--TTCEE---EEECHHHHHTSCTTTHHHHHHHHHHHHHHTCSEEEEESSGGGTCC
T ss_pred             CCCeEEEECCCCCcchhHHHHHHHH--hCCcE---EEEEHHHhhhccccchHHHHHHHHHHHHhcCCcceeHHhhhhccc
Confidence            4567889999999999999999885  32222   11221    1111 2344455555544433321  123333222 


Q ss_pred             --------chh----hHhhHhhhccC--CCCCcEEEEEcCChhHH-hhcC----CCCcccCCCCChhhHHhhhhccccCC
Q 038448          231 --------KYN----DWTNRSRLFEA--GAPGSKIVFTTRNLGVA-EKMG----PLPAYPLKELSNDDCLSVFSPHSLGE  291 (385)
Q Consensus       231 --------~~~----~w~~l~~~l~~--~~~gs~IivTTR~~~va-~~~~----~~~~~~l~~L~~~~a~~Lf~~~a~~~  291 (385)
                              ...    ....+...+..  ...+--||.||....-. ..+.    -...+++...+.++-..+|.... ..
T Consensus       115 ~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vi~ttn~~~~ld~al~r~gRf~~~i~~~~p~~~~R~~il~~~l-~~  193 (265)
T d1r7ra3         115 ARGGNIGDGGGAADRVINQILTEMDGMSTKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANL-RK  193 (265)
T ss_dssp             HHHHCCCTTHHHHHHHHHHHHHTCC------CCEEEECCBSCTTTSCGGGSSTTSEEEEECCCCCCHHHHHHHHHHT-TC
T ss_pred             cCCCcCCCCcHHHHHHHHHHHHHhhCcCCCCCEEEEEeCCCchhCCHHHhCCCCccEEEEecchHHHHHHHHHHHHh-cc
Confidence                    000    11222222321  12334556677755432 2221    22568899999999888887553 22


Q ss_pred             CCCCCCccHHHHHHHHHHHcCCChH
Q 038448          292 KDFSTHPSLKEIGEKIVKKCNGLPL  316 (385)
Q Consensus       292 ~~~~~~~~l~~~~~~i~~~c~glPL  316 (385)
                      .......+    ..+|++++.|+..
T Consensus       194 ~~~~~~~~----l~~la~~t~g~s~  214 (265)
T d1r7ra3         194 SPVAKDVD----LEFLAKMTNGFSG  214 (265)
T ss_dssp             C----CCC----CHHHHHHHCSSCC
T ss_pred             CCchhhhh----HHHHHhcCCCCCH
Confidence            11111122    2557777777653

>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=93.13  E-value=0.024  Score=45.92  Aligned_cols=23  Identities=22%  Similarity=0.225  Sum_probs=20.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      +-|.|+|.+|+|||||..++...
T Consensus         1 k~V~ivG~~~~GKTsLl~~l~~~   23 (207)
T d2fh5b1           1 RAVLFVGLCDSGKTLLFVRLLTG   23 (207)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHS
T ss_pred             CEEEEECCCCCCHHHHHHHHHcC
Confidence            45899999999999999998764

>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=93.11  E-value=0.05  Score=46.05  Aligned_cols=45  Identities=22%  Similarity=0.188  Sum_probs=35.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecCCCCHH
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDFDII  205 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~  205 (385)
                      .-+++-|+|.+|+||||||.+++...  +..=..++|+..-..++..
T Consensus        53 ~g~itei~G~~gsGKTtl~l~~~~~~--q~~g~~~vyidtE~~~~~~   97 (263)
T d1u94a1          53 MGRIVEIYGPESSGKTTLTLQVIAAA--QREGKTCAFIDAEHALDPI   97 (263)
T ss_dssp             TTSEEEEECSTTSSHHHHHHHHHHHH--HHTTCCEEEEESSCCCCHH
T ss_pred             CceEEEEecCCCcHHHHHHHHHHHHH--HcCCCEEEEEccccccCHH
Confidence            34799999999999999999888753  3333457899888887764

>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=93.10  E-value=0.023  Score=44.82  Aligned_cols=22  Identities=36%  Similarity=0.531  Sum_probs=18.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcc
Q 038448          162 VIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      -|.|+|.+|+|||+|...+.++
T Consensus         4 KivvvG~~~vGKTsLi~~~~~~   25 (177)
T d1kmqa_           4 KLVIVGDGACGKTCLLIVNSKD   25 (177)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3678899999999999888765

>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=93.08  E-value=0.023  Score=44.90  Aligned_cols=22  Identities=27%  Similarity=0.345  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcc
Q 038448          162 VIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      -|+|+|.+|+|||||...+.+.
T Consensus         2 ~I~lvG~~nvGKSsLin~l~~~   23 (184)
T d2cxxa1           2 TIIFAGRSNVGKSTLIYRLTGK   23 (184)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4899999999999999999864

>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=93.08  E-value=0.023  Score=45.67  Aligned_cols=22  Identities=27%  Similarity=0.395  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcc
Q 038448          162 VIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      -|.|+|.+|+|||||...+.++
T Consensus         8 KivvvG~~~vGKTsli~~l~~~   29 (194)
T d2bcgy1           8 KLLLIGNSGVGKSCLLLRFSDD   29 (194)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEEECCCCcCHHHHHHHHhhC
Confidence            3779999999999999988765

>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=93.00  E-value=0.025  Score=44.26  Aligned_cols=21  Identities=19%  Similarity=0.461  Sum_probs=18.3

Q ss_pred             EEEEcCCCCcHHHHHHHHhcc
Q 038448          163 IPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       163 i~I~G~gGiGKTtLA~~v~~~  183 (385)
                      |.++|.+|+|||+|..++.++
T Consensus         6 i~vvG~~~vGKTsLi~~~~~~   26 (170)
T d1ek0a_           6 LVLLGEAAVGKSSIVLRFVSN   26 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            568999999999999987654

>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=92.91  E-value=0.025  Score=45.04  Aligned_cols=22  Identities=32%  Similarity=0.456  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcc
Q 038448          162 VIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      -|.|+|.+|+|||+|...+.++
T Consensus        11 Ki~lvG~~~vGKTsLi~r~~~~   32 (185)
T d2atxa1          11 KCVVVGDGAVGKTCLLMSYAND   32 (185)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhhC
Confidence            3789999999999999988765

>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=92.82  E-value=0.039  Score=43.16  Aligned_cols=23  Identities=26%  Similarity=0.296  Sum_probs=19.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      --|.|+|.+|+|||||..++..+
T Consensus        16 ~kI~vvG~~~~GKSsLi~rl~~~   38 (177)
T d1zj6a1          16 HKVIIVGLDNAGKTTILYQFSMN   38 (177)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHTT
T ss_pred             EEEEEECCCCCCHHHHHHHHhcC
Confidence            34669999999999999988765

>d1moza_ c.37.1.8 (A:) ADP-ribosylation factor {Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]

Probab=92.79  E-value=0.038  Score=43.64  Aligned_cols=25  Identities=32%  Similarity=0.315  Sum_probs=20.2

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          158 DGLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       158 ~~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ..++ |.++|.+|+|||||..++.+.
T Consensus        16 k~~K-I~lvG~~~vGKTsLi~~l~~~   40 (182)
T d1moza_          16 KELR-ILILGLDGAGKTTILYRLQIG   40 (182)
T ss_dssp             SCEE-EEEEEETTSSHHHHHHHTCCS
T ss_pred             ceEE-EEEECCCCCCHHHHHHHHhcC
Confidence            3455 559999999999999988654

>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=92.76  E-value=0.019  Score=45.72  Aligned_cols=22  Identities=27%  Similarity=0.439  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcc
Q 038448          162 VIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      -|+|+|.+++|||||...+.+.
T Consensus         3 ~VaiiG~~nvGKSSLin~L~~~   24 (185)
T d1lnza2           3 DVGLVGFPSVGKSTLLSVVSSA   24 (185)
T ss_dssp             CEEEESSTTSSHHHHHHHSEEE
T ss_pred             eEEEECCCCCCHHHHHHHHhCC
Confidence            4899999999999999998653

>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=92.74  E-value=0.028  Score=43.94  Aligned_cols=22  Identities=23%  Similarity=0.321  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcc
Q 038448          162 VIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      -|.|+|.+|+|||+|+.++.+.
T Consensus         8 Ki~vvG~~~vGKTsli~~~~~~   29 (170)
T d2g6ba1           8 KVMLVGDSGVGKTCLLVRFKDG   29 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3789999999999999987654

>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=92.72  E-value=0.096  Score=44.32  Aligned_cols=47  Identities=26%  Similarity=0.183  Sum_probs=36.6

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecCCCCHHH
Q 038448          158 DGLSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDFDIIR  206 (385)
Q Consensus       158 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~  206 (385)
                      +.-+++-|.|.+|+||||||..++..  .+..=..++||..-..++...
T Consensus        58 ~~g~i~e~~G~~~~GKT~l~l~~~~~--~q~~g~~~vyIDtE~~~~~e~  104 (269)
T d1mo6a1          58 PRGRVIEIYGPESSGKTTVALHAVAN--AQAAGGVAAFIDAEHALDPDY  104 (269)
T ss_dssp             CSSSEEEEECSSSSSHHHHHHHHHHH--HHHTTCEEEEEESSCCCCHHH
T ss_pred             ccceeEEEecCCCcHHHHHHHHHHHH--HhcCCCEEEEEECCccCCHHH
Confidence            45589999999999999999887765  333334689999888888654

>d1zd9a1 c.37.1.8 (A:18-181) ADP-ribosylation factor {Human (Homo sapiens), ARL8A [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL8A [TaxId: 9606]

Probab=92.66  E-value=0.03  Score=43.52  Aligned_cols=21  Identities=29%  Similarity=0.449  Sum_probs=18.2

Q ss_pred             EEEEcCCCCcHHHHHHHHhcc
Q 038448          163 IPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       163 i~I~G~gGiGKTtLA~~v~~~  183 (385)
                      |.++|.+|+|||||..++..+
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            568899999999999988654

>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=92.66  E-value=0.032  Score=45.95  Aligned_cols=37  Identities=22%  Similarity=0.171  Sum_probs=25.3

Q ss_pred             eEEEEE-cCCCCcHHHHHHHHhccccccccccceEEEEec
Q 038448          161 SVIPII-GTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVS  199 (385)
Q Consensus       161 ~vi~I~-G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs  199 (385)
                      +||+|+ +-||+||||+|..+....  ...-..++-+...
T Consensus         3 ~vIav~~~kGGvGKTtia~nLA~~l--a~~g~~VlliD~D   40 (237)
T d1g3qa_           3 RIISIVSGKGGTGKTTVTANLSVAL--GDRGRKVLAVDGD   40 (237)
T ss_dssp             EEEEEECSSTTSSHHHHHHHHHHHH--HHTTCCEEEEECC
T ss_pred             eEEEEECCCCCCcHHHHHHHHHHHH--HhCCCCEEEEeCC
Confidence            689999 569999999998876542  2222345556543

>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=92.64  E-value=0.031  Score=43.89  Aligned_cols=21  Identities=33%  Similarity=0.529  Sum_probs=18.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHhc
Q 038448          162 VIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      -|.++|.+|+|||+|...+..
T Consensus         5 Kv~lvG~~~vGKTsLi~~~~~   25 (172)
T d2g3ya1           5 RVVLIGEQGVGKSTLANIFAG   25 (172)
T ss_dssp             EEEEECCTTSSHHHHHHHHHC
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            367999999999999998865

>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=92.63  E-value=0.024  Score=47.13  Aligned_cols=22  Identities=23%  Similarity=0.424  Sum_probs=20.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      .+++|+|+.|.|||||.+.+..
T Consensus        26 ei~~iiG~nGaGKSTLl~~l~G   47 (231)
T d1l7vc_          26 EILHLVGPNGAGKSTLLARMAG   47 (231)
T ss_dssp             CEEECBCCTTSSHHHHHHHHHT
T ss_pred             CEEEEECCCCCcHHHHHHHHhC
Confidence            5899999999999999998876

>d1w44a_ c.37.1.11 (A:) NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: NTPase P4
species: Bacteriophage phi-12 [TaxId: 161736]

Probab=92.62  E-value=0.031  Score=48.74  Aligned_cols=54  Identities=19%  Similarity=0.234  Sum_probs=33.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecCCC-----CHHHHHHHHHHHhhc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDF-----DIIRVTKSILKSIAS  217 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~-----~~~~~~~~il~~l~~  217 (385)
                      .++.++|+||+|||.||+.+...  ....+.. +-++.++-.     +...-++.++++...
T Consensus       124 g~~l~~G~pG~GKT~la~ala~~--~~~~~~~-~~~~~~~~~~~~~G~~e~~~~~~f~~a~~  182 (321)
T d1w44a_         124 GMVIVTGKGNSGKTPLVHALGEA--LGGKDKY-ATVRFGEPLSGYNTDFNVFVDDIARAMLQ  182 (321)
T ss_dssp             EEEEEECSSSSCHHHHHHHHHHH--HHTTSCC-EEEEBSCSSTTCBCCHHHHHHHHHHHHHH
T ss_pred             ceEEEECCCCccHHHHHHHHHHH--hcCCCCe-EEEEhhHhhhcccchHHHHHHHHHHHHhh
Confidence            44556899999999999999874  3222211 124433322     455666777766643

>d1u0la2 c.37.1.8 (A:69-293) Probable GTPase EngC (YjeQ), C-terminal domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngC (YjeQ), C-terminal domain
species: Thermotoga maritima [TaxId: 2336]

Probab=92.62  E-value=0.054  Score=44.51  Aligned_cols=36  Identities=19%  Similarity=0.247  Sum_probs=27.9

Q ss_pred             hhhHHHHHHHHhcCCCCCCCCceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          139 DKEKEETVKLLLRDDLRTDDGLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       139 ~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ....+.+.++|..         +...++|.+|+|||||...+..+
T Consensus        83 ~~g~~~L~~~l~~---------kt~~~~G~SGVGKSTLiN~L~~~  118 (225)
T d1u0la2          83 GMGIEELKEYLKG---------KISTMAGLSGVGKSSLLNAINPG  118 (225)
T ss_dssp             CTTHHHHHHHHSS---------SEEEEECSTTSSHHHHHHHHSTT
T ss_pred             chhHhhHHHHhcC---------CeEEEECCCCCCHHHHHHhhcch
Confidence            4456777777721         56789999999999999999765

>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=92.62  E-value=0.017  Score=48.74  Aligned_cols=22  Identities=27%  Similarity=0.398  Sum_probs=19.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      ..++|+|..|.|||||++.+..
T Consensus        45 e~vaivG~sGsGKSTLl~ll~g   66 (255)
T d2hyda1          45 ETVAFVGMSGGGKSTLINLIPR   66 (255)
T ss_dssp             CEEEEECSTTSSHHHHHTTTTT
T ss_pred             CEEEEECCCCCcHHHHHHHHHh
Confidence            5899999999999999988764

>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=92.61  E-value=0.035  Score=43.99  Aligned_cols=23  Identities=26%  Similarity=0.374  Sum_probs=19.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      --|.|+|.+|+|||+|..++..+
T Consensus         6 iKivviG~~~vGKTsli~~~~~~   28 (183)
T d1mh1a_           6 IKCVVVGDGAVGKTCLLISYTTN   28 (183)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHhC
Confidence            35789999999999999888764

>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=92.59  E-value=0.031  Score=46.43  Aligned_cols=22  Identities=36%  Similarity=0.440  Sum_probs=20.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      ++|+|+|..|+||||+|..+.+
T Consensus         2 ~iIgiTG~igSGKsTva~~l~e   23 (241)
T d1deka_           2 KLIFLSGVKRSGKDTTADFIMS   23 (241)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            6899999999999999998865

>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=92.56  E-value=0.03  Score=44.41  Aligned_cols=21  Identities=29%  Similarity=0.488  Sum_probs=18.8

Q ss_pred             EEEEcCCCCcHHHHHHHHhcc
Q 038448          163 IPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       163 i~I~G~gGiGKTtLA~~v~~~  183 (385)
                      |.++|.+|+|||||+..+.+.
T Consensus         5 v~vvG~~~vGKSSLi~~l~~~   25 (184)
T d1vg8a_           5 VIILGDSGVGKTSLMNQYVNK   25 (184)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            679999999999999988764

>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=92.54  E-value=0.03  Score=44.54  Aligned_cols=21  Identities=24%  Similarity=0.425  Sum_probs=18.2

Q ss_pred             EEEEcCCCCcHHHHHHHHhcc
Q 038448          163 IPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       163 i~I~G~gGiGKTtLA~~v~~~  183 (385)
                      |.++|.+|+|||+|..++..+
T Consensus         5 ivllG~~~vGKTsl~~r~~~~   25 (195)
T d1svsa1           5 LLLLGAGESGKSTIVKQMKII   25 (195)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhhC
Confidence            679999999999999987544

>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=92.50  E-value=0.032  Score=44.00  Aligned_cols=21  Identities=38%  Similarity=0.501  Sum_probs=18.7

Q ss_pred             EEEEcCCCCcHHHHHHHHhcc
Q 038448          163 IPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       163 i~I~G~gGiGKTtLA~~v~~~  183 (385)
                      |.++|.+|+|||||..++.++
T Consensus        10 i~vvG~~~vGKTsli~~l~~~   30 (177)
T d1x3sa1          10 ILIIGESGVGKSSLLLRFTDD   30 (177)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            779999999999999987654

>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=92.48  E-value=0.037  Score=43.19  Aligned_cols=23  Identities=26%  Similarity=0.502  Sum_probs=19.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      --|.++|.+|+|||||..++.++
T Consensus         5 ~KivlvG~~~vGKTsli~~~~~~   27 (168)
T d1u8za_           5 HKVIMVGSGGVGKSALTLQFMYD   27 (168)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCcCHHHHHHHHHhC
Confidence            35779999999999999987654

>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=92.48  E-value=0.032  Score=44.20  Aligned_cols=21  Identities=33%  Similarity=0.553  Sum_probs=18.6

Q ss_pred             EEEEcCCCCcHHHHHHHHhcc
Q 038448          163 IPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       163 i~I~G~gGiGKTtLA~~v~~~  183 (385)
                      |.++|.+|+|||+|...+.++
T Consensus         5 ivliG~~~vGKTsli~r~~~~   25 (179)
T d1m7ba_           5 IVVVGDSQCGKTALLHVFAKD   25 (179)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            568999999999999988765

>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=92.47  E-value=0.032  Score=43.81  Aligned_cols=22  Identities=23%  Similarity=0.527  Sum_probs=18.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcc
Q 038448          162 VIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      -|.++|.+|+|||||...+.++
T Consensus         8 KI~vvG~~~vGKSSli~~~~~~   29 (174)
T d1wmsa_           8 KVILLGDGGVGKSSLMNRYVTN   29 (174)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            3779999999999999887654

>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=92.47  E-value=0.031  Score=44.79  Aligned_cols=19  Identities=32%  Similarity=0.559  Sum_probs=17.1

Q ss_pred             EEEEEcCCCCcHHHHHHHH
Q 038448          162 VIPIIGTGRIGKTTLAQLA  180 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v  180 (385)
                      -|.++|.+|+|||||..++
T Consensus         4 KivllG~~~vGKTsll~r~   22 (200)
T d1zcba2           4 KILLLGAGESGKSTFLKQM   22 (200)
T ss_dssp             EEEEECSTTSSHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            4679999999999999887

>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=92.41  E-value=0.02  Score=44.96  Aligned_cols=21  Identities=29%  Similarity=0.564  Sum_probs=17.2

Q ss_pred             EEEEcCCCCcHHHHHHHHhcc
Q 038448          163 IPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       163 i~I~G~gGiGKTtLA~~v~~~  183 (385)
                      |.++|.+|+|||+|..++.++
T Consensus         6 i~vvG~~~vGKTsli~~~~~~   26 (170)
T d1i2ma_           6 LVLVGDGGTGKTTFVKRHLTG   26 (170)
T ss_dssp             EEEEECTTSSHHHHHHTTC--
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678899999999999887654

>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=92.31  E-value=0.025  Score=44.42  Aligned_cols=26  Identities=23%  Similarity=0.247  Sum_probs=21.2

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHhccc
Q 038448          158 DGLSVIPIIGTGRIGKTTLAQLAYSDV  184 (385)
Q Consensus       158 ~~~~vi~I~G~gGiGKTtLA~~v~~~~  184 (385)
                      ..++ |.++|.+|+|||||..++.++.
T Consensus        11 k~~k-IvlvG~~~vGKTSli~rl~~~~   36 (173)
T d1e0sa_          11 KEMR-ILMLGLDAAGKTTILYKLKLGQ   36 (173)
T ss_dssp             CCEE-EEEEEETTSSHHHHHHHTTCCC
T ss_pred             CeEE-EEEECCCCCCHHHHHHHHhcCC
Confidence            3556 5589999999999999987654

>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=92.30  E-value=0.04  Score=43.07  Aligned_cols=21  Identities=24%  Similarity=0.619  Sum_probs=18.4

Q ss_pred             EEEEcCCCCcHHHHHHHHhcc
Q 038448          163 IPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       163 i~I~G~gGiGKTtLA~~v~~~  183 (385)
                      |.++|.+|+|||||...+.++
T Consensus         7 i~lvG~~~vGKTsll~~~~~~   27 (169)
T d1x1ra1           7 LVVVGDGGVGKSALTIQFFQK   27 (169)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            567899999999999998765

>d1tf7a1 c.37.1.11 (A:14-255) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Circadian clock protein KaiC
species: Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]

Probab=92.09  E-value=0.044  Score=44.90  Aligned_cols=41  Identities=15%  Similarity=0.044  Sum_probs=26.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecC
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSE  200 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~  200 (385)
                      .-.++.|.|.+|+|||+||.++..+. ....-..+.|++...
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            34788999999999999997754321 122222456665543

>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=92.07  E-value=0.038  Score=44.17  Aligned_cols=21  Identities=29%  Similarity=0.465  Sum_probs=18.2

Q ss_pred             EEEEcCCCCcHHHHHHHHhcc
Q 038448          163 IPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       163 i~I~G~gGiGKTtLA~~v~~~  183 (385)
                      |.++|.+|+|||+|..++.++
T Consensus         6 vvllG~~~vGKTSli~r~~~~   26 (191)
T d2ngra_           6 CVVVGDGAVGKTCLLISYTTN   26 (191)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            668899999999999887654

>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=92.05  E-value=0.041  Score=42.35  Aligned_cols=21  Identities=24%  Similarity=0.328  Sum_probs=18.4

Q ss_pred             EEEEcCCCCcHHHHHHHHhcc
Q 038448          163 IPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       163 i~I~G~gGiGKTtLA~~v~~~  183 (385)
                      |+++|.+|+|||||..++...
T Consensus         4 I~lvG~~nvGKSsLin~l~~~   24 (161)
T d2gj8a1           4 VVIAGRPNAGKSSLLNALAGR   24 (161)
T ss_dssp             EEEEESTTSSHHHHHHHHHTS
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            679999999999999988643

>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=92.02  E-value=0.042  Score=43.45  Aligned_cols=22  Identities=27%  Similarity=0.495  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcc
Q 038448          162 VIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      -|+|+|.+|+|||||..++.+.
T Consensus        10 kV~iiG~~~~GKSTLin~l~~~   31 (186)
T d1mkya2          10 KVAIVGRPNVGKSTLFNAILNK   31 (186)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCCHHHHHHHHHCC
Confidence            4789999999999999998764

>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=91.89  E-value=0.041  Score=43.41  Aligned_cols=22  Identities=23%  Similarity=0.446  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcc
Q 038448          162 VIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      -|.++|.+|+|||||...+.++
T Consensus         7 ki~vlG~~~vGKTsLi~~~~~~   28 (175)
T d2bmja1           7 RLGVLGDARSGKSSLIHRFLTG   28 (175)
T ss_dssp             EEEEECCTTTTHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4779999999999999988664

>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=91.87  E-value=0.032  Score=43.97  Aligned_cols=27  Identities=15%  Similarity=0.180  Sum_probs=22.2

Q ss_pred             CCCceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          157 DDGLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       157 ~~~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .++...|+|+|.+++|||||..++...
T Consensus        13 ~~~~~~I~lvG~~NvGKSSL~n~L~~~   39 (188)
T d1puia_          13 SDTGIEVAFAGRSNAGKSSALNTLTNQ   39 (188)
T ss_dssp             CSCSEEEEEEECTTSSHHHHHTTTCCC
T ss_pred             CccCCEEEEECCCCCCHHHHHHHHhCC
Confidence            345677999999999999999887653

>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=91.77  E-value=0.11  Score=43.85  Aligned_cols=54  Identities=9%  Similarity=0.045  Sum_probs=35.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecCCCCHHHHHHHHHHHhhc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDFDIIRVTKSILKSIAS  217 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~il~~l~~  217 (385)
                      .++.|.|.+|+||||++.++..+......+ .+++++.-  .+...+...++.....
T Consensus        36 ~l~vi~G~~G~GKT~~~~~la~~~a~~~g~-~v~~~s~E--~~~~~~~~r~~~~~~~   89 (277)
T d1cr2a_          36 EVIMVTSGSGMGKSTFVRQQALQWGTAMGK-KVGLAMLE--ESVEETAEDLIGLHNR   89 (277)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHHHHTSCC-CEEEEESS--SCHHHHHHHHHHHHTT
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHhhhhhccc-ceeEeeec--cchhhHHhHHHHHhhc
Confidence            578899999999999998876542223333 34455543  4567777777665544

>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=91.68  E-value=0.038  Score=44.06  Aligned_cols=21  Identities=29%  Similarity=0.433  Sum_probs=18.3

Q ss_pred             EEEEcCCCCcHHHHHHHHhcc
Q 038448          163 IPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       163 i~I~G~gGiGKTtLA~~v~~~  183 (385)
                      |.++|.+|+|||+|..++..+
T Consensus         5 iv~lG~~~vGKTsll~r~~~~   25 (200)
T d2bcjq2           5 LLLLGTGESGKSTFIKQMRII   25 (200)
T ss_dssp             EEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            678999999999999988554

>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=91.63  E-value=0.047  Score=44.66  Aligned_cols=23  Identities=39%  Similarity=0.563  Sum_probs=20.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      +.|+|-|+-|+||||++..+...
T Consensus         4 k~I~iEG~DGsGKST~~~~L~~~   26 (214)
T d1tmka_           4 KLILIEGLDRTGKTTQCNILYKK   26 (214)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEEEECCCCCcHHHHHHHHHHH
Confidence            67999999999999999998764

>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=91.33  E-value=0.03  Score=43.97  Aligned_cols=21  Identities=29%  Similarity=0.393  Sum_probs=8.3

Q ss_pred             EEEEcCCCCcHHHHHHHHhcc
Q 038448          163 IPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       163 i~I~G~gGiGKTtLA~~v~~~  183 (385)
                      |.++|.+|+|||||...+..+
T Consensus         9 i~vvG~~~vGKTsLi~~l~~~   29 (173)
T d2fu5c1           9 LLLIGDSGVGKTCVLFRFSED   29 (173)
T ss_dssp             EEEECCCCC------------
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678999999999999877654

>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=90.97  E-value=0.059  Score=45.51  Aligned_cols=23  Identities=26%  Similarity=0.355  Sum_probs=19.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .+..|+|.+|+||||||..+.-.
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            57779999999999999877643

>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=90.94  E-value=0.11  Score=40.03  Aligned_cols=25  Identities=24%  Similarity=0.244  Sum_probs=21.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhccc
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSDV  184 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~~  184 (385)
                      --+|.+.|.=|+||||+++.+.+..
T Consensus        33 g~ii~L~G~LGaGKTtfvr~~~~~l   57 (158)
T d1htwa_          33 AIMVYLNGDLGAGKTTLTRGMLQGI   57 (158)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             CeEEEEecCCCccHHHHHHHHHhhc
Confidence            3689999999999999999998654

>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=90.79  E-value=0.059  Score=44.21  Aligned_cols=22  Identities=23%  Similarity=0.434  Sum_probs=18.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      .-|.++|.+|+|||||..++..
T Consensus         7 ~KilllG~~~vGKTsll~~~~~   28 (221)
T d1azta2           7 HRLLLLGAGESGKSTIVKQMRI   28 (221)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhc
Confidence            3568999999999999988754

>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=90.77  E-value=0.15  Score=42.69  Aligned_cols=25  Identities=20%  Similarity=0.379  Sum_probs=21.4

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhccc
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSDV  184 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~~  184 (385)
                      .-.|.++|.+|+|||||...++...
T Consensus        32 ~l~I~LvG~tg~GKSSliN~ilg~~   56 (257)
T d1h65a_          32 SLTILVMGKGGVGKSSTVNSIIGER   56 (257)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHTSC
T ss_pred             CcEEEEECCCCCcHHHHHHHHhCCC
Confidence            3567799999999999999998753

>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=90.74  E-value=0.13  Score=43.35  Aligned_cols=52  Identities=19%  Similarity=0.165  Sum_probs=38.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecCCCCHHHHHHHHHHHhhc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDFDIIRVTKSILKSIAS  217 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~il~~l~~  217 (385)
                      .-+++-|+|.+|.||||||..+....  +..=..++|+..-..++..     +++.++.
T Consensus        56 ~g~itei~G~~~sGKT~l~l~~~~~a--qk~g~~v~yiDtE~~~~~~-----~a~~~Gv  107 (268)
T d1xp8a1          56 RGRITEIYGPESGGKTTLALAIVAQA--QKAGGTCAFIDAEHALDPV-----YARALGV  107 (268)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHH--HHTTCCEEEEESSCCCCHH-----HHHHTTC
T ss_pred             CceEEEEecCCccchHHHHHHHHHHH--HhCCCEEEEEECCccCCHH-----HHHHhCC
Confidence            44799999999999999998887653  2222458899988888874     4555554

>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=90.60  E-value=0.037  Score=48.54  Aligned_cols=20  Identities=20%  Similarity=0.255  Sum_probs=18.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHh
Q 038448          162 VIPIIGTGRIGKTTLAQLAY  181 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v~  181 (385)
                      -|.+.|.+|+||||||+.+.
T Consensus        30 ~vLl~G~pG~GKT~lar~~~   49 (333)
T d1g8pa_          30 GVLVFGDRGTGKSTAVRALA   49 (333)
T ss_dssp             CEEEECCGGGCTTHHHHHHH
T ss_pred             eEEEECCCCccHHHHHHHHH
Confidence            47899999999999999875

>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=90.53  E-value=0.069  Score=42.05  Aligned_cols=22  Identities=23%  Similarity=0.209  Sum_probs=19.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      +-|.|.|.+|+||||||..+..
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            4578999999999999988765

>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=90.47  E-value=0.066  Score=45.54  Aligned_cols=25  Identities=28%  Similarity=0.165  Sum_probs=21.8

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHhc
Q 038448          158 DGLSVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       158 ~~~~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      .++|-|+|+|.+|.|||||+.++..
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            4678899999999999999988754

>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=90.42  E-value=0.063  Score=49.03  Aligned_cols=24  Identities=29%  Similarity=0.292  Sum_probs=21.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .+-|.++|++|+|||.||+.+..-
T Consensus        49 ksNILliGPTGvGKTlLAr~LAk~   72 (443)
T d1g41a_          49 PKNILMIGPTGVGKTEIARRLAKL   72 (443)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHHH
T ss_pred             cccEEEECCCCCCHHHHHHHHHHH
Confidence            456889999999999999999873

>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=90.42  E-value=0.078  Score=41.77  Aligned_cols=22  Identities=23%  Similarity=0.214  Sum_probs=19.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      .-|.|.|.+|+||||||..+..
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            4578999999999999988865

>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=90.20  E-value=0.084  Score=42.67  Aligned_cols=23  Identities=22%  Similarity=0.235  Sum_probs=19.0

Q ss_pred             eEEEEEcCC-CCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTG-RIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~g-GiGKTtLA~~v~~~  183 (385)
                      +.+-|.|-| |+||||++..+..-
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            567899998 99999998777653

>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=89.92  E-value=0.027  Score=43.42  Aligned_cols=21  Identities=29%  Similarity=0.537  Sum_probs=18.9

Q ss_pred             EEEEcCCCCcHHHHHHHHhcc
Q 038448          163 IPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       163 i~I~G~gGiGKTtLA~~v~~~  183 (385)
                      |+++|.+|+|||||...+...
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            789999999999999998754

>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=89.79  E-value=0.087  Score=41.19  Aligned_cols=23  Identities=26%  Similarity=0.229  Sum_probs=19.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .-|.|.|.+|+||||||..+...
T Consensus        16 ~gvli~G~sg~GKS~la~~l~~~   38 (169)
T d1ko7a2          16 VGVLITGDSGIGKSETALELIKR   38 (169)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHT
T ss_pred             EEEEEEeCCCCCHHHHHHHHHHc
Confidence            45789999999999999887653

>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=89.52  E-value=0.098  Score=46.42  Aligned_cols=24  Identities=38%  Similarity=0.333  Sum_probs=20.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      ....+..+|+.|+|||.||+.+..
T Consensus        67 p~~niLfiGPTGvGKTElAk~LA~   90 (364)
T d1um8a_          67 SKSNILLIGPTGSGKTLMAQTLAK   90 (364)
T ss_dssp             CCCCEEEECCTTSSHHHHHHHHHH
T ss_pred             CCcceeeeCCCCccHHHHHHHHHh
Confidence            456688899999999999998865

>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=89.02  E-value=0.11  Score=43.78  Aligned_cols=22  Identities=27%  Similarity=0.525  Sum_probs=19.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHh
Q 038448          160 LSVIPIIGTGRIGKTTLAQLAY  181 (385)
Q Consensus       160 ~~vi~I~G~gGiGKTtLA~~v~  181 (385)
                      +|-|+|+|..|.|||||+..+.
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            4789999999999999998774

>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=88.99  E-value=0.21  Score=41.51  Aligned_cols=22  Identities=27%  Similarity=0.363  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcc
Q 038448          162 VIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      -|.|.|..|+|||++|+.++..
T Consensus        25 pvlI~Ge~GtGK~~~A~~ih~~   46 (247)
T d1ny5a2          25 PVLITGESGVGKEVVARLIHKL   46 (247)
T ss_dssp             CEEEECSTTSSHHHHHHHHHHH
T ss_pred             CEEEECCCCcCHHHHHHHHHHh
Confidence            3688999999999999999763

>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=88.86  E-value=0.19  Score=44.39  Aligned_cols=51  Identities=18%  Similarity=0.158  Sum_probs=29.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhccc-cccccccceEEEEecCCCCHHHHHHHH
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSDV-RVHNHFDLKAWTCVSEDFDIIRVTKSI  211 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~~-~~~~~F~~~~wv~vs~~~~~~~~~~~i  211 (385)
                      ++..|.|.+|.||||++..+.... +....-...++++....-....+...+
T Consensus       164 ~~~vI~G~pGTGKTt~i~~~l~~l~~~~~~~~~~I~l~ApTgkAA~~L~e~~  215 (359)
T d1w36d1         164 RISVISGGPGTGKTTTVAKLLAALIQMADGERCRIRLAAPTGKAAARLTESL  215 (359)
T ss_dssp             SEEEEECCTTSTHHHHHHHHHHHHHHTCSSCCCCEEEEBSSHHHHHHHHHHH
T ss_pred             CeEEEEcCCCCCceehHHHHHHHHHHHHhccCCeEEEecCcHHHHHHHHHHH
Confidence            689999999999999875543321 011112345666655443333333333

>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=88.22  E-value=0.13  Score=42.18  Aligned_cols=22  Identities=27%  Similarity=0.422  Sum_probs=19.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      .+|+|+|-++.|||||...+..
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            5699999999999999988764

>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=87.77  E-value=0.14  Score=44.65  Aligned_cols=22  Identities=23%  Similarity=0.154  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcc
Q 038448          162 VIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      -|.|.|..|+||||+...+...
T Consensus       168 nili~G~tgSGKTT~l~al~~~  189 (323)
T d1g6oa_         168 NVIVCGGTGSGKTTYIKSIMEF  189 (323)
T ss_dssp             CEEEEESTTSSHHHHHHHHGGG
T ss_pred             CEEEEeeccccchHHHHHHhhh
Confidence            4789999999999999998763

>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=86.92  E-value=0.16  Score=39.78  Aligned_cols=21  Identities=33%  Similarity=0.376  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHhc
Q 038448          162 VIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      -|+|+|.++.|||||..++..
T Consensus         7 nIaiiG~~naGKSTL~n~L~~   27 (179)
T d1wb1a4           7 NLGIFGHIDHGKTTLSKVLTE   27 (179)
T ss_dssp             EEEEEECTTSSHHHHHHHHHT
T ss_pred             EEEEEeCCCCcHHHHHHHHHH
Confidence            599999999999999998874

>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=86.73  E-value=0.22  Score=42.33  Aligned_cols=35  Identities=20%  Similarity=0.047  Sum_probs=26.2

Q ss_pred             HHHHHHhcCCCCCCCCceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          144 ETVKLLLRDDLRTDDGLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       144 ~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ++++.|..-.     .=..++|+|..|+|||+|+..+.++
T Consensus        32 r~ID~l~Pig-----rGQr~~I~g~~g~GKT~l~~~i~~~   66 (289)
T d1xpua3          32 RVLDLASPIG-----RGQRGLIVAPPKAGKTMLLQNIAQS   66 (289)
T ss_dssp             HHHHHHSCCB-----TTCEEEEEECSSSSHHHHHHHHHHH
T ss_pred             eeeeeccccc-----CCCeeeEeCCCCCCHHHHHHHHHHH
Confidence            3566665421     1257899999999999999988875

>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=86.62  E-value=0.083  Score=43.52  Aligned_cols=23  Identities=17%  Similarity=0.328  Sum_probs=19.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ++..++|.+|+|||||...+..+
T Consensus        98 ~~~vl~G~SGVGKSSLiN~L~~~  120 (231)
T d1t9ha2          98 KTTVFAGQSGVGKSSLLNAISPE  120 (231)
T ss_dssp             SEEEEEESHHHHHHHHHHHHCC-
T ss_pred             ceEEEECCCCccHHHHHHhhccH
Confidence            45568899999999999999765

>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=85.91  E-value=0.23  Score=43.31  Aligned_cols=25  Identities=28%  Similarity=0.262  Sum_probs=21.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .+-.|.|=|.-|+||||+++.+.+.
T Consensus         5 ~~~rI~iEG~iGsGKSTl~~~L~~~   29 (333)
T d1p6xa_           5 TIVRIYLDGVYGIGKSTTGRVMASA   29 (333)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHSG
T ss_pred             ceEEEEEECCccCCHHHHHHHHHHH
Confidence            3567888899999999999999885

>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=85.88  E-value=0.37  Score=40.60  Aligned_cols=52  Identities=19%  Similarity=0.259  Sum_probs=36.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecCCC-CHHHHHHHHHH
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSEDF-DIIRVTKSILK  213 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~-~~~~~~~~il~  213 (385)
                      ..++|+|.+|+|||+|+..+.++. .+.+=+.++++-+.+.. ...++.+++.+
T Consensus        69 Qr~~If~~~g~GKt~l~~~i~~~~-~~~~~~v~V~~~iGer~~ev~~~~~~~~~  121 (276)
T d2jdid3          69 GKIGLFGGAGVGKTVLIMELINNV-AKAHGGYSVFAGVGERTREGNDLYHEMIE  121 (276)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHH-TTTCSSEEEEEEESCCHHHHHHHHHHHHH
T ss_pred             CEEEeeCCCCCCHHHHHHHHHHHH-HhhCCCeEEEEEeccChHHHHHHHHHHHh
Confidence            458999999999999999987652 22333567888888753 34555555554

>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=85.31  E-value=0.19  Score=43.70  Aligned_cols=25  Identities=36%  Similarity=0.287  Sum_probs=20.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      .+..|.|=|.-|+||||+++.+.+.
T Consensus         3 ~~lrI~IEG~iGsGKTTl~~~La~~   27 (329)
T d1e2ka_           3 TLLRVYIDGPHGMGKTTTTQLLVAL   27 (329)
T ss_dssp             EEEEEEECSCTTSSHHHHHHHHTC-
T ss_pred             CceEEEEECCcCCCHHHHHHHHHHH
Confidence            3456899999999999999999763

>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=85.11  E-value=0.5  Score=39.85  Aligned_cols=26  Identities=27%  Similarity=0.376  Sum_probs=23.7

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          158 DGLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       158 ~~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      +.+.||+|+|.-+.|||||...++..
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            46899999999999999999999874

>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=84.77  E-value=0.34  Score=38.65  Aligned_cols=25  Identities=12%  Similarity=0.141  Sum_probs=21.5

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHhc
Q 038448          158 DGLSVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       158 ~~~~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      +.-..+.++|+++.|||++|..+.+
T Consensus        51 PKkn~i~~~GP~~TGKS~f~~sl~~   75 (205)
T d1tuea_          51 PKKNCLVFCGPANTGKSYFGMSFIH   75 (205)
T ss_dssp             TTCSEEEEESCGGGCHHHHHHHHHH
T ss_pred             CCceEEEEECCCCccHHHHHHHHHH
Confidence            4668899999999999999987754

>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=84.68  E-value=0.56  Score=41.85  Aligned_cols=22  Identities=14%  Similarity=0.229  Sum_probs=19.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      --|+|+|.+|+|||||...+..
T Consensus        57 l~Iai~G~~n~GKSSLiNaL~G   78 (400)
T d1tq4a_          57 LNVAVTGETGSGKSSFINTLRG   78 (400)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHT
T ss_pred             cEEEEECCCCCCHHHHHHHHhC
Confidence            4589999999999999999874

>d1a1va1 c.37.1.14 (A:190-325) HCV helicase domain {Human hepatitis C virus (HCV), different isolates [TaxId: 11103]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RNA helicase
domain: HCV helicase domain
species: Human hepatitis C virus (HCV), different isolates [TaxId: 11103]

Probab=84.28  E-value=0.61  Score=34.22  Aligned_cols=25  Identities=24%  Similarity=0.322  Sum_probs=20.9

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHhc
Q 038448          158 DGLSVIPIIGTGRIGKTTLAQLAYS  182 (385)
Q Consensus       158 ~~~~vi~I~G~gGiGKTtLA~~v~~  182 (385)
                      ++.++..|+++.|.|||+++..++.
T Consensus         6 ~~~~~~ll~apTGsGKT~~~~~~~~   30 (136)
T d1a1va1           6 QSFQVAHLHAPTGSGKSTKVPAAYA   30 (136)
T ss_dssp             SSCEEEEEECCTTSCTTTHHHHHHH
T ss_pred             cCCCEEEEEeCCCCCHHHHHHHHHH
Confidence            4568889999999999998876654

>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=83.81  E-value=0.29  Score=41.40  Aligned_cols=22  Identities=27%  Similarity=0.327  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcc
Q 038448          162 VIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      -|+|+|+|.+|||||-..+-+.
T Consensus         4 ~~GivG~Pn~GKSTlf~~lt~~   25 (278)
T d1jala1           4 KCGIVGLPNVGKSTLFNALTKA   25 (278)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHT
T ss_pred             eEEEECCCCCCHHHHHHHHHCC
Confidence            5899999999999999887653

>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=82.78  E-value=0.33  Score=38.97  Aligned_cols=20  Identities=35%  Similarity=0.303  Sum_probs=17.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHh
Q 038448          162 VIPIIGTGRIGKTTLAQLAY  181 (385)
Q Consensus       162 vi~I~G~gGiGKTtLA~~v~  181 (385)
                      -|+|+|-.+.|||||+.++.
T Consensus         5 ni~iiGhvd~GKSTL~~~Ll   24 (204)
T d2c78a3           5 NVGTIGHVDHGKTTLTAALT   24 (204)
T ss_dssp             EEEEECSTTSSHHHHHHHHH
T ss_pred             EEEEEeCCCCcHHHHHHHHH
Confidence            48999999999999998874

>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=82.73  E-value=0.12  Score=40.73  Aligned_cols=21  Identities=24%  Similarity=0.207  Sum_probs=18.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHh
Q 038448          161 SVIPIIGTGRIGKTTLAQLAY  181 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~  181 (385)
                      .+..|+|..|+||||+..+++
T Consensus        25 ~~tvi~G~NGsGKStil~Ai~   45 (222)
T d1qhla_          25 LVTTLSGGNGAGKSTTMAAFV   45 (222)
T ss_dssp             HHHHHHSCCSHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHH
Confidence            456789999999999998875

>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=82.11  E-value=0.48  Score=41.10  Aligned_cols=23  Identities=35%  Similarity=0.216  Sum_probs=20.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      -.|+|=|.-|+||||+++.+.+.
T Consensus         6 lrI~IEG~iGsGKSTl~~~L~~~   28 (331)
T d1osna_           6 LRIYLDGAYGIGKTTAAEEFLHH   28 (331)
T ss_dssp             EEEEEEESSSSCTTHHHHHHHHT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            45888999999999999999875

>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=82.11  E-value=0.27  Score=41.69  Aligned_cols=17  Identities=12%  Similarity=-0.187  Sum_probs=13.9

Q ss_pred             ceeEchhHHHHHHHhhc
Q 038448          364 LFVMHDLNNDLLNGLHG  380 (385)
Q Consensus       364 ~~~mHdlv~d~a~~~s~  380 (385)
                      .|+.|.-|.++|..+.+
T Consensus       275 nyRs~~~I~~~an~l~~  291 (306)
T d1uaaa1         275 NYRSSGRILKAANILIA  291 (306)
T ss_dssp             BSSSCHHHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHH
Confidence            48999999999987744

>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=81.96  E-value=0.32  Score=41.65  Aligned_cols=15  Identities=27%  Similarity=0.375  Sum_probs=12.8

Q ss_pred             EEEEcCCCCcHHHHH
Q 038448          163 IPIIGTGRIGKTTLA  177 (385)
Q Consensus       163 i~I~G~gGiGKTtLA  177 (385)
                      +.|.|.+|.||||.+
T Consensus        27 ~lV~g~aGSGKTt~l   41 (318)
T d1pjra1          27 LLIMAGAGSGKTRVL   41 (318)
T ss_dssp             EEEEECTTSCHHHHH
T ss_pred             EEEEecCCccHHHHH
Confidence            668899999999765

>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=81.39  E-value=0.47  Score=41.30  Aligned_cols=24  Identities=21%  Similarity=0.267  Sum_probs=21.4

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHh
Q 038448          158 DGLSVIPIIGTGRIGKTTLAQLAY  181 (385)
Q Consensus       158 ~~~~vi~I~G~gGiGKTtLA~~v~  181 (385)
                      +++|-|+|+|..|.|||||+-.+.
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            468889999999999999998774

>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=81.19  E-value=0.65  Score=39.05  Aligned_cols=39  Identities=18%  Similarity=0.228  Sum_probs=28.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhccccccccccceEEEEecCC
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSDVRVHNHFDLKAWTCVSED  201 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~  201 (385)
                      .-++|+|.+|+|||+|+......  ...+-..++++-+...
T Consensus        68 Qr~~Ifg~~g~GKt~l~~~~~~~--~~~~~~v~V~~~iGer  106 (276)
T d1fx0a3          68 QRELIIGDRQTGKTAVATDTILN--QQGQNVICVYVAIGQK  106 (276)
T ss_dssp             CBCBEEESSSSSHHHHHHHHHHT--CCTTTCEEEEEEESCC
T ss_pred             ceEeeccCCCCChHHHHHHHHhh--hcccCceeeeeeecch
Confidence            34889999999999999875543  2344456677777764

>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=80.66  E-value=0.48  Score=39.81  Aligned_cols=25  Identities=28%  Similarity=0.260  Sum_probs=21.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHhcc
Q 038448          159 GLSVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       159 ~~~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      ..-.|+|+|++.+||+||...+...
T Consensus       111 ~~~~v~vvG~PNvGKSsliN~L~~~  135 (273)
T d1puja_         111 RAIRALIIGIPNVGKSTLINRLAKK  135 (273)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHTS
T ss_pred             CceEEEEEecCccchhhhhhhhhcc
Confidence            4456899999999999999999875

>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=80.26  E-value=0.42  Score=40.71  Aligned_cols=23  Identities=22%  Similarity=0.300  Sum_probs=20.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcc
Q 038448          161 SVIPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       161 ~vi~I~G~gGiGKTtLA~~v~~~  183 (385)
                      --|+|+|.|.+|||||-.++-+.
T Consensus        11 ~kiGivG~Pn~GKSTlfnalT~~   33 (296)
T d1ni3a1          11 LKTGIVGMPNVGKSTFFRAITKS   33 (296)
T ss_dssp             CEEEEEECSSSSHHHHHHHHHHS
T ss_pred             cEEEEECCCCCCHHHHHHHHHCC
Confidence            34999999999999999988754

>d1wxqa1 c.37.1.8 (A:1-319) GTP-binding protein PH0525 {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein PH0525
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=80.01  E-value=0.46  Score=40.84  Aligned_cols=21  Identities=29%  Similarity=0.400  Sum_probs=18.4

Q ss_pred             EEEEcCCCCcHHHHHHHHhcc
Q 038448          163 IPIIGTGRIGKTTLAQLAYSD  183 (385)
Q Consensus       163 i~I~G~gGiGKTtLA~~v~~~  183 (385)
                      |+|+|.|.+|||||-..+-+.
T Consensus         3 v~lvG~pn~GKStlfn~lt~~   23 (319)
T d1wxqa1           3 IGVVGKPNVGKSTFFSAATLV   23 (319)
T ss_dssp             EEEEECTTSSHHHHHHHHHC-
T ss_pred             EeEECCCCCCHHHHHHHHHCC
Confidence            899999999999999988553