Citrus Sinensis ID: 038234

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400------
Protein Sequence
MQEEEKLCAYSFFPTSCFRVKRVFLRHDIALKIKAINEKFDDIAKQKDLFNFNVNITKRIETPGRVQSIFFIDESEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDFRVAKAIIAALGCETSNLGSLQSLVRCISESIEGKKYLVVLDDVWTDDYTKWEPFQRCSANGQCGNNILVTTHKKTVARMMESTNFISIKELSTQECWSLFKQESSAKPCLLLQKLLGVSCALKELEMSGKNSLDSELWQLQELEKDLFSLLLLNYYDLPYRIKQCFRYCFISPKDSCIWKEDLIKLWIAQSFIEAKENKEMEIIDEEYFDYLTARSFFQEFHKGSDDIITECKMHDIVHDFAQFLRKNQCLSIEVNSPNQSLTNISWEKLQHSTLVPG
Secondary Structure (PSIPRED)
cccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccHHHHHHHHHHHHccccccccccEEEEEEccccccHHHHHHHHHccccHHHHHHHHHHHcccccccccHHHHHHHHHHHccccEEEEEEccccccccccHHHHHHHHcccccccEEEEEcccHHHHHHHccccccccccccHHHHHHHHHHHHccccHHHHHHccccHHHHHHHHHHHHHHHcccccccccccccccHHHHccccccccccHHHHcccccccccccccHHHHHHHHHHcccccccccccHHHHHHHHHHHHHHccccccccccccccccEEEEcHHHHHHHHHHHHccEEEEEEccccccccccccccccEEEEEcc
Secondary Structure Prediction (SSPRO)
ccccccccEEEcccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccEEEccEEEcccccHHHHHHHHHccccccccccEEEEEEccccccHHHHHHHHHccHHHHHHHHHHHHHcccccccccHHHHHHHHHHHHcccEEEEEEEccccccHHHHHHHHHHHHccccccEEEEEEccHHHHHHcccccccccccccHHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHcccHccccccccccHHHHHEcHHcccHHHHHHHHEHEEcccccEEcHHHHHHHHHHHccccccccccHHHHHHHHHHHHHHHHHHccccccccccEEEEEEHHHHHHHHHHHcccEEEEEEccccccccEEEEEEEEEEEEEccc
Coil and Loop (DISEMBL)
mqeeeklcaysffptscfrvKRVFLRHDIALKIKAINEKFDDIAKQKDLFNFNVNItkrietpgrvqsiffideseicgrdykKNELLSKLLsdssdqqkpikmISIVGMGGIGKITLAQMAYNDKDFRVAKAIIAALGCETSNLGSLQSLVRCISESIEGKKYLVVLDDvwtddytkwepfqrcsangqcgnnilVTTHKKTVARMMESTNFISIKELSTQECWSLfkqessakpcLLLQKLLGVSCALKELEMSGKNSLDSELWQLQELEKDLFSLLLLNyydlpyrikqcfrycfispkdsciwkEDLIKLWIAQSFIEAKENKEMEIIDEEYFDYLTARSFFQefhkgsddiiteckmhDIVHDFAQFLRKnqclsievnspnqsltnisweklqhstlvpg
Flexible Loop (DISEMBL)
mqeeeklcaysffptscfrVKRVFLRHDIALKIKAInekfddiakqkdLFNFNVNitkrietpgrvqsIFFIDESEICGRDYKKNELLSKllsdssdqqkpiKMISIVGMGGIGKITLAQMAYNDKDFRVAKAIIAALGcetsnlgsLQSLVRCISESIEGKKYLVVLDDVWTDDYTKWEPFqrcsangqcgnniLVTTHKKTVARMMESTNFISIKELSTQECWSLFKQESSAKPCLLLQKLLGVSCALKELEMSGKNSLDSELWQLQELEKDLFSLLLLNYYDLPYRIKQCFRYCFISPKDSCIWKEDLIKLWIAQSFIEAKENKEMEIIDEEYFDYLTARSFFQEFHKGSDDIITECKMHDIVHDFAQFLRKNQCLSIEVnspnqsltnisweklqhstlvpg
Low Complexity Region (SEG)
MQEEEKLCAYSFFPTSCFRVKRVFLRHDIALKIKAINEKFDDIAKQKDLFNFNVNITKRIETPGRVQSIFFIDESEICGRDYKKNEllskllsdssdqqkPIKMISIVGMGGIGKITLAQMAYNDKDFRVAKAIIAALGCETSNLGSLQSLVRCISESIEGKKYLVVLDDVWTDDYTKWEPFQRCSANGQCGNNILVTTHKKTVARMMESTNFISIKELSTQECWSLFKQESSAKPCLLLQKLLGVSCALKELEMSGKNSLDSELWQlqelekdlfsllllnyydlpyRIKQCFRYCFISPKDSCIWKEDLIKLWIAQSFIEAKENKEMEIIDEEYFDYLTARSFFQEFHKGSDDIITECKMHDIVHDFAQFLRKNQCLSIEVNSPNQSLTNISWEKLQHSTLVPG
Disordered region (IsUnstruct)
******LCAYSFFPTSCFRVKRVFLRHDIALKIKAINEKFDDIAKQKDLFNFNVNITKRIETPGRVQSIFFIDESEICGRDYKKNELLS************IKMISIVGMGGIGKITLAQMAYNDKDFRVAKAIIAALGCETSNLGSLQSLVRCISESIEGKKYLVVLDDVWTDDYTKWEPFQRCSANGQCGNNILVTTHKKTVARMMESTNFISIKELSTQECWSLFKQESSAKPCLLLQKLLGVSCALKELEMSGKNSLDSELWQLQELEKDLFSLLLLNYYDLPYRIKQCFRYCFISPKDSCIWKEDLIKLWIAQSFIEAKENKEMEIIDEEYFDYLTARSFFQEFHKGSDDIITECKMHDIVHDFAQFLRKNQCLSIEVN********I*************
Disordered Region (DISOPRED)
***********FFPTSCFRVKRVFLRHDIALKIKAINEKFDDIAKQKDLFN********************IDESEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDFRVAKAIIAALGCETSNLGSLQSLVRCISESIEGKKYLVVLDDVWTDDYTKWEPFQRCSANGQCGNNILVTTHKKTVARMMESTNFISIKELSTQECWSLFKQESSAKPCLLLQKLLGVSCALKELEMSGKNSLDSELWQLQELEKDLFSLLLLNYYDLPYRIKQCFRYCFISPKDSCIWKEDLIKLWIAQSFIEAKE**EMEIIDEEYFDYLTARSFFQEFHKGSDDIITECKMHDIVHDFAQFLRKNQCLSIEVNSPN****NISWEKLQHSTLVPG
Disordered Region (DISEMBL)
MQEEEKLCAYSFFPTSCFRVKRVFLRHDIALKIKAINEKFDDIAKQKDLFNFNVNITKRIETPGRVQSIFFIDESEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDFRVAKAIIAALGCETSNLGSLQSLVRCISESIEGKKYLVVLDDVWTDDYTKWEPFQRCSANGQCGNNILVTTHKKTVARMMESTNFISIKELSTQECWSLFKQESSAKPCLLLQKLLGVSCALKELEMSGKNSLDSELWQLQELEKDLFSLLLLNYYDLPYRIKQCFRYCFISPKDSCIWKEDLIKLWIAQSFIEAKENKEMEIIDEEYFDYLTARSFFQEFHKGSDDIITECKMHDIVHDFAQFLRKNQCLSIEVNSPNQSLTNISWEKLQHSTLVPG
Disordered Region (DISPRO)
*****KLCAYSFFPTSCFRVKRVFLRHDIALKIKAINEKFDDIAKQKDLFNFN**************SIFFIDESEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDFRVAKAIIAALGCETSNLGSLQSLVRCISESIEGKKYLVVLDDVWTDDYTKWEPFQRCSANGQCGNNILVTTHKKTVARMMESTNFISIKELSTQECWSLFKQESSAKPCLLLQKLLGVSCALKELEMSGKNSLDSELWQLQELEKDLFSLLLLNYYDLPYRIKQCFRYCFISPKDSCIWKEDLIKLWIAQSFIEAKENKEMEIIDEEYFDYLTARSFFQEFHKGSDDIITECKMHDIVHDFAQFLRKNQCLSIEVNSPNQSLTNISWEKLQHSTLVPG
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MQEEEKLCAYSFFPTSCFRVKRVFLRHDIALKIKAINEKFDDIAKQKDLFNFNVNITKRIETPGRVQSIFFIDESEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDFRVAKAIIAALGCETSNLGSLQSLVRCISESIEGKKYLVVLDDVWTDDYTKWEPFQRCSANGQCGNNILVTTHKKTVARMMESTNFISIKELSTQECWSLFKQESSAKPCLLLQKLLGVSCALKELEMSGKNSLDSELWQLQELEKDLFSLLLLNYYDLPYRIKQCFRYCFISPKDSCIWKEDLIKLWIAQSFIEAKENKEMEIIDEEYFDYLTARSFFQEFHKGSDDIITECKMHDIVHDFAQFLRKNQCLSIEVNSPNQSLTNISWEKLQHSTLVPG
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	406	2.2.26 [Sep-21-2011]
Q7XA39	988	Putative disease resistan	N/A	no	0.849	0.349	0.333	9e-52
Q7XA40	992	Putative disease resistan	N/A	no	0.827	0.338	0.335	3e-51
Q7XBQ9	970	Disease resistance protei	N/A	no	0.864	0.361	0.325	5e-50
Q7XA42	979	Putative disease resistan	N/A	no	0.864	0.358	0.316	8e-50
Q9LRR4	1054	Putative disease resistan	yes	no	0.807	0.311	0.284	1e-40
Q9LRR5	1424	Putative disease resistan	no	no	0.756	0.215	0.257	1e-31
Q39214	926	Disease resistance protei	no	no	0.852	0.373	0.257	1e-24
Q38834	852	Disease resistance RPP13-	no	no	0.854	0.407	0.256	3e-24
Q9M667	835	Disease resistance protei	no	no	0.812	0.395	0.254	2e-20
Q9STE5	847	Putative disease resistan	no	no	0.884	0.423	0.254	4e-20

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

 Score =  204 bits (519), Expect = 9e-52,   Method: Compositional matrix adjust.
 Identities = 129/387 (33%), Positives = 204/387 (52%), Gaps = 42/387 (10%)

Query: 26  RHDIALKIKAINEKFDDIAKQKDLFNFNVNITKRIETPGRVQSIFFIDESEICGRDYKKN 85
           RH I  ++K I EK D I++++  F+F   IT+R       ++ F + E ++ GRD +++
Sbjct: 102 RHKIGRRMKEIMEKLDAISEERRKFHFLEKITERQAAAATRETGFVLTEPKVYGRDKEED 161

Query: 86  ELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDK----------------DF- 128
           E++ K+L ++ +  + + +  I+GMGG+GK TLAQM +ND+                DF 
Sbjct: 162 EIV-KILINNVNVAEELPVFPIIGMGGLGKTTLAQMIFNDERVTKHFNPKIWVCVSDDFD 220

Query: 129 --RVAKAIIAALGCETSNLGSLQSLVRCISESIEGKKYLVVLDDVWTDDYTKWEPFQRCS 186
             R+ K II  +   + ++  L S  + + E + GK+YL+VLDDVW DD  KW   +   
Sbjct: 221 EKRLIKTIIGNIERSSPHVEDLASFQKKLQELLNGKRYLLVLDDVWNDDLEKWAKLRAVL 280

Query: 187 ANGQCGNNILVTTHKKTVARMMESTNFISIKELSTQECWSLF-----KQESSAKPCL--- 238
             G  G +IL TT  + V  +M +     +  LS  +   LF      Q+  A P L   
Sbjct: 281 TVGARGASILATTRLEKVGSIMGTLQPYHLSNLSPHDSLLLFMQRAFGQQKEANPNLVAI 340

Query: 239 ---LLQKLLGVSCALKEL---------EMSGKNSLDSELWQLQELEKDLFSLLLLNYYDL 286
              +++K  GV  A K L         E   ++  D+E+W L + E  +   L L+Y+ L
Sbjct: 341 GKEIVKKCGGVPLAAKTLGGLLRFKREESEWEHVRDNEIWSLPQDESSILPALRLSYHHL 400

Query: 287 PYRIKQCFRYCFISPKDSCIWKEDLIKLWIAQSFIEAKENKEMEIIDEEYFDYLTARSFF 346
           P  ++QCF YC + PKD+ + KE+LI LW+A  F+ +K N E+E +  E ++ L  RSFF
Sbjct: 401 PLDLRQCFAYCAVFPKDTKMIKENLITLWMAHGFLLSKGNLELEDVGNEVWNELYLRSFF 460

Query: 347 QEFHKGSDDIITECKMHDIVHDFAQFL 373
           QE    S +  T  K+HD++HD A  L
Sbjct: 461 QEIEAKSGN--TYFKIHDLIHDLATSL 485

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

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

 Score =  202 bits (515), Expect = 3e-51,   Method: Compositional matrix adjust.
 Identities = 129/384 (33%), Positives = 209/384 (54%), Gaps = 48/384 (12%)

Query: 27  HDIALKIKAINEKFDDIAKQKDLFNFNVNITKRIETPGRVQSIFFIDESEICGRDYKKNE 86
           + +  ++K + EK D IA+++  F+ +  I +R     R Q+ F + E ++ GR+ +++E
Sbjct: 103 YKVGKRMKEMMEKLDAIAEERRNFHLDERIIER--QAARRQTGFVLTEPKVYGREKEEDE 160

Query: 87  LLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDK----------------DF-- 128
           ++  L+++ S  ++ + ++ I+GMGG+GK TLAQM +ND+                DF  
Sbjct: 161 IVKILINNVSYSEE-VPVLPILGMGGLGKTTLAQMVFNDQRITEHFNLKIWVCVSDDFDE 219

Query: 129 -RVAKAIIAALGCETSNLGS--LQSLVRCISESIEGKKYLVVLDDVWTDDYTKWEPFQRC 185
            R+ KAI+ ++  E  +LG   L  L + + E + GK+Y +VLDDVW +D  KW+  +  
Sbjct: 220 KRLIKAIVESI--EGKSLGDMDLAPLQKKLQELLNGKRYFLVLDDVWNEDQEKWDNLRAV 277

Query: 186 SANGQCGNNILVTTHKKTVARMMESTNFISIKELSTQECWSLFKQ-----ESSAKPCLL- 239
              G  G +IL+TT  + +  +M +     +  LS ++CW LFKQ     ++   P L+ 
Sbjct: 278 LKIGASGASILITTRLEKIGSIMGTLQLYQLSNLSQEDCWLLFKQRAFCHQTETSPKLME 337

Query: 240 -----LQKLLGVSCALKEL---------EMSGKNSLDSELWQLQELEKDLFSLLLLNYYD 285
                ++K  GV  A K L         E   ++  DSE+W L + E  +   L L+Y+ 
Sbjct: 338 IGKEIVKKCGGVPLAAKTLGGLLRFKREESEWEHVRDSEIWNLPQDENSVLPALRLSYHH 397

Query: 286 LPYRIKQCFRYCFISPKDSCIWKEDLIKLWIAQSFIEAKENKEMEIIDEEYFDYLTARSF 345
           LP  ++QCF YC + PKD+ I KE LI LW+A SF+ +K N E+E +  E ++ L  RSF
Sbjct: 398 LPLDLRQCFAYCAVFPKDTKIEKEYLIALWMAHSFLLSKGNMELEDVGNEVWNELYLRSF 457

Query: 346 FQEFHKGSDDIITECKMHDIVHDF 369
           FQE    S    T  KMHD++HD 
Sbjct: 458 FQEIEVKSGK--TYFKMHDLIHDL 479

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 =  198 bits (504), Expect = 5e-50,   Method: Compositional matrix adjust.
 Identities = 129/396 (32%), Positives = 204/396 (51%), Gaps = 45/396 (11%)

Query: 18  FRVKRVFLRHDIALKIKAINEKFDDIAKQKDLFNFNVNITKRIETPGRVQSIFFIDESEI 77
           +  K +  RH +  ++  + +K   IA+++  F+ +  I +R        S+  + E ++
Sbjct: 94  YHPKVIPFRHKVGKRMDQVMKKLKAIAEERKNFHLHEKIVERQAVRRETGSV--LTEPQV 151

Query: 78  CGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDK----------- 126
            GRD +K+E++  L+++ SD Q  + ++ I+GMGG+GK TLAQM +ND+           
Sbjct: 152 YGRDKEKDEIVKILINNVSDAQH-LSVLPILGMGGLGKTTLAQMVFNDQRVTEHFHSKIW 210

Query: 127 -----DF---RVAKAIIAAL-GCETSNLGSLQSLVRCISESIEGKKYLVVLDDVWTDDYT 177
                DF   R+ KAI+ ++ G        L  L + + E + GK+YL+VLDDVW +D  
Sbjct: 211 ICVSEDFDEKRLIKAIVESIEGRPLLGEMDLAPLQKKLQELLNGKRYLLVLDDVWNEDQQ 270

Query: 178 KWEPFQRCSANGQCGNNILVTTHKKTVARMMESTNFISIKELSTQECWSLFKQESSA--- 234
           KW   +     G  G ++L TT  + V  +M +     +  LS ++CW LF Q +     
Sbjct: 271 KWANLRAVLKVGASGASVLTTTRLEKVGSIMGTLQPYELSNLSQEDCWLLFMQRAFGHQE 330

Query: 235 --KPCL------LLQKLLGVSCALKEL---------EMSGKNSLDSELWQLQELEKDLFS 277
              P L      +++K  GV  A K L         E + ++  DS +W L + E  +  
Sbjct: 331 EINPNLVAIGKEIVKKSGGVPLAAKTLGGILCFKREERAWEHVRDSPIWNLPQDESSILP 390

Query: 278 LLLLNYYDLPYRIKQCFRYCFISPKDSCIWKEDLIKLWIAQSFIEAKENKEMEIIDEEYF 337
            L L+Y+ LP  +KQCF YC + PKD+ + KE LI LW+A  F+ +K N E+E + +E +
Sbjct: 391 ALRLSYHQLPLDLKQCFAYCAVFPKDAKMEKEKLISLWMAHGFLLSKGNMELEDVGDEVW 450

Query: 338 DYLTARSFFQEFHKGSDDIITECKMHDIVHDFAQFL 373
             L  RSFFQE      D  T  KMHD++HD A  L
Sbjct: 451 KELYLRSFFQEIE--VKDGKTYFKMHDLIHDLATSL 484

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

 Score =  198 bits (503), Expect = 8e-50,   Method: Compositional matrix adjust.
 Identities = 125/395 (31%), Positives = 204/395 (51%), Gaps = 44/395 (11%)

Query: 18  FRVKRVFLRHDIALKIKAINEKFDDIAKQKDLFNFNVNITKRIETPGRVQSIFFIDESEI 77
           +  K +  RH +  ++  + +K + IA+++  F+    I +R        S+  + E ++
Sbjct: 94  YHPKVIPFRHKVGKRMDQVMKKLNAIAEERKKFHLQEKIIERQAATRETGSV--LTEPQV 151

Query: 78  CGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDK----------- 126
            GRD +K+E++  L++ +SD QK + ++ I+GMGG+GK TL+QM +ND+           
Sbjct: 152 YGRDKEKDEIVKILINTASDAQK-LSVLPILGMGGLGKTTLSQMVFNDQRVTERFYPKIW 210

Query: 127 -----DF---RVAKAIIAALGCETSNLGSLQSLVRCISESIEGKKYLVVLDDVWTDDYTK 178
                DF   R+ KAI+ ++  ++ +   L  L + + E + GK+Y +VLDDVW +D  K
Sbjct: 211 ICISDDFNEKRLIKAIVESIEGKSLSDMDLAPLQKKLQELLNGKRYFLVLDDVWNEDQHK 270

Query: 179 WEPFQRCSANGQCGNNILVTTHKKTVARMMESTNFISIKELSTQECWSLFKQESSA---- 234
           W   +     G  G  +L TT  + V  +M +     +  LS ++CW LF Q +      
Sbjct: 271 WANLRAVLKVGASGAFVLTTTRLEKVGSIMGTLQPYELSNLSPEDCWFLFMQRAFGHQEE 330

Query: 235 -KPCLL------LQKLLGVSCALKEL---------EMSGKNSLDSELWQLQELEKDLFSL 278
             P L+      ++K  GV  A K L         E   ++  DS +W L + E  +   
Sbjct: 331 INPNLMAIGKEIVKKCGGVPLAAKTLGGILRFKREEREWEHVRDSPIWNLPQDESSILPA 390

Query: 279 LLLNYYDLPYRIKQCFRYCFISPKDSCIWKEDLIKLWIAQSFIEAKENKEMEIIDEEYFD 338
           L L+Y+ LP  ++QCF YC + PKD+ + KE+LI  W+A  F+ +K N E+E +  E ++
Sbjct: 391 LRLSYHHLPLDLRQCFVYCAVFPKDTKMAKENLIAFWMAHGFLLSKGNLELEDVGNEVWN 450

Query: 339 YLTARSFFQEFHKGSDDIITECKMHDIVHDFAQFL 373
            L  RSFFQE    S    T  KMHD++HD A  L
Sbjct: 451 ELYLRSFFQEIEVESGK--TYFKMHDLIHDLATSL 483

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 =  167 bits (423), Expect = 1e-40,   Method: Compositional matrix adjust.
 Identities = 110/387 (28%), Positives = 200/387 (51%), Gaps = 59/387 (15%)

Query: 32  KIKAINEKFDDIAKQKDLFNFNVNITKRIETPGRVQSIFFIDESEICGRDYKKNELLSKL 91
           +++ +  + + +A Q+++      +T  I    R+ +   +DESE+ GRD  K+E++  L
Sbjct: 129 RLEKVTIRLERLASQRNILGLK-ELTAMIPK-QRLPTTSLVDESEVFGRDDDKDEIMRFL 186

Query: 92  LSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKD-------------------FRVAK 132
           + ++  +   I +++IVG+GG+GK TL+Q+ YND+                    F++ K
Sbjct: 187 IPENG-KDNGITVVAIVGIGGVGKTTLSQLLYNDQHVRSYFGTKVWAHVSEEFDVFKITK 245

Query: 133 AI---IAALGCETSNLGSLQSLVRCISESIEGK--KYLVVLDDVWTDDYTKWEPFQRCSA 187
            +   + +  CE ++L  LQ  ++   E + G    +L+VLDD+W +++  W+  ++   
Sbjct: 246 KVYESVTSRPCEFTDLDVLQVKLK---ERLTGTGLPFLLVLDDLWNENFADWDLLRQPFI 302

Query: 188 NGQCGNNILVTTHKKTVARMMESTNFISIKELSTQECWSLFKQE--SSAKPCL------- 238
           +   G+ ILVTT  + VA +M + +  +++ LS  +CWSLF +    + +PCL       
Sbjct: 303 HAAQGSQILVTTRSQRVASIMCAVHVHNLQPLSDGDCWSLFMKTVFGNQEPCLNREIGDL 362

Query: 239 ---LLQKLLGVSCALKEL----EMSGK-----NSLDSELWQLQELEKDLFSLLLLNYYDL 286
              ++ K  G+  A+K L       GK       L S +W L   + +L  +L ++YY L
Sbjct: 363 AERIVHKCRGLPLAVKTLGGVLRFEGKVIEWERVLSSRIWDLPADKSNLLPVLRVSYYYL 422

Query: 287 PYRIKQCFRYCFISPKDSCIWKEDLIKLWIAQSFI-EAKENKEMEIIDEEYFDYLTARSF 345
           P  +K+CF YC I PK     K+ ++ LW+A+ F+ + + +K +E +  EYF  L +RS 
Sbjct: 423 PAHLKRCFAYCSIFPKGHAFEKDKVVLLWMAEGFLQQTRSSKNLEELGNEYFSELESRSL 482

Query: 346 FQEFHKGSDDIITECKMHDIVHDFAQF 372
            Q+         T   MHD +++ AQF
Sbjct: 483 LQK-------TKTRYIMHDFINELAQF 502

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 =  137 bits (346), Expect = 1e-31,   Method: Compositional matrix adjust.
 Identities = 90/349 (25%), Positives = 165/349 (47%), Gaps = 42/349 (12%)

Query: 72  IDESEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYND------ 125
           + +  + GR   K  L++ LLSD         +IS+VGM G+GK TL ++ +ND      
Sbjct: 163 LPQGRLVGRVEDKLALVNLLLSDDEISIGKPAVISVVGMPGVGKTTLTEIVFNDYRVTEH 222

Query: 126 -------------KDFRVAKAIIAALGCETSNLGSLQSLVRCISESIEGKKYLVVLDDVW 172
                          F V KA++  +     N   L SL   + +++ GK++L+VLDD W
Sbjct: 223 FEVKMWISAGINFNVFTVTKAVLQDITSSAVNTEDLPSLQIQLKKTLSGKRFLLVLDDFW 282

Query: 173 TDDYTKWEPFQRCSANGQCGNNILVTTHKKTVARMMESTNFISIKELSTQECWSL----- 227
           ++  ++WE FQ    + + G+ I++TT  + V+ + ++     +K ++ +ECW L     
Sbjct: 283 SESDSEWESFQVAFTDAEEGSKIVLTTRSEIVSTVAKAEKIYQMKLMTNEECWELISRFA 342

Query: 228 --------FKQESSAKPCLLLQKLLGVSCALKELEMSGKNSLDSELW-----QLQELEKD 274
                     QE       + ++  G+  A + +    ++  + + W             
Sbjct: 343 FGNISVGSINQELEGIGKRIAEQCKGLPLAARAIASHLRSKPNPDDWYAVSKNFSSYTNS 402

Query: 275 LFSLLLLNYYDLPYRIKQCFRYCFISPKDSCIWKEDLIKLWIAQSFI-EAKENKEMEIID 333
           +  +L L+Y  LP ++K+CF  C I PK     +E+L+ LW+A   + + + ++ +E I 
Sbjct: 403 ILPVLKLSYDSLPPQLKRCFALCSIFPKGHVFDREELVLLWMAIDLLYQPRSSRRLEDIG 462

Query: 334 EEYFDYLTARSFFQEFHKGSDDIITECKMHDIVHDFAQFLRKNQCLSIE 382
            +Y   L A+SFFQ      D  +T   MHD+++D A+ +  + C  +E
Sbjct: 463 NDYLGDLVAQSFFQRL----DITMTSFVMHDLMNDLAKAVSGDFCFRLE 507

Potential disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q39214|RPM1_ARATH Disease resistance protein RPM1 OS=Arabidopsis thaliana GN=RPM1 PE=1 SV=1

 Score =  114 bits (286), Expect = 1e-24,   Method: Compositional matrix adjust.
 Identities = 110/427 (25%), Positives = 187/427 (43%), Gaps = 81/427 (18%)

Query: 16  SCFRVKRVF-------LRHDIALKIKAINEKFDDIAKQKDLFNFNVNITKRIETP----- 63
           SC ++ R F        RH IA K+  +N     I+     +  + N    +  P     
Sbjct: 94  SCAKIWRAFHFPRYMWARHSIAQKLGMVNVMIQSISDSMKRYYHSENYQAALLPPIDDGD 153

Query: 64  -----GRVQSIFFIDESEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITL 118
                   +S  F  E+ + G D  K +L+ +LLS   + Q+ +  +++VGMGG GK TL
Sbjct: 154 AKWVNNISESSLFFSENSLVGIDAPKGKLIGRLLS--PEPQRIV--VAVVGMGGSGKTTL 209

Query: 119 AQMAYNDKDFR----------VAKAII-----------------AALGCETSNLGSLQSL 151
           +   +  +  R          ++K+ +                   +  E  +LG  + L
Sbjct: 210 SANIFKSQSVRRHFESYAWVTISKSYVIEDVFRTMIKEFYKEADTQIPAELYSLG-YREL 268

Query: 152 VRCISESIEGKKYLVVLDDVWTDDYTKWEPFQRCSANGQCGNNILVTTHKKTVARM---M 208
           V  + E ++ K+Y+VVLDDVWT     W        +G  G+ +++TT    VA     +
Sbjct: 269 VEKLVEYLQSKRYIVVLDDVWTTGL--WREISIALPDGIYGSRVMMTTRDMNVASFPYGI 326

Query: 209 ESTNFISIKELSTQECWSLFKQES---SAKPCL----------LLQKLLGVSCALKELE- 254
            ST    I+ L   E W LF  ++   S + C           L+++  G+  A+  L  
Sbjct: 327 GSTKH-EIELLKEDEAWVLFSNKAFPASLEQCRTQNLEPIARKLVERCQGLPLAIASLGS 385

Query: 255 -MSGK----------NSLDSELWQLQELEKDLFSLLLLNYYDLPYRIKQCFRYCFISPKD 303
            MS K          ++L+ EL    EL K + S++ L++ DLPY +K+CF YC + P +
Sbjct: 386 MMSTKKFESEWKKVYSTLNWELNNNHEL-KIVRSIMFLSFNDLPYPLKRCFLYCSLFPVN 444

Query: 304 SCIWKEDLIKLWIAQSFIEAKENKEMEIIDEEYFDYLTARSFFQEFHKGSDDIITECKMH 363
             + ++ LI++W+AQ F+E     + E + + Y + L  R+  Q             KMH
Sbjct: 445 YRMKRKRLIRMWMAQRFVEPIRGVKAEEVADSYLNELVYRNMLQVILWNPFGRPKAFKMH 504

Query: 364 DIVHDFA 370
           D++ + A
Sbjct: 505 DVIWEIA 511

Disease resistance (R) protein that specifically recognizes the AvrRpm1 type III effector avirulence protein from Pseudomonas syringae. Resistance proteins guard the plant against pathogens that contain an appropriate avirulence protein via an indirect interaction with this avirulence protein. That triggers a defense system including the hypersensitive response, which restricts the pathogen growth. Acts via its interaction with RIN4, and probably triggers the plant resistance when RIN4 is phosphorylated by AvrRpm1. It is then degraded at the onset of the hypersensitive response.

Arabidopsis thaliana (taxid: 3702)

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

 Score =  113 bits (283), Expect = 3e-24,   Method: Compositional matrix adjust.
 Identities = 106/414 (25%), Positives = 191/414 (46%), Gaps = 67/414 (16%)

Query: 22  RVFLRHDIALKIKAINEKFDDIAKQ-KDLFNF----NV---NITKRIETPGRVQSIFFID 73
           RV L++  + +++ INE+   I  Q +  F F    NV   N T R  +P         D
Sbjct: 104 RVPLQYKKSKRLQEINERITKIKSQVEPYFEFITPSNVGRDNGTDRWSSP-------VYD 156

Query: 74  ESEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDF----- 128
            +++ G +  K ++  + L  S+D Q  + +++ VGMGG+GK T+AQ  +NDK+      
Sbjct: 157 HTQVVGLEGDKRKI-KEWLFRSNDSQ--LLIMAFVGMGGLGKTTIAQEVFNDKEIEHRFE 213

Query: 129 --------------RVAKAIIAALGCETSNLGSLQSLVRCISESIEGKKYLVVLDDVWTD 174
                         ++ ++I+  LG + S    + +L+R I + + GK+YL+V+DDVW  
Sbjct: 214 RRIWVSVSQTFTEEQIMRSILRNLG-DASVGDDIGTLLRKIQQYLLGKRYLIVMDDVWDK 272

Query: 175 DYTKWEPFQRCSANGQCGNNILVTTHKKTVARMMESTNFISIKE--LSTQECWSLF---- 228
           + + W+   +    GQ G +++VTT  ++VA+ +++ +  + +   LS    W LF    
Sbjct: 273 NLSWWDKIYQGLPRGQ-GGSVIVTTRSESVAKRVQARDDKTHRPELLSPDNSWLLFCNVA 331

Query: 229 ---KQESSAKPCL------LLQKLLGVSCALKELE--MSGKNSLDSELWQLQELEKD--- 274
                 +  +P L      ++ K  G+   +K +   +  K+ +  E  ++ E  +D   
Sbjct: 332 FAANDGTCERPELEDVGKEIVTKCKGLPLTIKAVGGLLLCKDHVYHEWRRIAEHFQDELR 391

Query: 275 --------LFSLLLLNYYDLPYRIKQCFRYCFISPKDSCIWKEDLIKLWIAQSFIEAKEN 326
                   + S L L+Y +LP  +K C     + P+D  I K+ L+  WI + F+  +  
Sbjct: 392 GNTSETDNVMSSLQLSYDELPSHLKSCILTLSLYPEDCVIPKQQLVHGWIGEGFVMWRNG 451

Query: 327 KEMEIIDEEYFDYLTARSFFQEFHKGSDDIITECKMHDIVHDFAQFLRKNQCLS 380
           +      E+ F  LT R   +   K     I  CK+HD+V D    + K    S
Sbjct: 452 RSATESGEDCFSGLTNRCLIEVVDKTYSGTIITCKIHDMVRDLVIDIAKKDSFS 505

Disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

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

 Score =  100 bits (249), Expect = 2e-20,   Method: Compositional matrix adjust.
 Identities = 103/405 (25%), Positives = 181/405 (44%), Gaps = 75/405 (18%)

Query: 27  HDIALKIKAINEKFDDIAKQKDLFNFNVNITKRIETPGRVQSIFF--------IDESEIC 78
           + I   I+ +  +  DI ++++   + +   K  +  G   S+          +D+ E+ 
Sbjct: 106 YSIVDDIRILKRRILDITRKRE--TYGIGGLKEPQGGGNTSSLRVRQLRRARSVDQEEVV 163

Query: 79  -GRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDFR-------- 129
            G +     LL KLL D  ++ + I  ISI GMGG+GK  LA+  YN +D +        
Sbjct: 164 VGLEDDAKILLEKLL-DYEEKNRFI--ISIFGMGGLGKTALARKLYNSRDVKERFEYRAW 220

Query: 130 -----------VAKAIIAALGCETSNLGSLQSLVRCISESIE--------GKKYLVVLDD 170
                      +   II +LG  +     L+ + +   E +E        GKKYLVV+DD
Sbjct: 221 TYVSQEYKTGDILMRIIRSLGMTSGE--ELEKIRKFAEEELEVYLYGLLEGKKYLVVVDD 278

Query: 171 VWTDDYTKWEPFQRCSANGQCGNNILVTTHKKTVARMMESTNFI-SIKELSTQECWSLFK 229
           +W  +   W+  +R       G+ +++TT  K VA  ++   +   ++ L+ +E W LF+
Sbjct: 279 IW--EREAWDSLKRALPCNHEGSRVIITTRIKAVAEGVDGRFYAHKLRFLTFEESWELFE 336

Query: 230 QES-------------SAKPCLLLQKLLGVSCALKELE--MSGK-----NSLDSELWQLQ 269
           Q +             + K   ++QK  G+   +  L   +S K     N + + LW+  
Sbjct: 337 QRAFRNIQRKDEDLLKTGKE--MVQKCRGLPLCIVVLAGLLSRKTPSEWNDVCNSLWR-- 392

Query: 270 ELEKDLFSL----LLLNYYDLPYRIKQCFRYCFISPKDSCIWKEDLIKLWIAQSFIEAKE 325
            L+ D   +      L++ +L +  K CF Y  I P+D  I  E LI L +A+ FI+  E
Sbjct: 393 RLKDDSIHVAPIVFDLSFKELRHESKLCFLYLSIFPEDYEIDLEKLIHLLVAEGFIQGDE 452

Query: 326 NKEMEIIDEEYFDYLTARSFFQEFHKGSDDIITECKMHDIVHDFA 370
              ME +   Y + L  RS  +   +    +++ C++HD++ D A
Sbjct: 453 EMMMEDVARYYIEELIDRSLLEAVRRERGKVMS-CRIHDLLRDVA 496

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

Arabidopsis thaliana (taxid: 3702)

>sp|Q9STE5|R13L2_ARATH Putative disease resistance RPP13-like protein 2 OS=Arabidopsis thaliana GN=RPP13L2 PE=3 SV=1

 Score = 99.8 bits (247), Expect = 4e-20,   Method: Compositional matrix adjust.
 Identities = 109/428 (25%), Positives = 196/428 (45%), Gaps = 69/428 (16%)

Query: 27  HDIALKIKAINEKFDDIAKQKDLF---NFN----VNITKRIETPGRVQSIFFIDESE--I 77
           ++I   IK +  +  D+ ++ +++   NFN    V  T R+    R +S    D+ E  +
Sbjct: 106 YNILDDIKTLKRRTLDVTRKLEMYGIGNFNEHRVVASTSRVREVRRARS----DDQEERV 161

Query: 78  CGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKD------FRVA 131
            G       LL+KLL D  D +  I MISI GM G+GK +LA+  +N  D      +RV 
Sbjct: 162 VGLTDDAKVLLTKLLDDDGDNK--IYMISIFGMEGLGKTSLARKLFNSSDVKESFEYRVW 219

Query: 132 KAIIAALGCETSNLGSLQSLVRCISESIEG--------------------KKYLVVLDDV 171
             +     C T ++  L  ++  + E+ EG                    K+YLVV+DD+
Sbjct: 220 TNVSGE--CNTRDI--LMRIISSLEETSEGELEKMAQQELEVYLHDILQEKRYLVVVDDI 275

Query: 172 WTDDYTKWEPFQRCSANGQCGNNILVTTHKKTVARMMESTNFI-SIKELSTQECWSLFK- 229
           W  +    E  +R       G+ +++TT  + VA   +   +  +I+ L+ +E W+LF+ 
Sbjct: 276 WESE--ALESLKRALPCSYQGSRVIITTSIRVVAEGRDKRVYTHNIRFLTFKESWNLFEK 333

Query: 230 ----------QESSAKPCLLLQKLLGV---SCALKELEMSGKNSLDSELWQLQELEKD-- 274
                     QE       ++QK  G+   +  L  L    K +  +++W    ++ D  
Sbjct: 334 KAFRYILKVDQELQKIGKEMVQKCGGLPRTTVVLAGLMSRKKPNEWNDVWSSLRVKDDNI 393

Query: 275 -LFSLLLLNYYDLPYRIKQCFRYCFISPKDSCIWKEDLIKLWIAQSFIEAKENKEMEIID 333
            + SL  L++ D+ + +K CF Y  + P+D  +  E LI+L +A+ FI+  E   ME + 
Sbjct: 394 HVSSLFDLSFKDMGHELKLCFLYLSVFPEDYEVDVEKLIQLLVAEGFIQEDEEMTMEDVA 453

Query: 334 EEYFDYLTARSFFQEFHKGSDDIITECKMHDIVHDFAQFLRKNQCLS-IEVNSPNQSLTN 392
             Y + L   S  +   +    +++  ++HD+V +F   ++K++ L+ + V     S T 
Sbjct: 454 RYYIEDLVYISLVEVVKRKKGKLMS-FRIHDLVREFT--IKKSKELNFVNVYDEQHSSTT 510

Query: 393 ISWEKLQH 400
              E + H
Sbjct: 511 SRREVVHH 518

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	406
224134406	987	cc-nbs-lrr resistance protein [Populus t	0.963	0.396	0.417	5e-85
225470202	910	PREDICTED: putative disease resistance p	0.955	0.426	0.419	3e-83
359482790	923	PREDICTED: putative disease resistance p	0.960	0.422	0.399	3e-80
359482784	919	PREDICTED: putative disease resistance p	0.963	0.425	0.409	4e-80
224122712	945	cc-nbs-lrr resistance protein [Populus t	0.958	0.411	0.394	1e-79
359482792	922	PREDICTED: putative disease resistance p	0.963	0.424	0.4	5e-79
359482794	880	PREDICTED: putative disease resistance p	0.963	0.444	0.411	1e-77
224114848	571	cc-nbs resistance protein [Populus trich	0.953	0.677	0.385	3e-76
359482800	1006	PREDICTED: putative disease resistance p	0.977	0.394	0.387	4e-76
359482798	932	PREDICTED: putative disease resistance p	0.963	0.419	0.408	4e-76

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

 Score =  321 bits (822), Expect = 5e-85,   Method: Compositional matrix adjust.
 Identities = 181/434 (41%), Positives = 262/434 (60%), Gaps = 43/434 (9%)

Query: 11  SFFPTSCFRVKRVFLRHDIALKIKAINEKFDDIAKQKDLFNFNVNITKRIETPGRVQSIF 70
           SF  + C   +RV  RHDIA KI  + +K +DIAK+K +F F ++  K IE     Q+  
Sbjct: 134 SFLCSFCCSFRRVARRHDIAHKIIEVGQKLEDIAKRKAMFGFELH--KAIEKEPDRQTTS 191

Query: 71  FIDESEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDFR- 129
           F+D S + GR+ +K  ++SKLL DSS + + +++ISIVGMGG+GK TLAQ+AYN  + + 
Sbjct: 192 FVDVSRVHGREDEKKNVISKLLCDSSQEGRKVQVISIVGMGGLGKTTLAQLAYNADEIKT 251

Query: 130 ------------------VAKAIIAALGCETSNLGSLQSLVRCISESIEGKKYLVVLDDV 171
                             VAKAII  L     NL  L+ L + ISESIEGKK+L+VLDDV
Sbjct: 252 YFEKRIWVCVSHPFDENTVAKAIIEDLSGAAPNLVELEPLCKRISESIEGKKFLLVLDDV 311

Query: 172 WTDDYTKWEPFQRCSANGQCGNNILVTTHKKTVARMMESTNFISIKELSTQECWSLFKQE 231
           W D+  KWEP +     G  G+ ILVTT K TVA+MMES   + + +L+ +ECWS+F Q 
Sbjct: 312 WEDNPRKWEPLKESLKCGAPGSRILVTTRKDTVAKMMESDYSLLLGKLTDEECWSVFSQV 371

Query: 232 S----SAKPCLLLQKL--------LGVSCALKELE--MSGK-------NSLDSELWQLQE 270
           +    S   C +  ++         G+  A K L   M  K       N L +ELW+++E
Sbjct: 372 AFYGRSQDACEMFTEIGRQIVYRCKGLPLAAKTLGGLMQSKTTTEDWDNILSNELWEIEE 431

Query: 271 LEKDLFSLLLLNYYDLPYRIKQCFRYCFISPKDSCIWKEDLIKLWIAQSFIEAKENKEME 330
           +EK +F  LLL+YYDLP  I+ CF YC + PKD  + +  LIK+W+AQ +++A  +KEME
Sbjct: 432 VEKGIFPPLLLSYYDLPVAIRSCFTYCAMFPKDHVMERGKLIKMWMAQGYLKASPSKEME 491

Query: 331 IIDEEYFDYLTARSFFQEFHKGSDDIITECKMHDIVHDFAQFLRKNQCLSIEVNSPNQSL 390
           ++ + YF+ L  R+FFQ+F +  +D I + KMHDIVHDFAQFL K++C ++E +   +  
Sbjct: 492 LVGKGYFEILATRAFFQDFQETDEDSI-KFKMHDIVHDFAQFLMKDECFTVETDVLKRQK 550

Query: 391 TNISWEKLQHSTLV 404
           T   +E+ +H+ + 
Sbjct: 551 TESFYERARHAIMT 564

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225470202|ref|XP_002269053.1| PREDICTED: putative disease resistance protein RGA3-like [Vitis vinifera]

 Score =  315 bits (807), Expect = 3e-83,   Method: Compositional matrix adjust.
 Identities = 183/436 (41%), Positives = 257/436 (58%), Gaps = 48/436 (11%)

Query: 11  SFFPTSCFRVKRVFLRHDIALKIKAINEKFDDIAKQKDLFNFNVNITKRIETPGRVQSIF 70
           S  P+ C   KRV  R DIALKIK I ++ DDIA +++ F+F     + ++   R+ +I 
Sbjct: 107 SCIPSPCICFKRVARRRDIALKIKGIKQEVDDIANERNQFDFKSTNNEELQ---RIITIS 163

Query: 71  FIDESEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKD--- 127
            +D +E+ GRD  +  +L +LL  S +Q   +  IS+ GMGGIGK TLAQ+A+N  D   
Sbjct: 164 AVDTTEVYGRDRDEGIILRQLLGTSCEQSLGLYTISVFGMGGIGKTTLAQLAFNHYDVKA 223

Query: 128 ----------------FRVAKAIIAALGCETSNLGSLQSLVRCISESIEGKKYLVVLDDV 171
                            R+ +AI+ AL  ++S+L   ++L + I +SI GKK+L+VLDDV
Sbjct: 224 HFEIRIWVCVSDPFVPIRILRAILEALQGQSSDLHDPEALQQKIQKSIYGKKFLLVLDDV 283

Query: 172 WTDDYTKWEPFQRCSANGQCGNNILVTTHKKTVARMMESTNFISIKELSTQECWSLFKQ- 230
           WT+DY  WE  + C   G  G+ ILVTTH ++VARMM ST   S+  L  ++  +LF Q 
Sbjct: 284 WTEDYQLWEQLKNCLKCGGGGSRILVTTHNESVARMMRSTYMHSLGSLPLEQSQALFSQI 343

Query: 231 -------------ESSAKPCLLLQKLLGVSCALKELE--MSGKNS-------LDSELWQL 268
                        E   K   +  K  G+  A+K L   M  KN+       L+S++W+L
Sbjct: 344 AFCGKSTDKIEELEEIGKK--IADKCKGLPLAVKALGSLMQSKNNKEDWENVLNSKMWEL 401

Query: 269 QELEKDLFSLLLLNYYDLPYRIKQCFRYCFISPKDSCIWKEDLIKLWIAQSFIEAKENKE 328
              EK L   LLL+YYDLP  IKQCF YC + PKD  I ++DLIKLW+AQS++ +K  +E
Sbjct: 402 DVFEKKLSPALLLSYYDLPPPIKQCFSYCAVFPKDHSIERDDLIKLWMAQSYLNSKAGRE 461

Query: 329 MEIIDEEYFDYLTARSFFQEFHKGSDDIITECKMHDIVHDFAQFLRKNQCLSIEVNSPNQ 388
           ME +  EYF+ L ARSFFQ+F K     I  CKMHDIVHDFAQFL  N+CL++E +S N 
Sbjct: 462 METVGREYFENLAARSFFQDFEKDDKGNIVRCKMHDIVHDFAQFLTHNECLNLEDDSENL 521

Query: 389 SLTNISWEKLQHSTLV 404
             TN+  +K +H++L+
Sbjct: 522 K-TNLYLQKGRHASLM 536

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359482790|ref|XP_002268671.2| PREDICTED: putative disease resistance protein RGA4-like [Vitis vinifera]

 Score =  305 bits (781), Expect = 3e-80,   Method: Compositional matrix adjust.
 Identities = 173/433 (39%), Positives = 254/433 (58%), Gaps = 43/433 (9%)

Query: 13  FPTSCFRVKRVFLRHDIALKIKAINEKFDDIAKQKDLFNFNVNITKRIETPGRVQSIFFI 72
            P+ C   K+V  R DIALKIK I ++ DDI +++  FNF  + ++  E P R+ +   I
Sbjct: 109 MPSPCICFKQVASRRDIALKIKGIKQQLDDIERERIRFNFVSSRSE--ERPQRLITTSAI 166

Query: 73  DESEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKD----- 127
           D SE+ GRD  K  +L  LL     ++  + ++SIVG GG+GK TLAQ+AY+  +     
Sbjct: 167 DISEVYGRDMDKKIILDHLLGKMCQEKSGLYIVSIVGTGGMGKTTLAQLAYSHSEVKVHF 226

Query: 128 --------------FRVAKAIIAALGCETSNLGSLQSLVRCISESIEGKKYLVVLDDVWT 173
                          RV +AI+ AL  +  +L  L+++ + I   I G+K+L+VLDDVWT
Sbjct: 227 DERIWVCVSDPYDPIRVCRAIVEALQKKPCHLHDLEAVQQEIQTCIAGQKFLLVLDDVWT 286

Query: 174 DDYTKWEPFQRCSANGQCGNNILVTTHKKTVARMMESTNFISIKELSTQECWSLFKQ--- 230
           +D   WE  +     G  G+ IL TT K++V +MM +T    + ELS+++  +LF Q   
Sbjct: 287 EDNQLWEQLKNTLHCGAAGSRILATTRKESVVKMMRATYKHPLGELSSEQSRALFHQIAF 346

Query: 231 ----------------ESSAKPC---LLLQKLLGVSCALKELEMSGKNSLDSELWQLQEL 271
                           E  A  C    L  K LG    +K  E   KN L+SE+WQL E 
Sbjct: 347 YERSTWEKEEELKEIGEKIADKCKGLPLAIKTLGNLLRIKNSEEEWKNVLNSEVWQLDEF 406

Query: 272 EKDLFSLLLLNYYDLPYRIKQCFRYCFISPKDSCIWKEDLIKLWIAQSFIEAKENKEMEI 331
           E+D+   LLL+YYDLP  I++CF +C + PKDS I +++LIKLW+AQS++++  +KEME+
Sbjct: 407 ERDISPALLLSYYDLPPAIQRCFSFCAVFPKDSVIERDELIKLWMAQSYLKSDGSKEMEM 466

Query: 332 IDEEYFDYLTARSFFQEFHKGSDDIITECKMHDIVHDFAQFLRKNQCLSIEVNSPNQSLT 391
           +   YF+YL ARSFFQ+F K  D  I  CKMHDIVHDFAQFL  N+C  +EV++  +   
Sbjct: 467 VGRTYFEYLAARSFFQDFEKDDDGNIIHCKMHDIVHDFAQFLTLNECFIVEVDNQKKGSM 526

Query: 392 NISWEKLQHSTLV 404
           ++ ++K++H+TLV
Sbjct: 527 DLFFQKIRHATLV 539

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359482784|ref|XP_002269044.2| PREDICTED: putative disease resistance protein RGA4-like [Vitis vinifera]

 Score =  304 bits (779), Expect = 4e-80,   Method: Compositional matrix adjust.
 Identities = 178/435 (40%), Positives = 252/435 (57%), Gaps = 44/435 (10%)

Query: 11  SFFPTSCFRVKRVFLRHDIALKIKAINEKFDDIAKQKDLFNFNVNITKRIETPGRVQSIF 70
           S  P+ CF +K+V  R DIALKIK I ++ D IA Q+  FNF   I+   E P R  +  
Sbjct: 107 SCIPSPCFCLKQVASRRDIALKIKGIKQQLDVIASQRSQFNF---ISSLSEEPQRFITTS 163

Query: 71  FIDESEICGRDYKKNELLSKLLSDS-SDQQKPIKMISIVGMGGIGKITLAQMAYNDKD-- 127
            +D  E+ GRD  KN +L  LL ++  + +    +ISIVG GG+GK TLAQ+AYN  +  
Sbjct: 164 QLDIPEVYGRDMDKNTILGHLLGETCQETESGPHIISIVGTGGMGKTTLAQLAYNHPEVK 223

Query: 128 -----------------FRVAKAIIAALGCETSNLGSLQSLVRCISESIEGKKYLVVLDD 170
                             R+ + I+  L  E+ NL SL++L + I   I GKK+L+VLDD
Sbjct: 224 AHFDERIWVCVSDPFDPIRIFREIVEILQRESPNLHSLEALQQKIQTCIAGKKFLLVLDD 283

Query: 171 VWTDDYTKWEPFQRCSANGQCGNNILVTTHKKTVARMMESTNFISIKELSTQECWSLFKQ 230
           VWT+++  WE      + G  G+ ILVTT K++V  MM +T   S+ +LS  +  +LF Q
Sbjct: 284 VWTENHQLWEQLNSTLSCGGVGSRILVTTRKESVVEMMRTTYMHSLGKLSEDKSRALFYQ 343

Query: 231 ------------------ESSAKPC---LLLQKLLGVSCALKELEMSGKNSLDSELWQLQ 269
                             E  A  C    L  K LG     K      +N L SE+W+L 
Sbjct: 344 IAFYGKNREKMEDFQEIGEKIADKCKGLPLAIKTLGNLMRSKHNREEWENVLCSEVWKLD 403

Query: 270 ELEKDLFSLLLLNYYDLPYRIKQCFRYCFISPKDSCIWKEDLIKLWIAQSFIEAKENKEM 329
              +D+   LLL+YYDLP  IK+CF +C + PKDS I +++LIKLW+AQS++++  +KEM
Sbjct: 404 VFGRDISPALLLSYYDLPPTIKRCFSFCAVFPKDSVIERDELIKLWMAQSYLKSDGSKEM 463

Query: 330 EIIDEEYFDYLTARSFFQEFHKGSDDIITECKMHDIVHDFAQFLRKNQCLSIEVNSPNQS 389
           E++  EYF+YL ARSFFQ+F K  DD I  CKMHDIVHDFAQFL +N+C  +EV++  + 
Sbjct: 464 EMVGREYFEYLAARSFFQDFEKDGDDDIIRCKMHDIVHDFAQFLTQNECFVVEVDNQKKG 523

Query: 390 LTNISWEKLQHSTLV 404
             ++ ++K+ H+TLV
Sbjct: 524 SMDLFFQKICHATLV 538

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  303 bits (776), Expect = 1e-79,   Method: Compositional matrix adjust.
 Identities = 174/441 (39%), Positives = 261/441 (59%), Gaps = 52/441 (11%)

Query: 11  SFFPTSCFRVKRVFLRHDIALKIKAINEKFDDIAKQKDLFNFNVNITKRIETPGRVQSIF 70
           SF  + CF   +V  R DIALKIK ++EK DDIAK++  + F+  + K  +   R+ +  
Sbjct: 108 SFLGSPCFCFNQVVRRRDIALKIKEVSEKVDDIAKERAKYGFD--LYKGTDELQRLTTTS 165

Query: 71  FIDESEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKD--- 127
           F+DES + GRD +K  ++SKLL++SS + + + +IS+VG+GGIGK TLAQ+A+ND +   
Sbjct: 166 FVDESSVIGRDGEKRNVVSKLLAESSHEARDVDVISLVGLGGIGKTTLAQLAFNDSEVTA 225

Query: 128 ----------------FRVAKAIIAALGCETSNLGSLQSLVRCISESIEGKKYLVVLDDV 171
                            R+AKAI+  L    +NL  LQSL++ +SESI GK+ L+VLDDV
Sbjct: 226 HFEKKIWVCVSEPFDEIRIAKAILEQLEGRPTNLVELQSLLQGVSESITGKRLLLVLDDV 285

Query: 172 WTDDYTKWEPFQRCSANGQCGNNILVTTHKKTVARMMESTNFISIKELSTQECWSLFK-- 229
           WT+++ +WE  +        G+ ILVTT K  VA MM + + I+I++LS + C S+F   
Sbjct: 286 WTENHGQWEQLKPSLTGCARGSRILVTTRKDAVATMMGTDHRINIEKLSDEICRSIFNHV 345

Query: 230 --QESSA-----------------KPCLLLQKLLGVSCALKELEMSGKNSLDSELWQLQE 270
             QE S                  K   L  K+LG     K      +  L SELW+L E
Sbjct: 346 AFQERSEDERERLTDIGDKIANKCKGLPLAAKVLGGLMQSKRTREEWERVLSSELWRLDE 405

Query: 271 LEKD-----LFSLLLLNYYDLPYRIKQCFRYCFISPKDSCIWKEDLIKLWIAQSFIEAKE 325
           +++D     +F  LLL+YYDLP  +++CF YC + PKD  + K +L+K+W+AQ +I+   
Sbjct: 406 VDRDQVESRIFIPLLLSYYDLPSVVRRCFLYCAMFPKDYEMGKYELVKMWMAQGYIKETS 465

Query: 326 NKEMEIIDEEYFDYLTARSFFQEFHKGSDDII--TECKMHDIVHDFAQFLRKNQCLSIEV 383
             +ME++ E YF  L ARSFFQ+F     DI    + KMHDIVHDFAQ++ KN+CL+++V
Sbjct: 466 GGDMELVGERYFHVLAARSFFQDFET---DIFEGMKFKMHDIVHDFAQYMTKNECLTVDV 522

Query: 384 NSPNQSLTNISWEKLQHSTLV 404
           N+   +    S E+++H +++
Sbjct: 523 NTLGGATVETSIERVRHLSMM 543

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359482792|ref|XP_002268589.2| PREDICTED: putative disease resistance protein RGA4-like [Vitis vinifera]

 Score =  301 bits (770), Expect = 5e-79,   Method: Compositional matrix adjust.
 Identities = 174/435 (40%), Positives = 253/435 (58%), Gaps = 44/435 (10%)

Query: 11  SFFPTSCFRVKRVFLRHDIALKIKAINEKFDDIAKQKDLFNFNVNITKRIETPGRVQSIF 70
           S  P+ CF +K+V  R DIALK+K+I ++ D IA Q+  FNF   I+   E P R  +  
Sbjct: 107 SCIPSPCFCLKQVASRRDIALKVKSIKQQLDVIASQRSQFNF---ISSLSEEPQRFITTS 163

Query: 71  FIDESEICGRDYKKNELLSKLLSDSSDQQKPIK-MISIVGMGGIGKITLAQMAYNDKD-- 127
            +D  E+ GRD  KN +L  LL ++  + K    +ISIVG GG+GK TLAQ+AYN  +  
Sbjct: 164 QLDIPEVYGRDMDKNTILGHLLGETCQETKSGPYIISIVGTGGMGKTTLAQLAYNHPEVK 223

Query: 128 -----------------FRVAKAIIAALGCETSNLGSLQSLVRCISESIEGKKYLVVLDD 170
                             R+ + I+  L  E+ NL SL++L + I   I GKK+L+VLDD
Sbjct: 224 AHFDERIWVCVSDPFDPIRIFREIVEILQGESPNLHSLEALQQKIQTYIAGKKFLIVLDD 283

Query: 171 VWTDDYTKWEPFQRCSANGQCGNNILVTTHKKTVARMMESTNFISIKELSTQECWSLFKQ 230
           VWT+++  W   +     G  G+ IL TT K++V +M+ +T   S++ELS ++  +LF Q
Sbjct: 284 VWTENHQLWGQLKSTLNCGGVGSRILATTRKESVVKMVGTTYTHSLEELSREQARALFHQ 343

Query: 231 ------------------ESSAKPC---LLLQKLLGVSCALKELEMSGKNSLDSELWQLQ 269
                             E+ A  C    L  K LG     K      +N L SE+W L 
Sbjct: 344 IAFFEKSREKVEELNEIGENIADKCKGLPLAIKTLGNLMRSKHNREEWENVLCSEVWHLD 403

Query: 270 ELEKDLFSLLLLNYYDLPYRIKQCFRYCFISPKDSCIWKEDLIKLWIAQSFIEAKENKEM 329
           E E+D+   LLL+Y+DLP  I++CF +C + PKDS I + +LIKLW+AQS++++   KEM
Sbjct: 404 EFERDISPALLLSYHDLPPAIQRCFSFCAVFPKDSVIVRAELIKLWMAQSYLKSDGCKEM 463

Query: 330 EIIDEEYFDYLTARSFFQEFHKGSDDIITECKMHDIVHDFAQFLRKNQCLSIEVNSPNQS 389
           E++   YF+YL ARSFFQ+F K  D  I  CKMHDIVHDFAQFL +N+C  +EV++  + 
Sbjct: 464 EMVGRTYFEYLAARSFFQDFEKDDDGNIIRCKMHDIVHDFAQFLTQNECFIVEVDNQKKG 523

Query: 390 LTNISWEKLQHSTLV 404
             ++ ++K++H+TLV
Sbjct: 524 SMDLFFQKIRHATLV 538

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359482794|ref|XP_002268547.2| PREDICTED: putative disease resistance protein RGA4-like [Vitis vinifera]

 Score =  296 bits (759), Expect = 1e-77,   Method: Compositional matrix adjust.
 Identities = 172/418 (41%), Positives = 247/418 (59%), Gaps = 27/418 (6%)

Query: 11  SFFPTSCFRVKRVFLRHDIALKIKAINEKFDDIAKQKDLFNFNVNITKRIETPGRVQSIF 70
           S  P+ CF +K+V  R DIALK+K+I ++ D IA Q+  FNF   I+   E P R  +  
Sbjct: 106 SCIPSPCFCLKQVASRRDIALKVKSIKQQLDVIASQRSQFNF---ISSLSEEPQRFITTS 162

Query: 71  FIDESEICGRDYKKNELLSKLLSDSSDQQKPIK-MISIVGMGGIGKITLAQMAYNDKD-- 127
            +D  E+ GRD  KN +L  LL ++  + K    +ISIVG GG+GK TLAQ+AYN  +  
Sbjct: 163 QLDIPEVYGRDMDKNTILGHLLGETCQETKSGPYIISIVGTGGMGKTTLAQLAYNHPEVK 222

Query: 128 -----------------FRVAKAIIAALGCETSNLGSLQSLVRCISESIEGKKYLVVLDD 170
                             R+ + I+  L  E+ NL SL++L + I   I GKK+L+VLDD
Sbjct: 223 AHFDERIWVCVSDPFDPIRIFREIVEILQGESPNLHSLEALQQKIQTCIAGKKFLIVLDD 282

Query: 171 VWTDDYTKWEPFQRCSANGQCGNNILVTTHKKTVARMMESTNFISIKELSTQECWSLFK- 229
           VWT+++  W   +     G  G+ IL TT + +  +     + I+  E S ++   L + 
Sbjct: 283 VWTENHQLWGQLKSTLNCGGVGSRILATTQELSQEQARALFHQIAFFEKSREKVEELKEI 342

Query: 230 QESSAKPC---LLLQKLLGVSCALKELEMSGKNSLDSELWQLQELEKDLFSLLLLNYYDL 286
            E  A  C    L  K LG    LK  +   +N L+SE+WQL E E+D+   LLL+YYDL
Sbjct: 343 GEKIADKCKGLPLAIKTLGNLMRLKNNKEEWENVLNSEVWQLDEFERDICPALLLSYYDL 402

Query: 287 PYRIKQCFRYCFISPKDSCIWKEDLIKLWIAQSFIEAKENKEMEIIDEEYFDYLTARSFF 346
           P  IK+CF +C + PKDS I  ++LI+LW+AQ+++ +  +KEME++  EYF+YL ARSFF
Sbjct: 403 PPAIKRCFSFCAVFPKDSVIKIDELIRLWMAQNYLNSDASKEMEMVGREYFEYLAARSFF 462

Query: 347 QEFHKGSDDIITECKMHDIVHDFAQFLRKNQCLSIEVNSPNQSLTNISWEKLQHSTLV 404
           Q+F K  DD I  CKMHDIVHDFAQFL KN+C  + V +  +  T  S++K++H+TL+
Sbjct: 463 QDFEKDGDDDIIRCKMHDIVHDFAQFLTKNECFIMNVENAEEGRTKTSFQKIRHATLI 520

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224114848|ref|XP_002332297.1| cc-nbs resistance protein [Populus trichocarpa] gi|222832459|gb|EEE70936.1| cc-nbs resistance protein [Populus trichocarpa]

 Score =  292 bits (747), Expect = 3e-76,   Method: Compositional matrix adjust.
 Identities = 162/420 (38%), Positives = 255/420 (60%), Gaps = 33/420 (7%)

Query: 8   CAYSFFPTSCFRVKRVFLRHDIALKIKAINEKFDDIAKQKDLFNFNVNITKRIETPGRVQ 67
           C++  FP  CF   +V  R DIALKIK + EK D+IAK+K ++ F   + +  +   R+ 
Sbjct: 107 CSFLGFPCFCF--NQVVRRRDIALKIKEVCEKLDEIAKEKAMYGFE--LYRATDELQRIT 162

Query: 68  SIFFIDESEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKD 127
           S   +DES + GRD ++  ++SKLL +S  +   +  IS+VG+GGIGK TLAQ+A+ND +
Sbjct: 163 STSLVDESIVSGRDDEREAVVSKLLGESRQEAWDVYAISLVGLGGIGKTTLAQLAFNDAE 222

Query: 128 F-------------------RVAKAIIAALGCETSNLGSLQSLVRCISESIEGKKYLVVL 168
                               R+AKAI+  L     +L  LQSL++ +SESI+GK++L+VL
Sbjct: 223 VTAHFEKKIWVCVSDPFDEVRIAKAILEQLEGRAPDLVELQSLLQRVSESIKGKRFLLVL 282

Query: 169 DDVWTDDYTKWEPFQRCSANGQCGNNILVTTHKKTVARMMESTNFISIKELSTQECWSLF 228
           DDVWT+++ +WE  +        G+ ILVTT    V R + + + ++ +E S  E   L 
Sbjct: 283 DDVWTENHRQWEQLKPSLTGSAPGSRILVTTQ---VCRSIFNIH-VAFQERSKDERERLT 338

Query: 229 ----KQESSAKPCLLLQKLLGVSCALKELEMSGKNSLDSELWQLQELEKDLFSLLLLNYY 284
               K  S  K   L  K+LG     +  E   +  L SELW+L+ +E+ +F  LLL+YY
Sbjct: 339 DIGDKIASKCKGLPLAAKVLGDLMRFERRE-EWEYVLSSELWELEHVERGIFGPLLLSYY 397

Query: 285 DLPYRIKQCFRYCFISPKDSCIWKEDLIKLWIAQSFIEAKENKEMEIIDEEYFDYLTARS 344
           DLP+ +++CF YC + PKD  + K++L+K+W+AQ +++    ++ME++ EEYF  L ARS
Sbjct: 398 DLPFVVRRCFLYCAMFPKDYKMRKDELVKMWMAQGYLKETPRRDMEVVGEEYFQVLAARS 457

Query: 345 FFQEFHKGSDDIITECKMHDIVHDFAQFLRKNQCLSIEVNSPNQSLTNISWEKLQHSTLV 404
           FFQ+F  G  D++   KMHDIVHDFA+++RKN+CL+++VN   ++    S  +++H +++
Sbjct: 458 FFQDFEMGGPDVMV-FKMHDIVHDFARYMRKNECLTVDVNKLREATVETSSARVRHLSMI 516

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359482800|ref|XP_003632842.1| PREDICTED: putative disease resistance protein RGA4-like [Vitis vinifera]

 Score =  291 bits (745), Expect = 4e-76,   Method: Compositional matrix adjust.
 Identities = 170/439 (38%), Positives = 250/439 (56%), Gaps = 42/439 (9%)

Query: 6   KLCAYSFFPTSCFRVKRVFLRHDIALKIKAINEKFDDIAKQKDLFNFNVNITKRIETPGR 65
           KL   S  P+ C   K+V LR DI +KIK I ++ D IA +++ FNF  + T  I+ P R
Sbjct: 97  KLKISSCLPSPCVCFKQVLLRCDIGIKIKDIRKQLDAIANERNQFNFVSSST--IQQPHR 154

Query: 66  VQSIFFIDESEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYND 125
             +   ID S+ CGRD   + ++ KLL  SS +   + +ISIVGMGGIGK TLAQ+AYND
Sbjct: 155 RMTSSVIDVSQFCGRDADMDVIIDKLLGGSSQESSSLYIISIVGMGGIGKTTLAQLAYND 214

Query: 126 KDFR-------------------VAKAIIAALGCETSNLGSLQSLVRCISESIEGKKYLV 166
              +                   +++AI+ AL  E+ +   L+++ + I   I  KK+L+
Sbjct: 215 DRVKAYFHERMWVCVSDPFDPVTISRAILEALQKESCDFHELENVEQKICTLIADKKFLL 274

Query: 167 VLDDVWTDDYTKWEPFQRCSANGQCGNNILVTTHKKTVARMMESTNFISIKELSTQECWS 226
           VLDDVWT++Y  WE  +     G  G+ ILVTT K  V+ MM +T    ++ELS  +CWS
Sbjct: 275 VLDDVWTENYELWEKVESSLKGGAPGSRILVTTRKDDVSTMMGTTYKHPLRELSEGQCWS 334

Query: 227 LF---------------------KQESSAKPCLLLQKLLGVSCALKELEMSGKNSLDSEL 265
           LF                     K     +   L  K+LG    LK+ + + ++ L++E+
Sbjct: 335 LFSNIAFCGRSREKVEELENIGRKIADKCRGLPLAAKVLGSLMRLKDNKENWESILNNEI 394

Query: 266 WQLQELEKDLFSLLLLNYYDLPYRIKQCFRYCFISPKDSCIWKEDLIKLWIAQSFIEAKE 325
           WQL  +EK L + LLL+YYDL   +K+CF YC + PKD  I K+ LIKLW+A S++ ++ 
Sbjct: 395 WQLDVIEKHLSTPLLLSYYDLSPAVKRCFSYCAVFPKDQIISKDRLIKLWMANSYLNSRG 454

Query: 326 NKEMEIIDEEYFDYLTARSFFQEFHKGSDDIITECKMHDIVHDFAQFLRKNQCLSIEVNS 385
           + EME    +YF+ L +RS FQ+F + ++D I  CKMHDIVHD AQ L KN+C  +E + 
Sbjct: 455 SIEMEKTGGDYFEDLVSRSLFQDFRRDNEDNIISCKMHDIVHDLAQSLTKNECFILEFDD 514

Query: 386 PNQSLTNISWEKLQHSTLV 404
             +     S++K +H+TL+
Sbjct: 515 EKEVRMASSFQKARHATLI 533

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  291 bits (745), Expect = 4e-76,   Method: Compositional matrix adjust.
 Identities = 178/436 (40%), Positives = 244/436 (55%), Gaps = 45/436 (10%)

Query: 11  SFFPTSCFRVKRVFLRHDIALKIKAINEKFDDIAKQKDLFNFNVNITKRIETPGRVQSIF 70
           S  P+ CF  K+V  R DIALKIK + ++ D IA ++  FNF   I+   + P R+ +  
Sbjct: 107 SCIPSPCFCFKQVASRRDIALKIKDLKQQLDVIASERTRFNF---ISSGTQEPQRLITTS 163

Query: 71  FIDESEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKD--- 127
            ID SE+ GRD   N +L +LL ++ +++  + +I+IVG GG+GK TLAQ+AYN  +   
Sbjct: 164 AIDVSEVYGRDTDVNAILGRLLGENDEEKSRLYIIAIVGTGGMGKTTLAQLAYNHPEVKA 223

Query: 128 ----------------FRVAKAIIAALGCETSNLGSLQSLVRCISESIEGKKYLVVLDDV 171
                            RV +AI+  L  +  NL  L+++ + I   I GKK+L+VLDD+
Sbjct: 224 HFDERIWVCVSDPFDPIRVCRAIVETLQKKPCNLHDLEAVQQEIQTCIAGKKFLLVLDDM 283

Query: 172 WTDDYTKWEPFQRCSANGQCGNN-ILVTTHKKTVARMMESTNFISIKELSTQECWSLFKQ 230
           WT+DY  WE  +     G  G + ILVTT K  VA+MM +T    I ELS Q    LF Q
Sbjct: 284 WTEDYRLWEQLKNTLNYGAVGGSRILVTTRKDNVAKMMGTTYKHPIGELSPQHAEVLFHQ 343

Query: 231 ------------------ESSAKPC---LLLQKLLGVSCALKELEMSGKNSLDSELWQLQ 269
                             E  A  C    L  K LG    LK  +   KN L+SE+WQL 
Sbjct: 344 IAFFGKSREQVEELKEIGEKIADKCKGLPLAIKTLGNLMRLKNKKEEWKNVLNSEVWQLD 403

Query: 270 ELEKDLFSLLLLNYYDLPYRIKQCFRYCFISPKDSCIWKEDLIKLWIAQSFIEAKENKEM 329
             E+DLF  LLL+YYDLP  IK+CF YC + PKD+ I  + LIKLW+AQ+++ +   KEM
Sbjct: 404 VFERDLFPALLLSYYDLPPAIKRCFSYCAVFPKDADIRVDKLIKLWMAQNYLNSDGGKEM 463

Query: 330 EIIDEEYFDYLTARS-FFQEFHKGSDDIITECKMHDIVHDFAQFLRKNQCLSIEVNSPNQ 388
           E +  EYFDYL A S F        D+ I  CKMHDIVHDFAQ L KN+C  + V++  +
Sbjct: 464 ETVGREYFDYLAAGSFFQDFQKDDDDNDIVSCKMHDIVHDFAQLLTKNECFIMSVDNAEE 523

Query: 389 SLTNISWEKLQHSTLV 404
             T IS++ ++H+TL 
Sbjct: 524 ERTRISFQTIRHATLT 539

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	406
TAIR|locus:2091672	1054	AT3G14470 [Arabidopsis thalian	0.266	0.102	0.305	9.3e-26
TAIR|locus:2091662	1424	AT3G14460 [Arabidopsis thalian	0.253	0.072	0.291	1.4e-21
TAIR|locus:504956483	847	AT3G46730 [Arabidopsis thalian	0.177	0.085	0.333	3.5e-16
TAIR|locus:2075170	835	RPP13 "RECOGNITION OF PERONOSP	0.177	0.086	0.333	4.8e-16
UNIPROTKB|O48647	1802	O48647 "XA1" [Oryza sativa (ta	0.209	0.047	0.319	2.1e-15
TAIR|locus:2077572	926	RPM1 "RESISTANCE TO P. SYRINGA	0.216	0.095	0.326	4.4e-12
TAIR|locus:2078012	852	ZAR1 "HOPZ-ACTIVATED RESISTANC	0.241	0.115	0.294	1.1e-11
UNIPROTKB|Q84UB1	928	Pi-ta "Pi-ta protein" [Oryza s	0.219	0.095	0.347	2.1e-11
UNIPROTKB|Q9AY26	928	Pi-ta "Pi-ta protein" [Oryza s	0.219	0.095	0.347	2.1e-11
TAIR|locus:2170892	848	AT5G43730 [Arabidopsis thalian	0.270	0.129	0.286	2.1e-09

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

 Score = 152 (58.6 bits), Expect = 9.3e-26, Sum P(3) = 9.3e-26
 Identities = 36/118 (30%), Positives = 68/118 (57%)

Query:   128 FRVAKAI---IAALGCETSNLGSLQSLVRCISESIEGK--KYLVVLDDVWTDDYTKWEPF 182
             F++ K +   + +  CE ++L  LQ  V+ + E + G    +L+VLDD+W +++  W+  
Sbjct:   241 FKITKKVYESVTSRPCEFTDLDVLQ--VK-LKERLTGTGLPFLLVLDDLWNENFADWDLL 297

Query:   183 QRCSANGQCGNNILVTTHKKTVARMMESTNFISIKELSTQECWSLFKQE--SSAKPCL 238
             ++   +   G+ ILVTT  + VA +M + +  +++ LS  +CWSLF +    + +PCL
Sbjct:   298 RQPFIHAAQGSQILVTTRSQRVASIMCAVHVHNLQPLSDGDCWSLFMKTVFGNQEPCL 355

GO:0005576 "extracellular region" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

GO:0005515 "protein binding" evidence=IPI

GO:0009627 "systemic acquired resistance" evidence=RCA

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

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

 Score = 167 (63.8 bits), Expect = 1.4e-21, Sum P(3) = 1.4e-21
 Identities = 30/103 (29%), Positives = 59/103 (57%)

Query:   128 FRVAKAIIAALGCETSNLGSLQSLVRCISESIEGKKYLVVLDDVWTDDYTKWEPFQRCSA 187
             F V KA++  +     N   L SL   + +++ GK++L+VLDD W++  ++WE FQ    
Sbjct:   238 FTVTKAVLQDITSSAVNTEDLPSLQIQLKKTLSGKRFLLVLDDFWSESDSEWESFQVAFT 297

Query:   188 NGQCGNNILVTTHKKTVARMMESTNFISIKELSTQECWSLFKQ 230
             + + G+ I++TT  + V+ + ++     +K ++ +ECW L  +
Sbjct:   298 DAEEGSKIVLTTRSEIVSTVAKAEKIYQMKLMTNEECWELISR 340

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 131 (51.2 bits), Expect = 3.5e-16, Sum P(3) = 3.5e-16
 Identities = 25/75 (33%), Positives = 46/75 (61%)

Query:   159 IEGKKYLVVLDDVWTDDYTKWEPFQRCSANGQCGNNILVTTHKKTVARMMESTNFI-SIK 217
             +EGK Y+VV+DDVW  D   WE  +R       G+ +++TT  + +A  +E T +   ++
Sbjct:   268 LEGKNYMVVVDDVWDPD--AWESLKRALPCDHRGSKVIITTRIRAIAEGVEGTVYAHKLR 325

Query:   218 ELSTQECWSLFKQES 232
              L+ +E W+LF++++
Sbjct:   326 FLTFEESWTLFERKA 340

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

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 126 (49.4 bits), Expect = 4.8e-16, Sum P(3) = 4.8e-16
 Identities = 25/75 (33%), Positives = 44/75 (58%)

Query:   159 IEGKKYLVVLDDVWTDDYTKWEPFQRCSANGQCGNNILVTTHKKTVARMMESTNFI-SIK 217
             +EGKKYLVV+DD+W  +   W+  +R       G+ +++TT  K VA  ++   +   ++
Sbjct:   267 LEGKKYLVVVDDIWERE--AWDSLKRALPCNHEGSRVIITTRIKAVAEGVDGRFYAHKLR 324

Query:   218 ELSTQECWSLFKQES 232
              L+ +E W LF+Q +
Sbjct:   325 FLTFEESWELFEQRA 339

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

GO:0005737 "cytoplasm" evidence=TAS

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

GO:0005886 "plasma membrane" evidence=IDA

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

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

 Score = 133 (51.9 bits), Expect = 2.1e-15, Sum P(3) = 2.1e-15
 Identities = 30/94 (31%), Positives = 56/94 (59%)

Query:   145 LGSLQSLVRCISESIEGKKYLVVLDDVW---TDDYTKW----EPFQRCSANGQ--CGNNI 195
             + +L +L + + E ++ KK+L+VLDDVW   TDD+ K      P  + +++ +   GN I
Sbjct:   382 ISNLDTLQQDLEEQMKSKKFLIVLDDVWEIRTDDWKKLLAPLRPNDQVNSSQEEATGNMI 441

Query:   196 LVTTHKKTVARMMESTNFISIKELSTQECWSLFK 229
             ++TT  +++A+ + +   I ++ L   + WSLFK
Sbjct:   442 ILTTRIQSIAKSLGTVQSIKLEALKDDDIWSLFK 475

GO:0006915 "apoptotic process" evidence=IGI

GO:0006952 "defense response" evidence=IGI

TAIR|locus:2077572 RPM1 "RESISTANCE TO P. SYRINGAE PV MACULICOLA 1" [Arabidopsis thaliana (taxid:3702)]

 Score = 112 (44.5 bits), Expect = 4.4e-12, Sum P(3) = 4.4e-12
 Identities = 31/95 (32%), Positives = 47/95 (49%)

Query:   141 ETSNLGSLQSLVRCISESIEGKKYLVVLDDVWTDDYTKWEPFQRCSANGQCGNNILVTTH 200
             E  +LG  + LV  + E ++ K+Y+VVLDDVWT     W        +G  G+ +++TT 
Sbjct:   259 ELYSLG-YRELVEKLVEYLQSKRYIVVLDDVWTTGL--WREISIALPDGIYGSRVMMTTR 315

Query:   201 KKTVARM---MESTNFISIKELSTQECWSLFKQES 232
                VA     + ST    I+ L   E W LF  ++
Sbjct:   316 DMNVASFPYGIGSTKH-EIELLKEDEAWVLFSNKA 349

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

GO:0043531 "ADP binding" evidence=IEA

GO:0005515 "protein binding" evidence=IPI

GO:0005886 "plasma membrane" evidence=IDA

GO:0000166 "nucleotide binding" evidence=ISS

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

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

 Score = 131 (51.2 bits), Expect = 1.1e-11, Sum P(2) = 1.1e-11
 Identities = 30/102 (29%), Positives = 60/102 (58%)

Query:   129 RVAKAIIAALGCETSNLGSLQSLVRCISESIEGKKYLVVLDDVWTDDYTKWEPFQRCSAN 188
             ++ ++I+  LG + S    + +L+R I + + GK+YL+V+DDVW  + + W+   +    
Sbjct:   228 QIMRSILRNLG-DASVGDDIGTLLRKIQQYLLGKRYLIVMDDVWDKNLSWWDKIYQGLPR 286

Query:   189 GQCGNNILVTTHKKTVARMMESTNFISIKE--LSTQECWSLF 228
             GQ G +++VTT  ++VA+ +++ +  + +   LS    W LF
Sbjct:   287 GQ-GGSVIVTTRSESVAKRVQARDDKTHRPELLSPDNSWLLF 327

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

UNIPROTKB|Q84UB1 Pi-ta "Pi-ta protein" [Oryza sativa Japonica Group (taxid:39947)]

 Score = 134 (52.2 bits), Expect = 2.1e-11, Sum P(3) = 2.1e-11
 Identities = 33/95 (34%), Positives = 47/95 (49%)

Query:   290 IKQCFRYCFISPKDSCIWKEDLIKLWIAQSFIEAKENKEMEIIDEEYFDYLTARSFFQEF 349
             +K C  Y  I  +D  I K +L++ W+A+ FI + ENK ME +   YFD L  R   Q  
Sbjct:   468 LKACLLYLSIYKEDYIIRKANLVRQWMAEGFINSIENKVMEEVAGNYFDELVGRGLVQPV 527

Query:   350 HKGSDDIITECKMHDIVHDFAQFLRKNQCLSIEVN 384
                  + +  C +H +V     F+R   C SIE N
Sbjct:   528 DVNCKNEVLSCVVHHMV---LNFIR---CKSIEEN 556

GO:0006952 "defense response" evidence=IMP

UNIPROTKB|Q9AY26 Pi-ta "Pi-ta protein" [Oryza sativa (taxid:4530)]

 Score = 134 (52.2 bits), Expect = 2.1e-11, Sum P(3) = 2.1e-11
 Identities = 33/95 (34%), Positives = 47/95 (49%)

Query:   290 IKQCFRYCFISPKDSCIWKEDLIKLWIAQSFIEAKENKEMEIIDEEYFDYLTARSFFQEF 349
             +K C  Y  I  +D  I K +L++ W+A+ FI + ENK ME +   YFD L  R   Q  
Sbjct:   468 LKACLLYLSIYKEDYIIRKANLVRQWMAEGFINSIENKVMEEVAGNYFDELVGRGLVQPV 527

Query:   350 HKGSDDIITECKMHDIVHDFAQFLRKNQCLSIEVN 384
                  + +  C +H +V     F+R   C SIE N
Sbjct:   528 DVNCKNEVLSCVVHHMV---LNFIR---CKSIEEN 556

GO:0006952 "defense response" evidence=IMP

TAIR|locus:2170892 AT5G43730 [Arabidopsis thaliana (taxid:3702)]

 Score = 103 (41.3 bits), Expect = 2.1e-09, Sum P(3) = 2.1e-09
 Identities = 35/122 (28%), Positives = 61/122 (50%)

Query:   290 IKQCFRYCFISPKDSCIWKEDLIKLWIAQSFIEAKENKEMEIIDEEYFDYLTARSFFQEF 349
             IK CF YC + P+D  I K+ LI+ WI + +I    N+  +    + +D +         
Sbjct:   403 IKLCFLYCSLFPEDFEIEKDKLIEYWICEGYINP--NRYEDGGTNQGYDII---GLLVRA 457

Query:   350 HKGSDDIITE-CKMHDIVHDFAQFLRK---NQCLSIEVNSPN--QSLTN-ISWEKLQHST 402
             H   +  +T+  KMHD++ + A ++     NQ  +I V S    + + N ISWE ++  +
Sbjct:   458 HLLIECELTDKVKMHDVIREMALWINSDFGNQQETICVKSGAHVRLIPNDISWEIVRQMS 517

Query:   403 LV 404
             L+
Sbjct:   518 LI 519

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: eugene3.00151013 cc-nbs-lrr resistance protein (987 aa) (Populus trichocarpa)

Predicted Functional Partners:

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

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	406
pfam00931	285	pfam00931, NB-ARC, NB-ARC domain	2e-36

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

 Score =  133 bits (338), Expect = 2e-36
 Identities = 87/288 (30%), Positives = 137/288 (47%), Gaps = 50/288 (17%)

Query: 80  RDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYND-------------- 125
           R+     L+ KLL  S +    + ++ IVGMGG+GK TLA+  YND              
Sbjct: 1   REDMIEALIEKLLEMSDN----LGVVGIVGMGGVGKTTLAKQIYNDDSVGGHFDSVAWVV 56

Query: 126 -----KDFRVAKAIIAALGCETSNLGSLQ--SLVRCISESIEGKKYLVVLDDVWTDDYTK 178
                 +FR+ K I+  LG + S+        L   I E++  K++L+VLDDVW  +   
Sbjct: 57  VSKTYTEFRLQKDILQELGLDDSDWVEKNESELAVKIKEALLRKRFLLVLDDVW--EKND 114

Query: 179 WEPFQRCSANGQCGNNILVTTHKKTVA-RMMESTNFISIKELSTQECWSLFKQ---ESSA 234
           W+       +G+ G+ ++VTT  ++VA RM  ++    ++ L  +E W LF     E   
Sbjct: 115 WDKIGVPFPDGENGSRVIVTTRSESVAGRMGGTSKPHEVESLEPEESWELFSNKVFEKEL 174

Query: 235 KPCLLLQ-----------------KLLGVSCALKELEMSGKNSLDSELWQLQELE--KDL 275
            PC  L+                 K+LG   A K      ++ L+    +L   +   ++
Sbjct: 175 PPCPELEEVAKEIVEKCKGLPLALKVLGGLLAFKSTVQEWEHVLEQLNNELAGRDGLNEV 234

Query: 276 FSLLLLNYYDLPYRIKQCFRYCFISPKDSCIWKEDLIKLWIAQSFIEA 323
            S+L L+Y +LP  +K+CF Y  + P+D  I KE LIKLWIA+ F+  
Sbjct: 235 LSILSLSYDNLPMHLKRCFLYLALFPEDYNIRKEQLIKLWIAEGFVIP 282

Length = 285

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	406
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	100.0
PF00931	287	NB-ARC: NB-ARC domain; InterPro: IPR002182 This is	100.0
PLN03210	1153	Resistant to P. syringae 6; Provisional	100.0
PRK04841	903	transcriptional regulator MalT; Provisional	99.35
PRK00411	394	cdc6 cell division control protein 6; Reviewed	99.17
PRK00080	328	ruvB Holliday junction DNA helicase RuvB; Reviewed	99.06
TIGR00635	305	ruvB Holliday junction DNA helicase, RuvB subunit.	99.04
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	99.03
TIGR02928	365	orc1/cdc6 family replication initiation protein. M	98.98
COG2256	436	MGS1 ATPase related to the helicase subunit of the	98.94
PF05729	166	NACHT: NACHT domain	98.91
TIGR03015	269	pepcterm_ATPase putative secretion ATPase, PEP-CTE	98.79
PF01637	234	Arch_ATPase: Archaeal ATPase; InterPro: IPR011579	98.78
PRK13342	413	recombination factor protein RarA; Reviewed	98.65
COG3899	849	Predicted ATPase [General function prediction only	98.63
KOG2028	554	consensus ATPase related to the helicase subunit o	98.58
PF13173	128	AAA_14: AAA domain	98.57
PF13191	185	AAA_16: AAA ATPase domain; PDB: 2V1U_A.	98.54
COG1474	366	CDC6 Cdc6-related protein, AAA superfamily ATPase	98.53
PRK13341	725	recombination factor protein RarA/unknown domain f	98.52
PTZ00112	1164	origin recognition complex 1 protein; Provisional	98.49
PRK04195	482	replication factor C large subunit; Provisional	98.46
PRK06893	229	DNA replication initiation factor; Validated	98.46
PRK12323	700	DNA polymerase III subunits gamma and tau; Provisi	98.42
PRK07003	830	DNA polymerase III subunits gamma and tau; Validat	98.41
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	98.41
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	98.39
PTZ00202	550	tuzin; Provisional	98.37
PLN03025	319	replication factor C subunit; Provisional	98.36
PRK14961	363	DNA polymerase III subunits gamma and tau; Provisi	98.35
PRK12402	337	replication factor C small subunit 2; Reviewed	98.34
PRK14960	702	DNA polymerase III subunits gamma and tau; Provisi	98.34
TIGR03420	226	DnaA_homol_Hda DnaA regulatory inactivator Hda. Me	98.32
TIGR01242	364	26Sp45 26S proteasome subunit P45 family. Many pro	98.31
PRK06645	507	DNA polymerase III subunits gamma and tau; Validat	98.26
PRK08691	709	DNA polymerase III subunits gamma and tau; Validat	98.25
PRK00440	319	rfc replication factor C small subunit; Reviewed	98.25
PRK09087	226	hypothetical protein; Validated	98.24
PRK14949	944	DNA polymerase III subunits gamma and tau; Provisi	98.24
PRK14963	504	DNA polymerase III subunits gamma and tau; Provisi	98.23
PRK14956	484	DNA polymerase III subunits gamma and tau; Provisi	98.22
PRK14957	546	DNA polymerase III subunits gamma and tau; Provisi	98.22
TIGR02903	615	spore_lon_C ATP-dependent protease, Lon family. Me	98.2
PRK07994	647	DNA polymerase III subunits gamma and tau; Validat	98.19
PRK05564	313	DNA polymerase III subunit delta'; Validated	98.16
PRK14962	472	DNA polymerase III subunits gamma and tau; Provisi	98.16
PRK14951	618	DNA polymerase III subunits gamma and tau; Provisi	98.14
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	98.13
PRK14955	397	DNA polymerase III subunits gamma and tau; Provisi	98.11
PRK14964	491	DNA polymerase III subunits gamma and tau; Provisi	98.1
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	98.1
PRK08084	235	DNA replication initiation factor; Provisional	98.08
PHA02544	316	44 clamp loader, small subunit; Provisional	98.08
PF05496	233	RuvB_N: Holliday junction DNA helicase ruvB N-term	98.07
PRK05896	605	DNA polymerase III subunits gamma and tau; Validat	98.07
KOG0989	346	consensus Replication factor C, subunit RFC4 [Repl	98.06
PRK03992	389	proteasome-activating nucleotidase; Provisional	98.05
CHL00095	821	clpC Clp protease ATP binding subunit	98.04
PRK14958	509	DNA polymerase III subunits gamma and tau; Provisi	98.03
PF00308	219	Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013	98.02
PRK08727	233	hypothetical protein; Validated	98.02
TIGR02397	355	dnaX_nterm DNA polymerase III, subunit gamma and t	98.01
PF05673	249	DUF815: Protein of unknown function (DUF815); Inte	98.0
PRK07764	824	DNA polymerase III subunits gamma and tau; Validat	97.99
PRK05642	234	DNA replication initiation factor; Validated	97.98
PRK06620	214	hypothetical protein; Validated	97.97
PF00004	132	AAA: ATPase family associated with various cellula	97.97
PRK14969	527	DNA polymerase III subunits gamma and tau; Provisi	97.96
PRK14954	620	DNA polymerase III subunits gamma and tau; Provisi	97.95
PRK07940	394	DNA polymerase III subunit delta'; Validated	97.95
PRK14970	367	DNA polymerase III subunits gamma and tau; Provisi	97.94
PRK09111	598	DNA polymerase III subunits gamma and tau; Validat	97.94
PRK09112	351	DNA polymerase III subunit delta'; Validated	97.94
PRK07471	365	DNA polymerase III subunit delta'; Validated	97.92
PRK14952	584	DNA polymerase III subunits gamma and tau; Provisi	97.91
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	97.91
PRK14959	624	DNA polymerase III subunits gamma and tau; Provisi	97.9
PRK08903	227	DnaA regulatory inactivator Hda; Validated	97.89
PRK14950	585	DNA polymerase III subunits gamma and tau; Provisi	97.89
TIGR02881	261	spore_V_K stage V sporulation protein K. Members o	97.87
TIGR00678	188	holB DNA polymerase III, delta' subunit. At positi	97.83
PRK10865	857	protein disaggregation chaperone; Provisional	97.8
PRK07133	725	DNA polymerase III subunits gamma and tau; Validat	97.79
PRK14087	450	dnaA chromosomal replication initiation protein; P	97.78
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	97.78
CHL00181	287	cbbX CbbX; Provisional	97.77
PRK06647	563	DNA polymerase III subunits gamma and tau; Validat	97.76
PRK14965	576	DNA polymerase III subunits gamma and tau; Provisi	97.74
PRK14953	486	DNA polymerase III subunits gamma and tau; Provisi	97.74
TIGR00362	405	DnaA chromosomal replication initiator protein Dna	97.72
PRK06305	451	DNA polymerase III subunits gamma and tau; Validat	97.7
PRK14971	614	DNA polymerase III subunits gamma and tau; Provisi	97.69
PRK14948	620	DNA polymerase III subunits gamma and tau; Provisi	97.68
PRK12422	445	chromosomal replication initiation protein; Provis	97.68
COG3903	414	Predicted ATPase [General function prediction only	97.67
TIGR02880	284	cbbX_cfxQ probable Rubsico expression protein CbbX	97.67
COG2607	287	Predicted ATPase (AAA+ superfamily) [General funct	97.66
PRK08451	535	DNA polymerase III subunits gamma and tau; Validat	97.66
KOG0991	333	consensus Replication factor C, subunit RFC2 [Repl	97.64
COG0593	408	DnaA ATPase involved in DNA replication initiation	97.63
PF05621	302	TniB: Bacterial TniB protein; InterPro: IPR008868	97.62
KOG0741	744	consensus AAA+-type ATPase [Posttranslational modi	97.62
PRK08116	268	hypothetical protein; Validated	97.61
COG2255	332	RuvB Holliday junction resolvasome, helicase subun	97.6
PRK05563	559	DNA polymerase III subunits gamma and tau; Validat	97.6
PHA00729	226	NTP-binding motif containing protein	97.58
PTZ00454	398	26S protease regulatory subunit 6B-like protein; P	97.58
PRK14088	440	dnaA chromosomal replication initiation protein; P	97.56
PRK14086	617	dnaA chromosomal replication initiation protein; P	97.52
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	97.51
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	97.51
TIGR00602	637	rad24 checkpoint protein rad24. This family is bas	97.5
TIGR03689	512	pup_AAA proteasome ATPase. In the Actinobacteria,	97.49
PRK00149	450	dnaA chromosomal replication initiation protein; R	97.49
CHL00176	638	ftsH cell division protein; Validated	97.44
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	97.43
PRK07399	314	DNA polymerase III subunit delta'; Validated	97.41
TIGR01241	495	FtsH_fam ATP-dependent metalloprotease FtsH. HflB(	97.4
PRK08181	269	transposase; Validated	97.39
PTZ00361	438	26 proteosome regulatory subunit 4-like protein; P	97.39
PRK07952	244	DNA replication protein DnaC; Validated	97.38
PRK08058	329	DNA polymerase III subunit delta'; Validated	97.38
smart00763	361	AAA_PrkA PrkA AAA domain. This is a family of PrkA	97.38
PRK10865	857	protein disaggregation chaperone; Provisional	97.38
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	97.36
PRK05707	328	DNA polymerase III subunit delta'; Validated	97.34
COG1373	398	Predicted ATPase (AAA+ superfamily) [General funct	97.33
smart00382	148	AAA ATPases associated with a variety of cellular	97.33
PRK08939	306	primosomal protein DnaI; Reviewed	97.32
COG2812	515	DnaX DNA polymerase III, gamma/tau subunits [DNA r	97.32
KOG2227	529	consensus Pre-initiation complex, subunit CDC6, AA	97.31
PRK06526	254	transposase; Provisional	97.3
PRK12377	248	putative replication protein; Provisional	97.3
PF01695	178	IstB_IS21: IstB-like ATP binding protein; InterPro	97.28
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	97.26
PF13177	162	DNA_pol3_delta2: DNA polymerase III, delta subunit	97.26
PRK09183	259	transposase/IS protein; Provisional	97.25
PRK10536	262	hypothetical protein; Provisional	97.24
PRK11331	459	5-methylcytosine-specific restriction enzyme subun	97.23
KOG2543	438	consensus Origin recognition complex, subunit 5 [R	97.22
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	97.21
PF13207	121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	97.16
PRK10787	784	DNA-binding ATP-dependent protease La; Provisional	97.14
TIGR00763	775	lon ATP-dependent protease La. This protein is ind	97.11
PRK06696	223	uridine kinase; Validated	97.1
cd01128	249	rho_factor Transcription termination factor rho is	97.1
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	97.09
PRK08118	167	topology modulation protein; Reviewed	97.03
COG2884	223	FtsE Predicted ATPase involved in cell division [C	97.02
COG1875	436	NYN ribonuclease and ATPase of PhoH family domains	97.02
PF14516	331	AAA_35: AAA-like domain	96.99
PRK06871	325	DNA polymerase III subunit delta'; Validated	96.97
PRK09376	416	rho transcription termination factor Rho; Provisio	96.96
PF04665	241	Pox_A32: Poxvirus A32 protein; InterPro: IPR006758	96.9
CHL00095	821	clpC Clp protease ATP binding subunit	96.9
PF14532	138	Sigma54_activ_2: Sigma-54 interaction domain; PDB:	96.88
PF02562	205	PhoH: PhoH-like protein; InterPro: IPR003714 PhoH	96.84
PLN00020	413	ribulose bisphosphate carboxylase/oxygenase activa	96.83
COG1484	254	DnaC DNA replication protein [DNA replication, rec	96.83
PRK06921	266	hypothetical protein; Provisional	96.81
COG1222	406	RPT1 ATP-dependent 26S proteasome regulatory subun	96.78
TIGR00767	415	rho transcription termination factor Rho. Members	96.78
COG1223	368	Predicted ATPase (AAA+ superfamily) [General funct	96.73
CHL00195	489	ycf46 Ycf46; Provisional	96.73
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	96.72
PRK15455	644	PrkA family serine protein kinase; Provisional	96.71
PRK06964	342	DNA polymerase III subunit delta'; Validated	96.71
PRK06835	329	DNA replication protein DnaC; Validated	96.71
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	96.68
PHA02244	383	ATPase-like protein	96.66
COG0572	218	Udk Uridine kinase [Nucleotide transport and metab	96.66
PRK07667	193	uridine kinase; Provisional	96.66
PRK06090	319	DNA polymerase III subunit delta'; Validated	96.6
PRK11889	436	flhF flagellar biosynthesis regulator FlhF; Provis	96.59
PRK07261	171	topology modulation protein; Provisional	96.57
COG1136	226	SalX ABC-type antimicrobial peptide transport syst	96.55
PF03969	362	AFG1_ATPase: AFG1-like ATPase; InterPro: IPR005654	96.51
PF00448	196	SRP54: SRP54-type protein, GTPase domain; InterPro	96.5
TIGR02640	262	gas_vesic_GvpN gas vesicle protein GvpN. Members o	96.49
PRK08699	325	DNA polymerase III subunit delta'; Validated	96.48
PRK07993	334	DNA polymerase III subunit delta'; Validated	96.48
PRK05541	176	adenylylsulfate kinase; Provisional	96.48
COG0470	325	HolB ATPase involved in DNA replication [DNA repli	96.48
PRK13695	174	putative NTPase; Provisional	96.47
PF13238	129	AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB	96.46
KOG1969	877	consensus DNA replication checkpoint protein CHL12	96.42
PRK08233	182	hypothetical protein; Provisional	96.42
COG4618	580	ArpD ABC-type protease/lipase transport system, AT	96.41
PRK12608	380	transcription termination factor Rho; Provisional	96.41
PF00485	194	PRK: Phosphoribulokinase / Uridine kinase family;	96.37
PRK04296	190	thymidine kinase; Provisional	96.35
COG0563	178	Adk Adenylate kinase and related kinases [Nucleoti	96.35
PF13604	196	AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL	96.33
cd03228	171	ABCC_MRP_Like The MRP (Mutidrug Resistance Protein	96.32
PRK08769	319	DNA polymerase III subunit delta'; Validated	96.32
PRK05480	209	uridine/cytidine kinase; Provisional	96.32
TIGR00235	207	udk uridine kinase. Model contains a number of lon	96.31
PF13671	143	AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1	96.29
COG1618	179	Predicted nucleotide kinase [Nucleotide transport	96.28
KOG0730	693	consensus AAA+-type ATPase [Posttranslational modi	96.27
KOG2004	906	consensus Mitochondrial ATP-dependent protease PIM	96.26
cd01131	198	PilT Pilus retraction ATPase PilT. PilT is a nucle	96.26
cd03247	178	ABCC_cytochrome_bd The CYD subfamily implicated in	96.24
PRK06547	172	hypothetical protein; Provisional	96.24
PF08433	270	KTI12: Chromatin associated protein KTI12 ; InterP	96.24
cd00561	159	CobA_CobO_BtuR ATP:corrinoid adenosyltransferase B	96.21
cd03281	213	ABC_MSH5_euk MutS5 homolog in eukaryotes. The MutS	96.21
KOG0744	423	consensus AAA+-type ATPase [Posttranslational modi	96.2
PRK06762	166	hypothetical protein; Provisional	96.19
COG2274	709	SunT ABC-type bacteriocin/lantibiotic exporters, c	96.19
COG1102	179	Cmk Cytidylate kinase [Nucleotide transport and me	96.19
KOG0726	440	consensus 26S proteasome regulatory complex, ATPas	96.19
PTZ00301	210	uridine kinase; Provisional	96.18
PRK13531	498	regulatory ATPase RavA; Provisional	96.16
COG0396	251	sufC Cysteine desulfurase activator ATPase [Posttr	96.15
PF01583	156	APS_kinase: Adenylylsulphate kinase; InterPro: IPR	96.15
cd02019	69	NK Nucleoside/nucleotide kinase (NK) is a protein	96.12
COG0466	782	Lon ATP-dependent Lon protease, bacterial type [Po	96.12
COG1121	254	ZnuC ABC-type Mn/Zn transport systems, ATPase comp	96.06
PRK03839	180	putative kinase; Provisional	96.05
TIGR03499	282	FlhF flagellar biosynthetic protein FlhF.	96.05
cd03214	180	ABC_Iron-Siderophores_B12_Hemin ABC transporters,	96.04
TIGR01817	534	nifA Nif-specific regulatory protein. This model r	96.01
KOG2228	408	consensus Origin recognition complex, subunit 4 [R	96.01
KOG1514	767	consensus Origin recognition complex, subunit 1, a	95.99
COG4088	261	Predicted nucleotide kinase [Nucleotide transport	95.99
PF07693	325	KAP_NTPase: KAP family P-loop domain; InterPro: IP	95.98
PRK04040	188	adenylate kinase; Provisional	95.94
PF10443	431	RNA12: RNA12 protein; InterPro: IPR018850 Mitochon	95.91
PTZ00088	229	adenylate kinase 1; Provisional	95.91
COG3267	269	ExeA Type II secretory pathway, component ExeA (pr	95.89
KOG0651	388	consensus 26S proteasome regulatory complex, ATPas	95.89
PRK10867	433	signal recognition particle protein; Provisional	95.88
TIGR00150	133	HI0065_YjeE ATPase, YjeE family. Members of this f	95.87
cd03282	204	ABC_MSH4_euk MutS4 homolog in eukaryotes. The MutS	95.86
TIGR01360	188	aden_kin_iso1 adenylate kinase, isozyme 1 subfamil	95.85
PRK15429	686	formate hydrogenlyase transcriptional activator Fh	95.85
PRK05342	412	clpX ATP-dependent protease ATP-binding subunit Cl	95.84
KOG2170	344	consensus ATPase of the AAA+ superfamily [General	95.83
cd03223	166	ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cass	95.81
PRK12723	388	flagellar biosynthesis regulator FlhF; Provisional	95.81
PRK00131	175	aroK shikimate kinase; Reviewed	95.8
COG4608	268	AppF ABC-type oligopeptide transport system, ATPas	95.79
KOG0734	752	consensus AAA+-type ATPase containing the peptidas	95.77
KOG0058	716	consensus Peptide exporter, ABC superfamily [Intra	95.77
cd03216	163	ABC_Carb_Monos_I This family represents the domain	95.76
cd00983	325	recA RecA is a bacterial enzyme which has roles in	95.76
PF07728	139	AAA_5: AAA domain (dynein-related subfamily); Inte	95.75
cd03369	207	ABCC_NFT1 Domain 2 of NFT1 (New full-length MRP-ty	95.73
PRK00889	175	adenylylsulfate kinase; Provisional	95.72
PRK00625	173	shikimate kinase; Provisional	95.72
PRK09270	229	nucleoside triphosphate hydrolase domain-containin	95.71
cd03246	173	ABCC_Protease_Secretion This family represents the	95.71
PRK14974	336	cell division protein FtsY; Provisional	95.71
cd02027	149	APSK Adenosine 5'-phosphosulfate kinase (APSK) cat	95.71
TIGR02012	321	tigrfam_recA protein RecA. This model describes or	95.7
PRK05439	311	pantothenate kinase; Provisional	95.7
PF08298	358	AAA_PrkA: PrkA AAA domain; InterPro: IPR013153 Thi	95.7
TIGR00554	290	panK_bact pantothenate kinase, bacterial type. Sho	95.69
PRK13657	588	cyclic beta-1,2-glucan ABC transporter; Provisiona	95.68
PF03308	266	ArgK: ArgK protein; InterPro: IPR005129 Bacterial	95.67
TIGR00382	413	clpX endopeptidase Clp ATP-binding regulatory subu	95.67
cd03221	144	ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is	95.66
TIGR01359	183	UMP_CMP_kin_fam UMP-CMP kinase family. This subfam	95.66
TIGR02858	270	spore_III_AA stage III sporulation protein AA. Mem	95.65
cd03251	234	ABCC_MsbA MsbA is an essential ABC transporter, cl	95.63
COG1936	180	Predicted nucleotide kinase (related to CMP and AM	95.63
TIGR02322	179	phosphon_PhnN phosphonate metabolism protein/1,5-b	95.63
PRK05703	424	flhF flagellar biosynthesis regulator FlhF; Valida	95.61
cd00227	175	CPT Chloramphenicol (Cm) phosphotransferase (CPT).	95.61
cd02023	198	UMPK Uridine monophosphate kinase (UMPK, EC 2.7.1.	95.6
TIGR02868	529	CydC thiol reductant ABC exporter, CydC subunit. T	95.59
cd03230	173	ABC_DR_subfamily_A This family of ATP-binding prot	95.57
cd03115	173	SRP The signal recognition particle (SRP) mediates	95.54
TIGR02857	529	CydD thiol reductant ABC exporter, CydD subunit. U	95.54
KOG0652	424	consensus 26S proteasome regulatory complex, ATPas	95.52
PRK06217	183	hypothetical protein; Validated	95.5
PRK00771	437	signal recognition particle protein Srp54; Provisi	95.5
TIGR02974	329	phageshock_pspF psp operon transcriptional activat	95.49
cd02024	187	NRK1 Nicotinamide riboside kinase (NRK) is an enzy	95.49
PRK12727	559	flagellar biosynthesis regulator FlhF; Provisional	95.48
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	95.46
TIGR00958	711	3a01208 Conjugate Transporter-2 (CT2) Family prote	95.45
KOG0924	1042	consensus mRNA splicing factor ATP-dependent RNA h	95.45
PRK09354	349	recA recombinase A; Provisional	95.44
KOG0729	435	consensus 26S proteasome regulatory complex, ATPas	95.44
cd01133	274	F1-ATPase_beta F1 ATP synthase beta subunit, nucle	95.44
cd02025	220	PanK Pantothenate kinase (PanK) catalyzes the phos	95.43
cd02021	150	GntK Gluconate kinase (GntK) catalyzes the phospho	95.43
COG1428	216	Deoxynucleoside kinases [Nucleotide transport and	95.42
cd03244	221	ABCC_MRP_domain2 Domain 2 of the ABC subfamily C.	95.42
PRK09361	225	radB DNA repair and recombination protein RadB; Pr	95.42
PRK10733	644	hflB ATP-dependent metalloprotease; Reviewed	95.42
KOG0727	408	consensus 26S proteasome regulatory complex, ATPas	95.41
PRK00300	205	gmk guanylate kinase; Provisional	95.41
PF00910	107	RNA_helicase: RNA helicase; InterPro: IPR000605 He	95.41
PRK14738	206	gmk guanylate kinase; Provisional	95.41
TIGR03375	694	type_I_sec_LssB type I secretion system ATPase, Ls	95.4
TIGR03263	180	guanyl_kin guanylate kinase. Members of this famil	95.4
TIGR00959	428	ffh signal recognition particle protein. This mode	95.38
PRK00279	215	adk adenylate kinase; Reviewed	95.36
cd02020	147	CMPK Cytidine monophosphate kinase (CMPK) catalyze	95.34
TIGR03522	301	GldA_ABC_ATP gliding motility-associated ABC trans	95.32
cd02028	179	UMPK_like Uridine monophosphate kinase_like (UMPK_	95.31
PRK14737	186	gmk guanylate kinase; Provisional	95.28
PRK03846	198	adenylylsulfate kinase; Provisional	95.27
PRK12339	197	2-phosphoglycerate kinase; Provisional	95.25
TIGR03796	710	NHPM_micro_ABC1 NHPM bacteriocin system ABC transp	95.24
PF07726	131	AAA_3: ATPase family associated with various cellu	95.23
PRK04132	846	replication factor C small subunit; Provisional	95.23
TIGR01193	708	bacteriocin_ABC ABC-type bacteriocin transporter.	95.23
PRK13947	171	shikimate kinase; Provisional	95.23
PF00406	151	ADK: Adenylate kinase; InterPro: IPR000850 Adenyla	95.22
COG0464	494	SpoVK ATPases of the AAA+ class [Posttranslational	95.22
PRK11174	588	cysteine/glutathione ABC transporter membrane/ATP-	95.21
KOG0735	952	consensus AAA+-type ATPase [Posttranslational modi	95.21
PRK11176	582	lipid transporter ATP-binding/permease protein; Pr	95.19
PRK12726	407	flagellar biosynthesis regulator FlhF; Provisional	95.19
PF08477	119	Miro: Miro-like protein; InterPro: IPR013684 Mitoc	95.16
PRK13949	169	shikimate kinase; Provisional	95.15
PRK10751	173	molybdopterin-guanine dinucleotide biosynthesis pr	95.14
COG1703	323	ArgK Putative periplasmic protein kinase ArgK and	95.14
PRK12724	432	flagellar biosynthesis regulator FlhF; Provisional	95.13
PF00158	168	Sigma54_activat: Sigma-54 interaction domain; Inte	95.13
TIGR01192	585	chvA glucan exporter ATP-binding protein. This mod	95.1
PF03205	140	MobB: Molybdopterin guanine dinucleotide synthesis	95.07
PRK10463	290	hydrogenase nickel incorporation protein HypB; Pro	95.05
PRK11160	574	cysteine/glutathione ABC transporter membrane/ATP-	95.03
PRK05022	509	anaerobic nitric oxide reductase transcription reg	95.03
cd00071	137	GMPK Guanosine monophosphate kinase (GMPK, EC 2.7.	95.02
PRK14530	215	adenylate kinase; Provisional	95.01
PF03193	161	DUF258: Protein of unknown function, DUF258; Inter	95.0
COG2019	189	AdkA Archaeal adenylate kinase [Nucleotide transpo	94.99
cd00464	154	SK Shikimate kinase (SK) is the fifth enzyme in th	94.99
PRK10078	186	ribose 1,5-bisphosphokinase; Provisional	94.98
PRK14527	191	adenylate kinase; Provisional	94.95
TIGR03797	686	NHPM_micro_ABC2 NHPM bacteriocin system ABC transp	94.95
PF03266	168	NTPase_1: NTPase; InterPro: IPR004948 This entry r	94.95
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	94.94
COG1066	456	Sms Predicted ATP-dependent serine protease [Postt	94.94
PRK13975	196	thymidylate kinase; Provisional	94.9
TIGR01313	163	therm_gnt_kin carbohydrate kinase, thermoresistant	94.9
COG1124	252	DppF ABC-type dipeptide/oligopeptide/nickel transp	94.9
COG1120	258	FepC ABC-type cobalamin/Fe3+-siderophores transpor	94.87
TIGR02238	313	recomb_DMC1 meiotic recombinase Dmc1. This model d	94.86
PLN02200	234	adenylate kinase family protein	94.83
COG0410	237	LivF ABC-type branched-chain amino acid transport	94.82
PRK08972	444	fliI flagellum-specific ATP synthase; Validated	94.82
PRK14723	767	flhF flagellar biosynthesis regulator FlhF; Provis	94.8
CHL00206	2281	ycf2 Ycf2; Provisional	94.8
TIGR02902	531	spore_lonB ATP-dependent protease LonB. Members of	94.8
cd00820	107	PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPC	94.79
COG0194	191	Gmk Guanylate kinase [Nucleotide transport and met	94.79
KOG1532	366	consensus GTPase XAB1, interacts with DNA repair p	94.77
PF12775	272	AAA_7: P-loop containing dynein motor region D3; P	94.75
COG0703	172	AroK Shikimate kinase [Amino acid transport and me	94.74
KOG3347	176	consensus Predicted nucleotide kinase/nuclear prot	94.74
PRK13948	182	shikimate kinase; Provisional	94.73
TIGR00390	441	hslU ATP-dependent protease HslVU, ATPase subunit.	94.73
PF13521	163	AAA_28: AAA domain; PDB: 1LW7_A.	94.73
PRK06067	234	flagellar accessory protein FlaH; Validated	94.71
cd04155	173	Arl3 Arl3 subfamily. Arl3 (Arf-like 3) is an Arf f	94.69
TIGR02203	571	MsbA_lipidA lipid A export permease/ATP-binding pr	94.69
PRK05057	172	aroK shikimate kinase I; Reviewed	94.68
PRK04182	180	cytidylate kinase; Provisional	94.67
PRK13236	296	nitrogenase reductase; Reviewed	94.66
TIGR01287	275	nifH nitrogenase iron protein. This model describe	94.66
cd01878	204	HflX HflX subfamily. A distinct conserved domain w	94.63
PRK09435	332	membrane ATPase/protein kinase; Provisional	94.62
COG4181	228	Predicted ABC-type transport system involved in ly	94.62
TIGR00017	217	cmk cytidylate kinase. This family consists of cyt	94.6
PRK05201	443	hslU ATP-dependent protease ATP-binding subunit Hs	94.6
KOG1051	898	consensus Chaperone HSP104 and related ATP-depende	94.59
PRK15453	290	phosphoribulokinase; Provisional	94.59
PRK07132	299	DNA polymerase III subunit delta'; Validated	94.57
TIGR01846	694	type_I_sec_HlyB type I secretion system ABC transp	94.56
TIGR02030	337	BchI-ChlI magnesium chelatase ATPase subunit I. Th	94.55
PRK13946	184	shikimate kinase; Provisional	94.55
cd01121	372	Sms Sms (bacterial radA) DNA repair protein. This	94.54
COG0488	530	Uup ATPase components of ABC transporters with dup	94.54
COG0714	329	MoxR-like ATPases [General function prediction onl	94.52
TIGR02173	171	cyt_kin_arch cytidylate kinase, putative. Proteins	94.5
PRK05537	568	bifunctional sulfate adenylyltransferase subunit 1	94.5
TIGR00750	300	lao LAO/AO transport system ATPase. Mutations have	94.46
PRK13537	306	nodulation ABC transporter NodI; Provisional	94.46
cd02117	212	NifH_like This family contains the NifH (iron prot	94.46
PRK13230	279	nitrogenase reductase-like protein; Reviewed	94.44
PRK14532	188	adenylate kinase; Provisional	94.44
CHL00081	350	chlI Mg-protoporyphyrin IX chelatase	94.44
TIGR01842	544	type_I_sec_PrtD type I secretion system ABC transp	94.43
) proteins. It has been suggested that torsins play a role in effectively managing protein folding and that possible breakdown in a neuroprotective mechanism that is, in part, mediated by torsins may be responsible for the neuronal dysfunction associated with dystonia [].; GO: 0005524 ATP binding, 0051085 chaperone mediated protein folding requiring cofactor" target="_blank" href="http://www.ncbi.nlm.nih.gov/Structure/cdd/cddsrv.cgi?uid=PF06309">PF06309	127	Torsin: Torsin; InterPro: IPR010448 This family co	94.43
COG1131	293	CcmA ABC-type multidrug transport system, ATPase c	94.42
COG0237	201	CoaE Dephospho-CoA kinase [Coenzyme metabolism]	94.42
TIGR00064	272	ftsY signal recognition particle-docking protein F	94.41
TIGR03574	249	selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal. Mem	94.41
PRK08356	195	hypothetical protein; Provisional	94.39
PRK10790	592	putative multidrug transporter membrane\ATP-bindin	94.39
KOG0927	614	consensus Predicted transporter (ABC superfamily)	94.39
KOG0736	953	consensus Peroxisome assembly factor 2 containing	94.37
PF02374	305	ArsA_ATPase: Anion-transporting ATPase; PDB: 2WOO_	94.37
PRK13232	273	nifH nitrogenase reductase; Reviewed	94.37
PRK14721	420	flhF flagellar biosynthesis regulator FlhF; Provis	94.36
PLN02318	656	phosphoribulokinase/uridine kinase	94.35
COG1100	219	GTPase SAR1 and related small G proteins [General	94.35
cd03287	222	ABC_MSH3_euk MutS3 homolog in eukaryotes. The MutS	94.35
PRK13407	334	bchI magnesium chelatase subunit I; Provisional	94.34
TIGR00073	207	hypB hydrogenase accessory protein HypB. HypB is i	94.34
cd01428	194	ADK Adenylate kinase (ADK) catalyzes the reversibl	94.33
PF00006	215	ATP-synt_ab: ATP synthase alpha/beta family, nucle	94.31
PRK10789	569	putative multidrug transporter membrane\ATP-bindin	94.3
KOG0731	774	consensus AAA+-type ATPase containing the peptidas	94.29
PRK05800	170	cobU adenosylcobinamide kinase/adenosylcobinamide-	94.29
TIGR01425	429	SRP54_euk signal recognition particle protein SRP5	94.29
TIGR00708	173	cobA cob(I)alamin adenosyltransferase. Alternate n	94.25
PF00005	137	ABC_tran: ABC transporter This structure is on hol	94.25
cd02040	270	NifH NifH gene encodes component II (iron protein)	94.24
PHA02530	300	pseT polynucleotide kinase; Provisional	94.24
PF01926	116	MMR_HSR1: 50S ribosome-binding GTPase; InterPro: I	94.24
PRK10416	318	signal recognition particle-docking protein FtsY;	94.24
cd02029	277	PRK_like Phosphoribulokinase-like (PRK-like) is a	94.23
PRK13536	340	nodulation factor exporter subunit NodI; Provision	94.22
cd01983	99	Fer4_NifH The Fer4_NifH superfamily contains a var	94.2
PRK09825	176	idnK D-gluconate kinase; Provisional	94.19
cd04139	164	RalA_RalB RalA/RalB subfamily. The Ral (Ras-like)	94.19
TIGR00176	155	mobB molybdopterin-guanine dinucleotide biosynthes	94.19
PRK08149	428	ATP synthase SpaL; Validated	94.19
COG1132	567	MdlB ABC-type multidrug transport system, ATPase a	94.14
COG1123	539	ATPase components of various ABC-type transport sy	94.14
PLN02348	395	phosphoribulokinase	94.12
COG0283	222	Cmk Cytidylate kinase [Nucleotide transport and me	94.12
PRK06731	270	flhF flagellar biosynthesis regulator FlhF; Valida	94.11
PRK06761	282	hypothetical protein; Provisional	94.11
TIGR02204	576	MsbA_rel ABC transporter, permease/ATP-binding pro	94.1
COG0003	322	ArsA Predicted ATPase involved in chromosome parti	94.09
COG2401	593	ABC-type ATPase fused to a predicted acetyltransfe	94.09
PRK03731	171	aroL shikimate kinase II; Reviewed	94.08
PF13245	76	AAA_19: Part of AAA domain	94.07
PRK08927	442	fliI flagellum-specific ATP synthase; Validated	94.06
COG3640	255	CooC CO dehydrogenase maturation factor [Cell divi	94.04
smart00534	185	MUTSac ATPase domain of DNA mismatch repair MUTS f	94.03
cd02022	179	DPCK Dephospho-coenzyme A kinase (DPCK, EC 2.7.1.2	94.02
cd01858	157	NGP_1 NGP-1. Autoantigen NGP-1 (Nucleolar G-protei	94.0
PRK14531	183	adenylate kinase; Provisional	93.99
cd01394	218	radB RadB. The archaeal protein radB shares simila	93.98
cd01672	200	TMPK Thymidine monophosphate kinase (TMPK), also k	93.98
PRK01184	184	hypothetical protein; Provisional	93.97
COG1117	253	PstB ABC-type phosphate transport system, ATPase c	93.97
TIGR01650	327	PD_CobS cobaltochelatase, CobS subunit. This model	93.97
smart00173	164	RAS Ras subfamily of RAS small GTPases. Similar in	93.97
PRK13768	253	GTPase; Provisional	93.96
cd04119	168	RJL RJL (RabJ-Like) subfamily. RJLs are found in m	93.96
PLN02165	334	adenylate isopentenyltransferase	93.96
PRK00023	225	cmk cytidylate kinase; Provisional	93.96
cd03285	222	ABC_MSH2_euk MutS2 homolog in eukaryotes. The MutS	93.95
cd01120	165	RecA-like_NTPases RecA-like NTPases. This family i	93.93
PRK13233	275	nifH nitrogenase reductase; Reviewed	93.93
TIGR00455	184	apsK adenylylsulfate kinase (apsK). Important resi	93.93
PRK12338	319	hypothetical protein; Provisional	93.92
TIGR01663	526	PNK-3'Pase polynucleotide 5'-kinase 3'-phosphatase	93.91
PRK08099	399	bifunctional DNA-binding transcriptional repressor	93.91
COG1119	257	ModF ABC-type molybdenum transport system, ATPase	93.91
PRK02496	184	adk adenylate kinase; Provisional	93.89
PLN02796	347	D-glycerate 3-kinase	93.89
PRK13235	274	nifH nitrogenase reductase; Reviewed	93.89
cd04163	168	Era Era subfamily. Era (E. coli Ras-like protein)	93.85
PRK10522	547	multidrug transporter membrane component/ATP-bindi	93.84
TIGR01351	210	adk adenylate kinases. Adenylate kinase (EC 2.7.4.	93.8
cd01862	172	Rab7 Rab7 subfamily. Rab7 is a small Rab GTPase th	93.77
KOG1970	634	consensus Checkpoint RAD17-RFC complex, RAD17/RAD2	93.76
cd03116	159	MobB Molybdenum is an essential trace element in t	93.74
PRK14526	211	adenylate kinase; Provisional	93.73
cd01130	186	VirB11-like_ATPase Type IV secretory pathway compo	93.72
PRK14528	186	adenylate kinase; Provisional	93.72
TIGR02237	209	recomb_radB DNA repair and recombination protein R	93.71
PF01078	206	Mg_chelatase: Magnesium chelatase, subunit ChlI; I	93.71
PF03215	519	Rad17: Rad17 cell cycle checkpoint protein	93.7
PTZ00494	664	tuzin-like protein; Provisional	93.69
COG2074	299	2-phosphoglycerate kinase [Carbohydrate transport	93.69
TIGR01420	343	pilT_fam pilus retraction protein PilT. This model	93.69
TIGR01618	220	phage_P_loop phage nucleotide-binding protein. Thi	93.69
TIGR00231	161	small_GTP small GTP-binding protein domain. This m	93.68
COG1419	407	FlhF Flagellar GTP-binding protein [Cell motility	93.67
cd03284	216	ABC_MutS1 MutS1 homolog in eukaryotes. The MutS pr	93.67
PF00142	273	Fer4_NifH: 4Fe-4S iron sulfur cluster binding prot	93.63
TIGR03498	418	FliI_clade3 flagellar protein export ATPase FliI.	93.63
PRK05986	191	cob(I)alamin adenolsyltransferase/cobinamide ATP-d	93.62
PF07724	171	AAA_2: AAA domain (Cdc48 subfamily); InterPro: IPR	93.61
cd04138	162	H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily. H-Ras,	93.61
smart00072	184	GuKc Guanylate kinase homologues. Active enzymes c	93.6
cd02032	267	Bchl_like This family of proteins contains bchL an	93.59
PRK14493	274	putative bifunctional molybdopterin-guanine dinucl	93.56
PF10662	143	PduV-EutP: Ethanolamine utilisation - propanediol	93.56
smart00175	164	RAB Rab subfamily of small GTPases. Rab GTPases ar	93.55
cd01135	276	V_A-ATPase_B V/A-type ATP synthase (non-catalytic)	93.54
TIGR00041	195	DTMP_kinase thymidylate kinase. Function: phosphor	93.54
cd03225	211	ABC_cobalt_CbiO_domain1 Domain I of the ABC compon	93.53
PF00154	322	RecA: recA bacterial DNA recombination protein; In	93.53
COG1763	161	MobB Molybdopterin-guanine dinucleotide biosynthes	93.52
cd03255	218	ABC_MJ0796_Lo1CDE_FtsE This family is comprised of	93.51
PRK13231	264	nitrogenase reductase-like protein; Reviewed	93.51

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=100.00  E-value=1.5e-56  Score=466.33  Aligned_cols=371  Identities=24%  Similarity=0.431  Sum_probs=303.1

Q ss_pred             chhHHHHHHHHHHHHHHHHHHHHhhhcCcccccCCc---ccCCCCcccccccCCCceecchhhHHHHHHHHhcCCCCCCC
Q 038234           24 FLRHDIALKIKAINEKFDDIAKQKDLFNFNVNITKR---IETPGRVQSIFFIDESEICGRDYKKNELLSKLLSDSSDQQK  100 (406)
Q Consensus        24 ~~r~~ia~ki~~i~~~l~~v~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~vGR~~~~~~l~~~L~~~~~~~~~  100 (406)
                      .++++.+..+..+..++..+.+....+.........   ..+...+...|...... ||.+..++++++.|..+.     
T Consensus       105 ~~~~~~~~~~~~~~~rv~~~l~~ve~l~~~~~~~~~~~~~~~~~~~e~~~~~~~~~-VG~e~~~~kl~~~L~~d~-----  178 (889)
T KOG4658|consen  105 GFCSKNVSDSYKYGKRVSKVLREVESLGSKGVFEVVGESLDPREKVETRPIQSESD-VGLETMLEKLWNRLMEDD-----  178 (889)
T ss_pred             hhHhHhhhhhHhHHHHHHHHHHHHHHhccccceecccccccchhhcccCCCCcccc-ccHHHHHHHHHHHhccCC-----
Confidence            356666667777777777777666666654422111   11111233334444444 999999999999999652     


Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHhcCCh-H-------------------HHHHHHHHHhcCCCCCCC--CHHHHHHHHHhh
Q 038234          101 PIKMISIVGMGGIGKITLAQMAYNDKD-F-------------------RVAKAIIAALGCETSNLG--SLQSLVRCISES  158 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~~~~~-~-------------------~~~~~i~~~l~~~~~~~~--~~~~~~~~l~~~  158 (406)
                       ..+++|+||||+||||||++++|+.. +                   +++.+|+..++.......  +.++++..|.+.
T Consensus       179 -~~iv~i~GMGGvGKTTL~~qi~N~~~~v~~~Fd~~iWV~VSk~f~~~~iq~~Il~~l~~~~~~~~~~~~~~~~~~i~~~  257 (889)
T KOG4658|consen  179 -VGIVGIYGMGGVGKTTLARQIFNKFDEVGNHFDGVIWVVVSKEFTTRKIQQTILERLGLLDEEWEDKEEDELASKLLNL  257 (889)
T ss_pred             -CCEEEEECCCcccHHHHHHHHhcccchhcccCceEEEEEEcccccHHhHHHHHHHHhccCCcccchhhHHHHHHHHHHH
Confidence             38999999999999999999999987 3                   788899998877544332  346888999999


Q ss_pred             ccCcceeEEeeCCCCcCccCcchhhhccCCCCCCcEEEEecCChHHHHH-hccCCccccCCCChHHHHHhhhhhc-----
Q 038234          159 IEGKKYLVVLDDVWTDDYTKWEPFQRCSANGQCGNNILVTTHKKTVARM-MESTNFISIKELSTQECWSLFKQES-----  232 (406)
Q Consensus       159 l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTtR~~~v~~~-~~~~~~~~l~~L~~~~a~~Lf~~~~-----  232 (406)
                      |++|||||||||||+..  +|+.+..++|...+||+|++|||++.|+.. ++....+++..|+++|||.||.+.+     
T Consensus       258 L~~krfllvLDDIW~~~--dw~~I~~~~p~~~~g~KvvlTTRs~~V~~~~m~~~~~~~v~~L~~~eaW~LF~~~v~~~~~  335 (889)
T KOG4658|consen  258 LEGKRFLLVLDDIWEEV--DWDKIGVPFPSRENGSKVVLTTRSEEVCGRAMGVDYPIEVECLTPEEAWDLFQKKVGPNTL  335 (889)
T ss_pred             hccCceEEEEecccccc--cHHhcCCCCCCccCCeEEEEEeccHhhhhccccCCccccccccCccccHHHHHHhhccccc
Confidence            99999999999999875  699999999999889999999999999999 7888999999999999999999988     


Q ss_pred             ------------cccch---hHHHHHHhhhhcchhhHHhhhhhccchhhh----hhhhhhhHHHHHHhccccCChhhhhH
Q 038234          233 ------------SAKPC---LLLQKLLGVSCALKELEMSGKNSLDSELWQ----LQELEKDLFSLLLLNYYDLPYRIKQC  293 (406)
Q Consensus       233 ------------i~~~c---PLai~~~g~~L~~~~~~~~w~~~~~~~~~~----~~~~~~~~~~~l~~sy~~L~~~~k~c  293 (406)
                                  ++++|   |||+.++|++|+.+.+..+|+.+.+...+.    .+..++.++.+|.+||+.||+++|.|
T Consensus       336 ~~~~~i~~lak~v~~kC~GLPLAl~viG~~ma~K~t~~eW~~~~~~l~s~~~~~~~~~~~~i~~iLklSyd~L~~~lK~C  415 (889)
T KOG4658|consen  336 GSHPDIEELAKEVAEKCGGLPLALNVLGGLLACKKTVQEWRRALNVLKSSLAADFSGMEESILPILKLSYDNLPEELKSC  415 (889)
T ss_pred             cccccHHHHHHHHHHHhCChHHHHHHHHHHhcCCCcHHHHHHHHccccccccCCCCchhhhhHHhhhccHhhhhHHHHHH
Confidence                        67788   999999999999999999999998876544    23357789999999999999999999


Q ss_pred             HhhhcccCCCCccCHHHHHHHHHHCCCccc-ccCCCHHHHHHHHHHHHHhcCCcceeecCCCCcccEEEECHHHHHHHHH
Q 038234          294 FRYCFISPKDSCIWKEDLIKLWIAQSFIEA-KENKEMEIIDEEYFDYLTARSFFQEFHKGSDDIITECKMHDIVHDFAQF  372 (406)
Q Consensus       294 fl~la~Fp~~~~i~~~~Li~~W~aeg~i~~-~~~~~~e~~~~~~l~~L~~~sll~~~~~~~~~~~~~~~mHdlv~~~~~~  372 (406)
                      |+|||+||+||.|+++.|+.+|+||||+.+ ..+.++++.|+.|+.+|++++|++.....  +...+|+|||+||++|.+
T Consensus       416 FLycalFPED~~I~~e~Li~yWiaEGfi~~~~~~~~~~d~G~~~i~~LV~~~Ll~~~~~~--~~~~~~kmHDvvRe~al~  493 (889)
T KOG4658|consen  416 FLYCALFPEDYEIKKEKLIEYWIAEGFIDPLDGGETAEDVGYDYIEELVRASLLIEERDE--GRKETVKMHDVVREMALW  493 (889)
T ss_pred             HHhhccCCcccccchHHHHHHHHhccCcCccccccchhcchHHHHHHHHHHHHHhhcccc--cceeEEEeeHHHHHHHHH
Confidence            999999999999999999999999999988 45788999999999999999999865433  566789999999999999


Q ss_pred             hhh-----cCeEEEEeC-CCCCcccCCCCCCeeEEEeec
Q 038234          373 LRK-----NQCLSIEVN-SPNQSLTNISWEKLQHSTLVP  405 (406)
Q Consensus       373 ~~~-----~e~~~~~~~-~~~~~~~~~~~~~~r~lsi~~  405 (406)
                      +|+     +|+.+.... +.........+..+||+|+++
T Consensus       494 ias~~~~~~e~~iv~~~~~~~~~~~~~~~~~~rr~s~~~  532 (889)
T KOG4658|consen  494 IASDFGKQEENQIVSDGVGLSEIPQVKSWNSVRRMSLMN  532 (889)
T ss_pred             HhccccccccceEEECCcCccccccccchhheeEEEEec
Confidence            999     777555543 222212234567899999876

>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=100.00  E-value=8.2e-41  Score=313.66  Aligned_cols=239  Identities=32%  Similarity=0.528  Sum_probs=193.2

Q ss_pred             chhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChH-------------------HHHHHHHHHhcC
Q 038234           80 RDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDF-------------------RVAKAIIAALGC  140 (406)
Q Consensus        80 R~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~-------------------~~~~~i~~~l~~  140 (406)
                      |+.++++|.+.|...    .++.++|+|+||||+||||||.+++++...                   .+...++..+..
T Consensus         1 re~~~~~l~~~L~~~----~~~~~~v~I~G~~G~GKT~LA~~~~~~~~~~~~f~~v~wv~~~~~~~~~~~~~~i~~~l~~   76 (287)
T PF00931_consen    1 REKEIEKLKDWLLDN----SNEVRVVAIVGMGGIGKTTLARQVARDLRIKNRFDGVIWVSLSKNPSLEQLLEQILRQLGE   76 (287)
T ss_dssp             -HHHHHHHHHHHHTT----TTSSEEEEEEESTTSSHHHHHHHHHCHHHHCCCCTEEEEEEEES-SCCHHHHHHHHHHHTC
T ss_pred             CHHHHHHHHHHhhCC----CCCeEEEEEEcCCcCCcceeeeecccccccccccccccccccccccccccccccccccccc
Confidence            789999999999964    367999999999999999999999987332                   678889999987


Q ss_pred             CCC---CCCCHHHHHHHHHhhccCcceeEEeeCCCCcCccCcchhhhccCCCCCCcEEEEecCChHHHHHhcc-CCcccc
Q 038234          141 ETS---NLGSLQSLVRCISESIEGKKYLVVLDDVWTDDYTKWEPFQRCSANGQCGNNILVTTHKKTVARMMES-TNFISI  216 (406)
Q Consensus       141 ~~~---~~~~~~~~~~~l~~~l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTtR~~~v~~~~~~-~~~~~l  216 (406)
                      ...   ...+...+...+.+.|.++++||||||||+..  .|+.+...++....|++||||||+..++..++. ...+++
T Consensus        77 ~~~~~~~~~~~~~~~~~l~~~L~~~~~LlVlDdv~~~~--~~~~l~~~~~~~~~~~kilvTTR~~~v~~~~~~~~~~~~l  154 (287)
T PF00931_consen   77 PDSSISDPKDIEELQDQLRELLKDKRCLLVLDDVWDEE--DLEELREPLPSFSSGSKILVTTRDRSVAGSLGGTDKVIEL  154 (287)
T ss_dssp             C-STSSCCSSHHHHHHHHHHHHCCTSEEEEEEEE-SHH--HH-------HCHHSS-EEEEEESCGGGGTTHHSCEEEEEC
T ss_pred             cccccccccccccccccchhhhccccceeeeeeecccc--cccccccccccccccccccccccccccccccccccccccc
Confidence            743   45678889999999999999999999998764  787787777777779999999999998887665 678999


Q ss_pred             CCCChHHHHHhhhhhc-----------------cccch---hHHHHHHhhhhcchhhHHhhhhhccchhhhhh---hhhh
Q 038234          217 KELSTQECWSLFKQES-----------------SAKPC---LLLQKLLGVSCALKELEMSGKNSLDSELWQLQ---ELEK  273 (406)
Q Consensus       217 ~~L~~~~a~~Lf~~~~-----------------i~~~c---PLai~~~g~~L~~~~~~~~w~~~~~~~~~~~~---~~~~  273 (406)
                      ++|+.++|++||.+.+                 |++.|   |||++++|++|+.+.+..+|...++.......   ....
T Consensus       155 ~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLal~~~a~~l~~~~~~~~w~~~~~~l~~~~~~~~~~~~  234 (287)
T PF00931_consen  155 EPLSEEEALELFKKRAGRKESESPEDLEDLAKEIVEKCGGLPLALKLIASYLRSKSTVDEWEEALEELENSLRESRDYDR  234 (287)
T ss_dssp             SS--HHHHHHHHHHHHTSHS----TTSCTHHHHHHHHTTT-HHHHHHHHHHHHHHHSSSSHHHHHHHHHHCHTCSSGSCH
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence            9999999999999875                 56666   99999999999877777889888776554432   2457


Q ss_pred             hHHHHHHhccccCChhhhhHHhhhcccCCCCccCHHHHHHHHHHCCCcccc
Q 038234          274 DLFSLLLLNYYDLPYRIKQCFRYCFISPKDSCIWKEDLIKLWIAQSFIEAK  324 (406)
Q Consensus       274 ~~~~~l~~sy~~L~~~~k~cfl~la~Fp~~~~i~~~~Li~~W~aeg~i~~~  324 (406)
                      ++..++.+||+.||+++|.||+|||+||+++.|+++.|+++|++||||...
T Consensus       235 ~~~~~l~~s~~~L~~~~~~~f~~L~~f~~~~~i~~~~li~lW~~e~~i~~~  285 (287)
T PF00931_consen  235 SVFSALELSYDSLPDELRRCFLYLSIFPEGVPIPRERLIRLWVAEGFISSK  285 (287)
T ss_dssp             HHHHHHHHHHHSSHTCCHHHHHHGGGSGTTS-EEHHHHHHHHTT-HHTC--
T ss_pred             cccccceechhcCCccHHHHHhhCcCCCCCceECHHHHHHHHHHCCCCccc
Confidence            899999999999999999999999999999999999999999999998764

This domain has been structurally characterised in the human protein apoptotic protease-activating factor 1 (Apaf-1) []. It contains the three-layered alpha-beta fold and subsequent short alpha-helical region characteristic of the AAA+ ATPase domain superfamily. While this domain is thought to bind and hyrolyse ATP, only ADP binding has been experimentally verified. It is proposed that binding and hydrolysis of ATP by this domain induces conformational changes the the overall protein, leading to formation of the apoptosome.; GO: 0043531 ADP binding; PDB: 3IZA_E 1Z6T_D 3SFZ_A 3SHF_A 1VT4_M 3IZ8_G 3LQR_A 2A5Y_C 3LQQ_A.

>PLN03210 Resistant to P

Probab=100.00  E-value=1.3e-38  Score=347.41  Aligned_cols=314  Identities=17%  Similarity=0.168  Sum_probs=234.3

Q ss_pred             HHHHHHHHHHHHHHHHHhhhcCccccc-------CCcccCCCCcccccccCCCceecchhhHHHHHHHHhcCCCCCCCCc
Q 038234           30 ALKIKAINEKFDDIAKQKDLFNFNVNI-------TKRIETPGRVQSIFFIDESEICGRDYKKNELLSKLLSDSSDQQKPI  102 (406)
Q Consensus        30 a~ki~~i~~~l~~v~~~~~~~~~~~~~-------~~~~~~~~~~~~~~~~~~~~~vGR~~~~~~l~~~L~~~~~~~~~~~  102 (406)
                      ..++++|++.|.+++ ...++.+....       .............+..+.+.+|||+..++++..+|...    .+++
T Consensus       133 ~~~~~~w~~al~~~~-~~~g~~~~~~~~E~~~i~~Iv~~v~~~l~~~~~~~~~~~vG~~~~l~~l~~lL~l~----~~~~  207 (1153)
T PLN03210        133 EDEKIQWKQALTDVA-NILGYHSQNWPNEAKMIEEIANDVLGKLNLTPSNDFEDFVGIEDHIAKMSSLLHLE----SEEV  207 (1153)
T ss_pred             hhHHHHHHHHHHHHh-CcCceecCCCCCHHHHHHHHHHHHHHhhccccCcccccccchHHHHHHHHHHHccc----cCce
Confidence            357899999999998 44444443211       01111112222334445577999999999999988644    4568


Q ss_pred             EEEEEeeeCCCcHHHHHHHHhcCChHHHH--------------------------------HHHHHHhcCCCC-CCCCHH
Q 038234          103 KMISIVGMGGIGKITLAQMAYNDKDFRVA--------------------------------KAIIAALGCETS-NLGSLQ  149 (406)
Q Consensus       103 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~--------------------------------~~i~~~l~~~~~-~~~~~~  149 (406)
                      ++|+|+||||+||||||+++|+.....+.                                ..++..+..... ....  
T Consensus       208 ~vvgI~G~gGiGKTTLA~~l~~~l~~~F~g~vfv~~~~v~~~~~~~~~~~~~~~~~~~~l~~~~l~~il~~~~~~~~~--  285 (1153)
T PLN03210        208 RMVGIWGSSGIGKTTIARALFSRLSRQFQSSVFIDRAFISKSMEIYSSANPDDYNMKLHLQRAFLSEILDKKDIKIYH--  285 (1153)
T ss_pred             EEEEEEcCCCCchHHHHHHHHHHHhhcCCeEEEeeccccccchhhcccccccccchhHHHHHHHHHHHhCCCCcccCC--
Confidence            99999999999999999999886543210                                111111111100 0001  


Q ss_pred             HHHHHHHhhccCcceeEEeeCCCCcCccCcchhhhccCCCCCCcEEEEecCChHHHHHhccCCccccCCCChHHHHHhhh
Q 038234          150 SLVRCISESIEGKKYLVVLDDVWTDDYTKWEPFQRCSANGQCGNNILVTTHKKTVARMMESTNFISIKELSTQECWSLFK  229 (406)
Q Consensus       150 ~~~~~l~~~l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTtR~~~v~~~~~~~~~~~l~~L~~~~a~~Lf~  229 (406)
                        ...+++.+.+||+||||||||+.  ..|+.+.....+.++||+||||||++.++..++...+|+++.|+.++||+||+
T Consensus       286 --~~~~~~~L~~krvLLVLDdv~~~--~~l~~L~~~~~~~~~GsrIIiTTrd~~vl~~~~~~~~~~v~~l~~~ea~~LF~  361 (1153)
T PLN03210        286 --LGAMEERLKHRKVLIFIDDLDDQ--DVLDALAGQTQWFGSGSRIIVITKDKHFLRAHGIDHIYEVCLPSNELALEMFC  361 (1153)
T ss_pred             --HHHHHHHHhCCeEEEEEeCCCCH--HHHHHHHhhCccCCCCcEEEEEeCcHHHHHhcCCCeEEEecCCCHHHHHHHHH
Confidence              13466778899999999999765  46888877666778899999999999999887778899999999999999998


Q ss_pred             hhc----------------cccch---hHHHHHHhhhhcchhhHHhhhhhccchhhhhhhhhhhHHHHHHhccccCCh-h
Q 038234          230 QES----------------SAKPC---LLLQKLLGVSCALKELEMSGKNSLDSELWQLQELEKDLFSLLLLNYYDLPY-R  289 (406)
Q Consensus       230 ~~~----------------i~~~c---PLai~~~g~~L~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~l~~sy~~L~~-~  289 (406)
                      +.|                ++++|   |||++++|++|+.+. ..+|+.++.++...   .+.++.++|++||++|++ .
T Consensus       362 ~~Af~~~~~~~~~~~l~~~iv~~c~GLPLAl~vlgs~L~~k~-~~~W~~~l~~L~~~---~~~~I~~~L~~SYd~L~~~~  437 (1153)
T PLN03210        362 RSAFKKNSPPDGFMELASEVALRAGNLPLGLNVLGSYLRGRD-KEDWMDMLPRLRNG---LDGKIEKTLRVSYDGLNNKK  437 (1153)
T ss_pred             HHhcCCCCCcHHHHHHHHHHHHHhCCCcHHHHHHHHHHcCCC-HHHHHHHHHHHHhC---ccHHHHHHHHHhhhccCccc
Confidence            876                56666   999999999999875 78999998876443   456899999999999987 5


Q ss_pred             hhhHHhhhcccCCCCccCHHHHHHHHHHCCCcccccCCCHHHHHHHHHHHHHhcCCcceeecCCCCcccEEEECHHHHHH
Q 038234          290 IKQCFRYCFISPKDSCIWKEDLIKLWIAQSFIEAKENKEMEIIDEEYFDYLTARSFFQEFHKGSDDIITECKMHDIVHDF  369 (406)
Q Consensus       290 ~k~cfl~la~Fp~~~~i~~~~Li~~W~aeg~i~~~~~~~~e~~~~~~l~~L~~~sll~~~~~~~~~~~~~~~mHdlv~~~  369 (406)
                      .|.||+++|+||.+..++   .+..|++.+....          +..++.|+++|||+...       ..+.|||++|+|
T Consensus       438 ~k~~Fl~ia~ff~~~~~~---~v~~~l~~~~~~~----------~~~l~~L~~ksLi~~~~-------~~~~MHdLl~~~  497 (1153)
T PLN03210        438 DKAIFRHIACLFNGEKVN---DIKLLLANSDLDV----------NIGLKNLVDKSLIHVRE-------DIVEMHSLLQEM  497 (1153)
T ss_pred             hhhhhheehhhcCCCCHH---HHHHHHHhcCCCc----------hhChHHHHhcCCEEEcC-------CeEEhhhHHHHH
Confidence            999999999999986553   3677877765432          22388999999998632       258999999999


Q ss_pred             HHHhhhcCe
Q 038234          370 AQFLRKNQC  378 (406)
Q Consensus       370 ~~~~~~~e~  378 (406)
                      |+++++++.
T Consensus       498 ~r~i~~~~~  506 (1153)
T PLN03210        498 GKEIVRAQS  506 (1153)
T ss_pred             HHHHHHhhc
Confidence            999998774

syringae 6; Provisional

>PRK04841 transcriptional regulator MalT; Provisional

Probab=99.35  E-value=5.3e-11  Score=129.02  Aligned_cols=267  Identities=15%  Similarity=0.180  Sum_probs=157.4

Q ss_pred             CceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCCh-H-------------HHHHHHHHHhcC
Q 038234           75 SEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKD-F-------------RVAKAIIAALGC  140 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~-~-------------~~~~~i~~~l~~  140 (406)
                      +.++-|+.-.+    .|..     ....+++.|+|++|.||||++.+...... +             .|...++..+..
T Consensus        14 ~~~~~R~rl~~----~l~~-----~~~~~~~~v~apaG~GKTtl~~~~~~~~~~~~w~~l~~~d~~~~~f~~~l~~~l~~   84 (903)
T PRK04841         14 HNTVVRERLLA----KLSG-----ANNYRLVLVTSPAGYGKTTLISQWAAGKNNLGWYSLDESDNQPERFASYLIAALQQ   84 (903)
T ss_pred             cccCcchHHHH----HHhc-----ccCCCeEEEECCCCCCHHHHHHHHHHhCCCeEEEecCcccCCHHHHHHHHHHHHHH
Confidence            45666654444    4432     23477999999999999999988765321 1             455555555532


Q ss_pred             CCCC-------------CCCHHHHHHHHHhhcc--CcceeEEeeCCCCcCccCcc-hhhhccCCCCCCcEEEEecCChH-
Q 038234          141 ETSN-------------LGSLQSLVRCISESIE--GKKYLVVLDDVWTDDYTKWE-PFQRCSANGQCGNNILVTTHKKT-  203 (406)
Q Consensus       141 ~~~~-------------~~~~~~~~~~l~~~l~--~kr~LlVlDdvw~~~~~~~~-~l~~~l~~~~~gs~IivTtR~~~-  203 (406)
                      ..+.             ..+...+...+...+.  +.+++|||||++.-+..... .+...+.....+.++|||||... 
T Consensus        85 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~lvlDD~h~~~~~~~~~~l~~l~~~~~~~~~lv~~sR~~~~  164 (903)
T PRK04841         85 ATNGHCSKSEALAQKRQYASLSSLFAQLFIELADWHQPLYLVIDDYHLITNPEIHEAMRFFLRHQPENLTLVVLSRNLPP  164 (903)
T ss_pred             hcCcccchhhhhhccCCcCCHHHHHHHHHHHHhcCCCCEEEEEeCcCcCCChHHHHHHHHHHHhCCCCeEEEEEeCCCCC
Confidence            1111             0122223333332222  68999999999765433333 34333444455778889999842 


Q ss_pred             --HHHHhccCCccccC----CCChHHHHHhhhhhc-----------cccch---hHHHHHHhhhhcchhhHHhhhhhccc
Q 038234          204 --VARMMESTNFISIK----ELSTQECWSLFKQES-----------SAKPC---LLLQKLLGVSCALKELEMSGKNSLDS  263 (406)
Q Consensus       204 --v~~~~~~~~~~~l~----~L~~~~a~~Lf~~~~-----------i~~~c---PLai~~~g~~L~~~~~~~~w~~~~~~  263 (406)
                        ...........++.    +|+.+|+..+|....           +...|   |+++..++..+.......      ..
T Consensus       165 ~~~~~l~~~~~~~~l~~~~l~f~~~e~~~ll~~~~~~~~~~~~~~~l~~~t~Gwp~~l~l~~~~~~~~~~~~------~~  238 (903)
T PRK04841        165 LGIANLRVRDQLLEIGSQQLAFDHQEAQQFFDQRLSSPIEAAESSRLCDDVEGWATALQLIALSARQNNSSL------HD  238 (903)
T ss_pred             CchHhHHhcCcceecCHHhCCCCHHHHHHHHHhccCCCCCHHHHHHHHHHhCChHHHHHHHHHHHhhCCCch------hh
Confidence              11111123345566    999999999997643           33344   999988876654332100      00


Q ss_pred             hhhhhhh-hhhhHHHHHHh-ccccCChhhhhHHhhhcccCCCCccCHHHHHHHHHHCCCcccccCCCHHHHHHHHHHHHH
Q 038234          264 ELWQLQE-LEKDLFSLLLL-NYYDLPYRIKQCFRYCFISPKDSCIWKEDLIKLWIAQSFIEAKENKEMEIIDEEYFDYLT  341 (406)
Q Consensus       264 ~~~~~~~-~~~~~~~~l~~-sy~~L~~~~k~cfl~la~Fp~~~~i~~~~Li~~W~aeg~i~~~~~~~~e~~~~~~l~~L~  341 (406)
                      ..+.... ....+...+.- .|+.||++.+..++.+|+++ .  ++.+-+-.+.   |          .+.+...+++|.
T Consensus       239 ~~~~~~~~~~~~~~~~l~~~v~~~l~~~~~~~l~~~a~~~-~--~~~~l~~~l~---~----------~~~~~~~L~~l~  302 (903)
T PRK04841        239 SARRLAGINASHLSDYLVEEVLDNVDLETRHFLLRCSVLR-S--MNDALIVRVT---G----------EENGQMRLEELE  302 (903)
T ss_pred             hhHhhcCCCchhHHHHHHHHHHhcCCHHHHHHHHHhcccc-c--CCHHHHHHHc---C----------CCcHHHHHHHHH
Confidence            0011111 12335554433 37899999999999999997 3  5544333221   1          112356799999


Q ss_pred             hcCCcceeecCCCCcccEEEECHHHHHHHHHhhh
Q 038234          342 ARSFFQEFHKGSDDIITECKMHDIVHDFAQFLRK  375 (406)
Q Consensus       342 ~~sll~~~~~~~~~~~~~~~mHdlv~~~~~~~~~  375 (406)
                      +.+++..... ..+  ..|+.|++++++++....
T Consensus       303 ~~~l~~~~~~-~~~--~~yr~H~L~r~~l~~~l~  333 (903)
T PRK04841        303 RQGLFIQRMD-DSG--EWFRYHPLFASFLRHRCQ  333 (903)
T ss_pred             HCCCeeEeec-CCC--CEEehhHHHHHHHHHHHH
Confidence            9999743211 111  368899999999987653

>PRK00411 cdc6 cell division control protein 6; Reviewed

Probab=99.17  E-value=3.3e-09  Score=104.10  Aligned_cols=288  Identities=14%  Similarity=0.050  Sum_probs=154.2

Q ss_pred             ccCCCceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChH-------------------HHH
Q 038234           71 FIDESEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDF-------------------RVA  131 (406)
Q Consensus        71 ~~~~~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~-------------------~~~  131 (406)
                      ...++.++||++++++|...|.....  ......+.|+|++|+|||++++.+++....                   .++
T Consensus        26 ~~~P~~l~~Re~e~~~l~~~l~~~~~--~~~~~~~lI~G~~GtGKT~l~~~v~~~l~~~~~~~~~v~in~~~~~~~~~~~  103 (394)
T PRK00411         26 DYVPENLPHREEQIEELAFALRPALR--GSRPLNVLIYGPPGTGKTTTVKKVFEELEEIAVKVVYVYINCQIDRTRYAIF  103 (394)
T ss_pred             CCcCCCCCCHHHHHHHHHHHHHHHhC--CCCCCeEEEECCCCCCHHHHHHHHHHHHHHhcCCcEEEEEECCcCCCHHHHH
Confidence            33556799999999999999854321  223445789999999999999999875321                   566


Q ss_pred             HHHHHHhcCC-CC-CCCCHHHHHHHHHhhcc--CcceeEEeeCCCCcC-ccCcchh---hhccCCCC-CCcEEEEecCCh
Q 038234          132 KAIIAALGCE-TS-NLGSLQSLVRCISESIE--GKKYLVVLDDVWTDD-YTKWEPF---QRCSANGQ-CGNNILVTTHKK  202 (406)
Q Consensus       132 ~~i~~~l~~~-~~-~~~~~~~~~~~l~~~l~--~kr~LlVlDdvw~~~-~~~~~~l---~~~l~~~~-~gs~IivTtR~~  202 (406)
                      ..++.++... .+ ...+.+++...+.+.+.  +++.+||||+++.-. ....+.+   ...+.... ....+|.++...
T Consensus       104 ~~i~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~viviDE~d~l~~~~~~~~l~~l~~~~~~~~~~~v~vI~i~~~~  183 (394)
T PRK00411        104 SEIARQLFGHPPPSSGLSFDELFDKIAEYLDERDRVLIVALDDINYLFEKEGNDVLYSLLRAHEEYPGARIGVIGISSDL  183 (394)
T ss_pred             HHHHHHhcCCCCCCCCCCHHHHHHHHHHHHHhcCCEEEEEECCHhHhhccCCchHHHHHHHhhhccCCCeEEEEEEECCc
Confidence            7788887652 22 22345666666666664  456899999996532 1112222   22222211 122356555554


Q ss_pred             HHHHHhc-------cCCccccCCCChHHHHHhhhhhc---ccc-ch-hHHHHHHhhhhcch-hhH--------Hhhhhhc
Q 038234          203 TVARMME-------STNFISIKELSTQECWSLFKQES---SAK-PC-LLLQKLLGVSCALK-ELE--------MSGKNSL  261 (406)
Q Consensus       203 ~v~~~~~-------~~~~~~l~~L~~~~a~~Lf~~~~---i~~-~c-PLai~~~g~~L~~~-~~~--------~~w~~~~  261 (406)
                      .+.....       ....+.+.+++.++...++...+   ... .. +-++..++...... .+.        ..+....
T Consensus       184 ~~~~~l~~~~~s~~~~~~i~f~py~~~e~~~il~~r~~~~~~~~~~~~~~l~~i~~~~~~~~Gd~r~a~~ll~~a~~~a~  263 (394)
T PRK00411        184 TFLYILDPRVKSVFRPEEIYFPPYTADEIFDILKDRVEEGFYPGVVDDEVLDLIADLTAREHGDARVAIDLLRRAGLIAE  263 (394)
T ss_pred             chhhhcCHHHHhcCCcceeecCCCCHHHHHHHHHHHHHhhcccCCCCHhHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHH
Confidence            3333221       13467899999999999988765   111 11 33333333322110 001        1111110


Q ss_pred             cchh-----hhhhhhhhh-HHHHHHhccccCChhhhhHHhhhcccCC--CCccCHHHHHHH--HHHCCCcccccCCCHHH
Q 038234          262 DSEL-----WQLQELEKD-LFSLLLLNYYDLPYRIKQCFRYCFISPK--DSCIWKEDLIKL--WIAQSFIEAKENKEMEI  331 (406)
Q Consensus       262 ~~~~-----~~~~~~~~~-~~~~l~~sy~~L~~~~k~cfl~la~Fp~--~~~i~~~~Li~~--W~aeg~i~~~~~~~~e~  331 (406)
                      ....     .......+. -...+.-.+..||.+.|..+..++-.-+  ...+....+...  .+++.+-  ....+. .
T Consensus       264 ~~~~~~I~~~~v~~a~~~~~~~~~~~~~~~L~~~~k~~L~ai~~~~~~~~~~~~~~~i~~~y~~l~~~~~--~~~~~~-~  340 (394)
T PRK00411        264 REGSRKVTEEDVRKAYEKSEIVHLSEVLRTLPLHEKLLLRAIVRLLKKGGDEVTTGEVYEEYKELCEELG--YEPRTH-T  340 (394)
T ss_pred             HcCCCCcCHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhcCCCcccHHHHHHHHHHHHHHcC--CCcCcH-H
Confidence            0000     000000111 1233455688999988887776653321  123555555433  2232210  011122 2


Q ss_pred             HHHHHHHHHHhcCCcceeec--CCCCcccEEEEC
Q 038234          332 IDEEYFDYLTARSFFQEFHK--GSDDIITECKMH  363 (406)
Q Consensus       332 ~~~~~l~~L~~~sll~~~~~--~~~~~~~~~~mH  363 (406)
                      ....|++.|...++|+....  +..|..+.++++
T Consensus       341 ~~~~~l~~L~~~glI~~~~~~~g~~g~~~~~~~~  374 (394)
T PRK00411        341 RFYEYINKLDMLGIINTRYSGKGGRGRTRLISLS  374 (394)
T ss_pred             HHHHHHHHHHhcCCeEEEEecCCCCCCeEEEEec
Confidence            34669999999999986543  233444555554

>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed

Probab=99.06  E-value=7.1e-10  Score=105.85  Aligned_cols=252  Identities=13%  Similarity=0.080  Sum_probs=132.0

Q ss_pred             CceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChHHHHHHHHHHhcCCCCCCCCHHHHHHH
Q 038234           75 SEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDFRVAKAIIAALGCETSNLGSLQSLVRC  154 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~  154 (406)
                      .+|+|++..++.+...+..... .......+.|+|++|+|||+||+.+++.....+.       ....+.......+...
T Consensus        25 ~~~vG~~~~~~~l~~~l~~~~~-~~~~~~~~ll~GppG~GKT~la~~ia~~l~~~~~-------~~~~~~~~~~~~l~~~   96 (328)
T PRK00080         25 DEFIGQEKVKENLKIFIEAAKK-RGEALDHVLLYGPPGLGKTTLANIIANEMGVNIR-------ITSGPALEKPGDLAAI   96 (328)
T ss_pred             HHhcCcHHHHHHHHHHHHHHHh-cCCCCCcEEEECCCCccHHHHHHHHHHHhCCCeE-------EEecccccChHHHHHH
Confidence            5699999999998887753211 0234567889999999999999999876532110       0000011111222222


Q ss_pred             HHhhccCcceeEEeeCCCCcCccCcchhhhccC-------------------CCCCCcEEEEecCChHHHHHhc--cCCc
Q 038234          155 ISESIEGKKYLVVLDDVWTDDYTKWEPFQRCSA-------------------NGQCGNNILVTTHKKTVARMME--STNF  213 (406)
Q Consensus       155 l~~~l~~kr~LlVlDdvw~~~~~~~~~l~~~l~-------------------~~~~gs~IivTtR~~~v~~~~~--~~~~  213 (406)
                      +.. + ++.-+|++|++........+.+...+.                   ...+.+-|..|++...+...+.  ....
T Consensus        97 l~~-l-~~~~vl~IDEi~~l~~~~~e~l~~~~e~~~~~~~l~~~~~~~~~~~~l~~~~li~at~~~~~l~~~L~sRf~~~  174 (328)
T PRK00080         97 LTN-L-EEGDVLFIDEIHRLSPVVEEILYPAMEDFRLDIMIGKGPAARSIRLDLPPFTLIGATTRAGLLTSPLRDRFGIV  174 (328)
T ss_pred             HHh-c-ccCCEEEEecHhhcchHHHHHHHHHHHhcceeeeeccCccccceeecCCCceEEeecCCcccCCHHHHHhcCee
Confidence            222 2 345577888875432111111111110                   0112345666777544333221  1356


Q ss_pred             cccCCCChHHHHHhhhhhccccch---hHHHHHHhhhhcchhh--------HHhhhhhccchhhhhhhhhhhHHHHHHhc
Q 038234          214 ISIKELSTQECWSLFKQESSAKPC---LLLQKLLGVSCALKEL--------EMSGKNSLDSELWQLQELEKDLFSLLLLN  282 (406)
Q Consensus       214 ~~l~~L~~~~a~~Lf~~~~i~~~c---PLai~~~g~~L~~~~~--------~~~w~~~~~~~~~~~~~~~~~~~~~l~~s  282 (406)
                      +.+++++.++..+++.+.+-....   |=++..++........        ...|........ -....-......+...
T Consensus       175 ~~l~~~~~~e~~~il~~~~~~~~~~~~~~~~~~ia~~~~G~pR~a~~~l~~~~~~a~~~~~~~-I~~~~v~~~l~~~~~~  253 (328)
T PRK00080        175 QRLEFYTVEELEKIVKRSARILGVEIDEEGALEIARRSRGTPRIANRLLRRVRDFAQVKGDGV-ITKEIADKALDMLGVD  253 (328)
T ss_pred             eecCCCCHHHHHHHHHHHHHHcCCCcCHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCCC-CCHHHHHHHHHHhCCC
Confidence            899999999999999877611111   3233333222211110        111111110000 0011223445667788


Q ss_pred             cccCChhhhhHHh-hhcccCCCCccCHHHHHHHHHHCCCcccccCCCHHHHHHHHHH-HHHhcCCccee
Q 038234          283 YYDLPYRIKQCFR-YCFISPKDSCIWKEDLIKLWIAQSFIEAKENKEMEIIDEEYFD-YLTARSFFQEF  349 (406)
Q Consensus       283 y~~L~~~~k~cfl-~la~Fp~~~~i~~~~Li~~W~aeg~i~~~~~~~~e~~~~~~l~-~L~~~sll~~~  349 (406)
                      +..|++..+..+. .+..|+.+ .+..+.+....       +.+..    .+++.++ .|++.+||+..
T Consensus       254 ~~~l~~~~~~~l~~~~~~~~~~-~~~~~~~a~~l-------g~~~~----~~~~~~e~~Li~~~li~~~  310 (328)
T PRK00080        254 ELGLDEMDRKYLRTIIEKFGGG-PVGLDTLAAAL-------GEERD----TIEDVYEPYLIQQGFIQRT  310 (328)
T ss_pred             cCCCCHHHHHHHHHHHHHcCCC-ceeHHHHHHHH-------CCCcc----hHHHHhhHHHHHcCCcccC
Confidence            8899887777665 66777766 46666654433       11122    3344456 89999999743

>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit

Probab=99.04  E-value=1e-09  Score=103.86  Aligned_cols=251  Identities=11%  Similarity=0.078  Sum_probs=127.8

Q ss_pred             CceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChHHHHHHHHHHhcCCCCCCCCHHHHHHH
Q 038234           75 SEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDFRVAKAIIAALGCETSNLGSLQSLVRC  154 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~  154 (406)
                      .+|+|++..+++|..++..... .......+.++|++|+|||+||+.+++.....+.       ............+...
T Consensus         4 ~~~iG~~~~~~~l~~~l~~~~~-~~~~~~~~ll~Gp~G~GKT~la~~ia~~~~~~~~-------~~~~~~~~~~~~l~~~   75 (305)
T TIGR00635         4 AEFIGQEKVKEQLQLFIEAAKM-RQEALDHLLLYGPPGLGKTTLAHIIANEMGVNLK-------ITSGPALEKPGDLAAI   75 (305)
T ss_pred             HHHcCHHHHHHHHHHHHHHHHh-cCCCCCeEEEECCCCCCHHHHHHHHHHHhCCCEE-------EeccchhcCchhHHHH
Confidence            4689999999999888863211 0233556889999999999999998876432100       0000001111222222


Q ss_pred             HHhhccCcceeEEeeCCCCcCccCcchhhhccC-------------------CCCCCcEEEEecCChHHHHHhc--cCCc
Q 038234          155 ISESIEGKKYLVVLDDVWTDDYTKWEPFQRCSA-------------------NGQCGNNILVTTHKKTVARMME--STNF  213 (406)
Q Consensus       155 l~~~l~~kr~LlVlDdvw~~~~~~~~~l~~~l~-------------------~~~~gs~IivTtR~~~v~~~~~--~~~~  213 (406)
                      +...  +...+|++|++..-.....+.+...+.                   ...+.+-|..||+...+.....  ....
T Consensus        76 l~~~--~~~~vl~iDEi~~l~~~~~e~l~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~li~~t~~~~~l~~~l~sR~~~~  153 (305)
T TIGR00635        76 LTNL--EEGDVLFIDEIHRLSPAVEELLYPAMEDFRLDIVIGKGPSARSVRLDLPPFTLVGATTRAGMLTSPLRDRFGII  153 (305)
T ss_pred             HHhc--ccCCEEEEehHhhhCHHHHHHhhHHHhhhheeeeeccCccccceeecCCCeEEEEecCCccccCHHHHhhcceE
Confidence            2221  234577777774322211111211110                   1112445566777654433221  1456


Q ss_pred             cccCCCChHHHHHhhhhhccccch---hHHHHHHhhhhcchhh------HHhhhhh--ccchhhhhhhhhhhHHHHHHhc
Q 038234          214 ISIKELSTQECWSLFKQESSAKPC---LLLQKLLGVSCALKEL------EMSGKNS--LDSELWQLQELEKDLFSLLLLN  282 (406)
Q Consensus       214 ~~l~~L~~~~a~~Lf~~~~i~~~c---PLai~~~g~~L~~~~~------~~~w~~~--~~~~~~~~~~~~~~~~~~l~~s  282 (406)
                      +.+++++.++..+++.+.+-....   |=++..++........      ...|...  .... .-..+.-......+...
T Consensus       154 ~~l~~l~~~e~~~il~~~~~~~~~~~~~~al~~ia~~~~G~pR~~~~ll~~~~~~a~~~~~~-~it~~~v~~~l~~l~~~  232 (305)
T TIGR00635       154 LRLEFYTVEELAEIVSRSAGLLNVEIEPEAALEIARRSRGTPRIANRLLRRVRDFAQVRGQK-IINRDIALKALEMLMID  232 (305)
T ss_pred             EEeCCCCHHHHHHHHHHHHHHhCCCcCHHHHHHHHHHhCCCcchHHHHHHHHHHHHHHcCCC-CcCHHHHHHHHHHhCCC
Confidence            789999999999999876611111   3333333322211110      0111110  1100 00011112333346778


Q ss_pred             cccCChhhhhHHh-hhcccCCCCccCHHHHHHHHHHCCCcccccCCCHHHHHHHHHH-HHHhcCCcce
Q 038234          283 YYDLPYRIKQCFR-YCFISPKDSCIWKEDLIKLWIAQSFIEAKENKEMEIIDEEYFD-YLTARSFFQE  348 (406)
Q Consensus       283 y~~L~~~~k~cfl-~la~Fp~~~~i~~~~Li~~W~aeg~i~~~~~~~~e~~~~~~l~-~L~~~sll~~  348 (406)
                      |..|+++.+..+. .+..++.+ .+..+.+....   |       .+ ...++..++ .|++++||+.
T Consensus       233 ~~~l~~~~~~~L~al~~~~~~~-~~~~~~ia~~l---g-------~~-~~~~~~~~e~~Li~~~li~~  288 (305)
T TIGR00635       233 ELGLDEIDRKLLSVLIEQFQGG-PVGLKTLAAAL---G-------ED-ADTIEDVYEPYLLQIGFLQR  288 (305)
T ss_pred             CCCCCHHHHHHHHHHHHHhCCC-cccHHHHHHHh---C-------CC-cchHHHhhhHHHHHcCCccc
Confidence            8999988777666 55666544 45554443332   1       11 124456677 6999999963

RuvA specifically binds Holliday junctions as a sandwich of two tetramers and maintains the configuration of the junction. It forms a complex with two hexameric rings of RuvB, the subunit that contains helicase activity. The complex drives ATP-dependent branch migration of the Holliday junction recombination intermediate. The endonuclease RuvC resolves junctions.

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=99.03  E-value=2.3e-08  Score=101.67  Aligned_cols=268  Identities=17%  Similarity=0.182  Sum_probs=161.6

Q ss_pred             CCceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCCh-----------------HHHHHHHHH
Q 038234           74 ESEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKD-----------------FRVAKAIIA  136 (406)
Q Consensus        74 ~~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~-----------------~~~~~~i~~  136 (406)
                      +...|-|    ..+.+.|..     ....+.+.|..++|.|||||+.+......                 .+|...++.
T Consensus        18 ~~~~v~R----~rL~~~L~~-----~~~~RL~li~APAGfGKttl~aq~~~~~~~~~~v~Wlslde~dndp~rF~~yLi~   88 (894)
T COG2909          18 PDNYVVR----PRLLDRLRR-----ANDYRLILISAPAGFGKTTLLAQWRELAADGAAVAWLSLDESDNDPARFLSYLIA   88 (894)
T ss_pred             ccccccc----HHHHHHHhc-----CCCceEEEEeCCCCCcHHHHHHHHHHhcCcccceeEeecCCccCCHHHHHHHHHH
Confidence            3445555    455555654     34589999999999999999988863211                 177777777


Q ss_pred             HhcCCCCCCC-------------CHHHHHHHHHhhc--cCcceeEEeeCCCCcCccCcch-hhhccCCCCCCcEEEEecC
Q 038234          137 ALGCETSNLG-------------SLQSLVRCISESI--EGKKYLVVLDDVWTDDYTKWEP-FQRCSANGQCGNNILVTTH  200 (406)
Q Consensus       137 ~l~~~~~~~~-------------~~~~~~~~l~~~l--~~kr~LlVlDdvw~~~~~~~~~-l~~~l~~~~~gs~IivTtR  200 (406)
                      .++...++..             +...+...+..-+  ..++.++||||.+-......+. +...+.+...+-.+++|||
T Consensus        89 al~~~~p~~~~~a~~l~q~~~~~~l~~l~~~L~~Ela~~~~pl~LVlDDyHli~~~~l~~~l~fLl~~~P~~l~lvv~SR  168 (894)
T COG2909          89 ALQQATPTLGDEAQTLLQKHQYVSLESLLSSLLNELASYEGPLYLVLDDYHLISDPALHEALRFLLKHAPENLTLVVTSR  168 (894)
T ss_pred             HHHHhCccccHHHHHHHHhcccccHHHHHHHHHHHHHhhcCceEEEeccccccCcccHHHHHHHHHHhCCCCeEEEEEec
Confidence            7775544332             2223333333322  2568999999986543333333 4444556667889999999


Q ss_pred             ChHHHHH---hccCCcccc----CCCChHHHHHhhhhhc-----------c---ccchhHHHHHHhhhhcchhhHHhhhh
Q 038234          201 KKTVARM---MESTNFISI----KELSTQECWSLFKQES-----------S---AKPCLLLQKLLGVSCALKELEMSGKN  259 (406)
Q Consensus       201 ~~~v~~~---~~~~~~~~l----~~L~~~~a~~Lf~~~~-----------i---~~~cPLai~~~g~~L~~~~~~~~w~~  259 (406)
                      ...-...   --....+++    -.|+.+|+.++|....           +   .++=+-|+..++-.++.+.+.+.-..
T Consensus       169 ~rP~l~la~lRlr~~llEi~~~~Lrf~~eE~~~fl~~~~~l~Ld~~~~~~L~~~teGW~~al~L~aLa~~~~~~~~q~~~  248 (894)
T COG2909         169 SRPQLGLARLRLRDELLEIGSEELRFDTEEAAAFLNDRGSLPLDAADLKALYDRTEGWAAALQLIALALRNNTSAEQSLR  248 (894)
T ss_pred             cCCCCcccceeehhhHHhcChHhhcCChHHHHHHHHHcCCCCCChHHHHHHHhhcccHHHHHHHHHHHccCCCcHHHHhh
Confidence            8632211   111233333    3688999999998755           1   11116777777777763333332222


Q ss_pred             hccchhhhhhhhhhhHHH-HHHhccccCChhhhhHHhhhcccCCCCccCHHHHHHHHHHCCCcccccCCCHHHHHHHHHH
Q 038234          260 SLDSELWQLQELEKDLFS-LLLLNYYDLPYRIKQCFRYCFISPKDSCIWKEDLIKLWIAQSFIEAKENKEMEIIDEEYFD  338 (406)
Q Consensus       260 ~~~~~~~~~~~~~~~~~~-~l~~sy~~L~~~~k~cfl~la~Fp~~~~i~~~~Li~~W~aeg~i~~~~~~~~e~~~~~~l~  338 (406)
                      .+...       .+.+.. ...--++.||+++|..++-+|+++.   +.. .|+..-            +-++.+...++
T Consensus       249 ~LsG~-------~~~l~dYL~eeVld~Lp~~l~~FLl~~svl~~---f~~-eL~~~L------------tg~~ng~amLe  305 (894)
T COG2909         249 GLSGA-------ASHLSDYLVEEVLDRLPPELRDFLLQTSVLSR---FND-ELCNAL------------TGEENGQAMLE  305 (894)
T ss_pred             hccch-------HHHHHHHHHHHHHhcCCHHHHHHHHHHHhHHH---hhH-HHHHHH------------hcCCcHHHHHH
Confidence            22211       111111 1234478899999999999999876   322 222221            11234556799


Q ss_pred             HHHhcCCcceeecCCCCcccEEEECHHHHHHHHHhhhc
Q 038234          339 YLTARSFFQEFHKGSDDIITECKMHDIVHDFAQFLRKN  376 (406)
Q Consensus       339 ~L~~~sll~~~~~~~~~~~~~~~mHdlv~~~~~~~~~~  376 (406)
                      +|.+++|+-..-.+ .+  ..|+.|.++.+|.+...+.
T Consensus       306 ~L~~~gLFl~~Ldd-~~--~WfryH~LFaeFL~~r~~~  340 (894)
T COG2909         306 ELERRGLFLQRLDD-EG--QWFRYHHLFAEFLRQRLQR  340 (894)
T ss_pred             HHHhCCCceeeecC-CC--ceeehhHHHHHHHHhhhcc
Confidence            99999998432222 22  3799999999999876554

>TIGR02928 orc1/cdc6 family replication initiation protein

Probab=98.98  E-value=6.3e-08  Score=94.00  Aligned_cols=273  Identities=13%  Similarity=0.089  Sum_probs=142.9

Q ss_pred             CCCceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCCh-----------------------HH
Q 038234           73 DESEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKD-----------------------FR  129 (406)
Q Consensus        73 ~~~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~-----------------------~~  129 (406)
                      .++.++||++++++|...|.....  ......+.|+|++|+|||++++.+++...                       ..
T Consensus        13 ~p~~l~gRe~e~~~l~~~l~~~~~--~~~~~~i~I~G~~GtGKT~l~~~~~~~l~~~~~~~~~~~~~v~in~~~~~~~~~   90 (365)
T TIGR02928        13 VPDRIVHRDEQIEELAKALRPILR--GSRPSNVFIYGKTGTGKTAVTKYVMKELEEAAEDRDVRVVTVYVNCQILDTLYQ   90 (365)
T ss_pred             CCCCCCCcHHHHHHHHHHHHHHHc--CCCCCcEEEECCCCCCHHHHHHHHHHHHHHHhhccCCceEEEEEECCCCCCHHH
Confidence            335799999999999999864221  23345689999999999999999986321                       15


Q ss_pred             HHHHHHHHhc---CCCCC-CCCHHHHHHHHHhhc--cCcceeEEeeCCCCcCccC---cchhhhc--cCCCC-CCcEEEE
Q 038234          130 VAKAIIAALG---CETSN-LGSLQSLVRCISESI--EGKKYLVVLDDVWTDDYTK---WEPFQRC--SANGQ-CGNNILV  197 (406)
Q Consensus       130 ~~~~i~~~l~---~~~~~-~~~~~~~~~~l~~~l--~~kr~LlVlDdvw~~~~~~---~~~l~~~--l~~~~-~gs~Iiv  197 (406)
                      ++..++.++.   ...+. ..+..++...+.+.+  .+++++||||+++.-....   ...+...  ..... ....+|.
T Consensus        91 ~~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlvIDE~d~L~~~~~~~L~~l~~~~~~~~~~~~~v~lI~  170 (365)
T TIGR02928        91 VLVELANQLRGSGEEVPTTGLSTSEVFRRLYKELNERGDSLIIVLDEIDYLVGDDDDLLYQLSRARSNGDLDNAKVGVIG  170 (365)
T ss_pred             HHHHHHHHHhhcCCCCCCCCCCHHHHHHHHHHHHHhcCCeEEEEECchhhhccCCcHHHHhHhccccccCCCCCeEEEEE
Confidence            6677777773   22211 123444555555554  3567899999996542111   1122211  11111 2234444


Q ss_pred             ecCChHHHHHhc-----c--CCccccCCCChHHHHHhhhhhcc---ccc-h-hHHHHHHhhhhc-------chhh--HHh
Q 038234          198 TTHKKTVARMME-----S--TNFISIKELSTQECWSLFKQESS---AKP-C-LLLQKLLGVSCA-------LKEL--EMS  256 (406)
Q Consensus       198 TtR~~~v~~~~~-----~--~~~~~l~~L~~~~a~~Lf~~~~i---~~~-c-PLai~~~g~~L~-------~~~~--~~~  256 (406)
                      ++........+.     .  ...+.+.+.+.++..+++..++-   ... + +-++..++....       .-..  ...
T Consensus       171 i~n~~~~~~~l~~~~~s~~~~~~i~f~p~~~~e~~~il~~r~~~~~~~~~~~~~~l~~i~~~~~~~~Gd~R~al~~l~~a  250 (365)
T TIGR02928       171 ISNDLKFRENLDPRVKSSLCEEEIIFPPYDAEELRDILENRAEKAFYDGVLDDGVIPLCAALAAQEHGDARKAIDLLRVA  250 (365)
T ss_pred             EECCcchHhhcCHHHhccCCcceeeeCCCCHHHHHHHHHHHHHhhccCCCCChhHHHHHHHHHHHhcCCHHHHHHHHHHH
Confidence            444333222111     1  24678999999999999887651   111 1 222222222111       1000  001


Q ss_pred             hhhhccchhhhh-----hh-hhhhHHHHHHhccccCChhhhhHHhhhcccC--CCCccCHHHHHHHHH--HCCCcccccC
Q 038234          257 GKNSLDSELWQL-----QE-LEKDLFSLLLLNYYDLPYRIKQCFRYCFISP--KDSCIWKEDLIKLWI--AQSFIEAKEN  326 (406)
Q Consensus       257 w~~~~~~~~~~~-----~~-~~~~~~~~l~~sy~~L~~~~k~cfl~la~Fp--~~~~i~~~~Li~~W~--aeg~i~~~~~  326 (406)
                      +...........     .. ...--.....-++..||.+.+..+..++..-  ++..+....+...+-  ++.+ . ...
T Consensus       251 ~~~a~~~~~~~it~~~v~~a~~~~~~~~~~~~i~~l~~~~~~~l~ai~~~~~~~~~~~~~~~~~~~y~~~~~~~-~-~~~  328 (365)
T TIGR02928       251 GEIAEREGAERVTEDHVEKAQEKIEKDRLLELIRGLPTHSKLVLLAIANLAANDEDPFRTGEVYEVYKEVCEDI-G-VDP  328 (365)
T ss_pred             HHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHHhc-C-CCC
Confidence            110100000000     00 0111123345567889998887766655321  333466666665332  2211 1 111


Q ss_pred             CCHHHHHHHHHHHHHhcCCcceee
Q 038234          327 KEMEIIDEEYFDYLTARSFFQEFH  350 (406)
Q Consensus       327 ~~~e~~~~~~l~~L~~~sll~~~~  350 (406)
                       -.......++..|...|||....
T Consensus       329 -~~~~~~~~~l~~l~~~gli~~~~  351 (365)
T TIGR02928       329 -LTQRRISDLLNELDMLGLVEAEE  351 (365)
T ss_pred             -CcHHHHHHHHHHHHhcCCeEEEE
Confidence             22356678899999999998654

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.

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

Probab=98.94  E-value=7e-10  Score=103.81  Aligned_cols=145  Identities=18%  Similarity=0.314  Sum_probs=95.8

Q ss_pred             ccCCCceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChHHHHHHHHHHhcCCCCCCCCHHH
Q 038234           71 FIDESEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDFRVAKAIIAALGCETSNLGSLQS  150 (406)
Q Consensus        71 ~~~~~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~~~i~~~l~~~~~~~~~~~~  150 (406)
                      ++.+.+++|-+..+.++++         ...+....+||++|+||||||+.+.......|     ..+........+...
T Consensus        26 ~vGQ~HLlg~~~~lrr~v~---------~~~l~SmIl~GPPG~GKTTlA~liA~~~~~~f-----~~~sAv~~gvkdlr~   91 (436)
T COG2256          26 VVGQEHLLGEGKPLRRAVE---------AGHLHSMILWGPPGTGKTTLARLIAGTTNAAF-----EALSAVTSGVKDLRE   91 (436)
T ss_pred             hcChHhhhCCCchHHHHHh---------cCCCceeEEECCCCCCHHHHHHHHHHhhCCce-----EEeccccccHHHHHH
Confidence            3444566666655555554         45577888999999999999999887644321     122222333344444


Q ss_pred             HHHHH-HhhccCcceeEEeeCCCCcCccCcchhhhccCCCCCCcEEEE--ecCChHH---HHHhccCCccccCCCChHHH
Q 038234          151 LVRCI-SESIEGKKYLVVLDDVWTDDYTKWEPFQRCSANGQCGNNILV--TTHKKTV---ARMMESTNFISIKELSTQEC  224 (406)
Q Consensus       151 ~~~~l-~~~l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~Iiv--TtR~~~v---~~~~~~~~~~~l~~L~~~~a  224 (406)
                      +.+.- +....|++.+|++|.|+..+..+-+.|   ||.-.+|..|+|  ||.|+..   ....+...++.+++|+.++-
T Consensus        92 i~e~a~~~~~~gr~tiLflDEIHRfnK~QQD~l---Lp~vE~G~iilIGATTENPsF~ln~ALlSR~~vf~lk~L~~~di  168 (436)
T COG2256          92 IIEEARKNRLLGRRTILFLDEIHRFNKAQQDAL---LPHVENGTIILIGATTENPSFELNPALLSRARVFELKPLSSEDI  168 (436)
T ss_pred             HHHHHHHHHhcCCceEEEEehhhhcChhhhhhh---hhhhcCCeEEEEeccCCCCCeeecHHHhhhhheeeeecCCHHHH
Confidence            44444 333458999999999987665554444   455566877776  7777532   22234578999999999999


Q ss_pred             HHhhhhhc
Q 038234          225 WSLFKQES  232 (406)
Q Consensus       225 ~~Lf~~~~  232 (406)
                      ..++.+.+
T Consensus       169 ~~~l~ra~  176 (436)
T COG2256         169 KKLLKRAL  176 (436)
T ss_pred             HHHHHHHH
Confidence            99998833

>PF05729 NACHT: NACHT domain

Probab=98.91  E-value=4.7e-09  Score=89.58  Aligned_cols=127  Identities=13%  Similarity=0.212  Sum_probs=74.4

Q ss_pred             EEEEEeeeCCCcHHHHHHHHhcCChHH-----------------H-----HHHHHHHhcCCCCCC-CCHHHHHHHHHhhc
Q 038234          103 KMISIVGMGGIGKITLAQMAYNDKDFR-----------------V-----AKAIIAALGCETSNL-GSLQSLVRCISESI  159 (406)
Q Consensus       103 ~vi~I~G~gGiGKTtLA~~v~~~~~~~-----------------~-----~~~i~~~l~~~~~~~-~~~~~~~~~l~~~l  159 (406)
                      +++.|+|.+|+||||+++.++......                 .     ...+...+....... ........  ....
T Consensus         1 r~l~I~G~~G~GKStll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~--~~~~   78 (166)
T PF05729_consen    1 RVLWISGEPGSGKSTLLRKLAQQLAEEEPPPSKFPYPFFFSLRDISDSNNSRSLADLLFDQLPESIAPIEELLQ--ELLE   78 (166)
T ss_pred             CEEEEECCCCCChHHHHHHHHHHHHhcCcccccceEEEEEeehhhhhccccchHHHHHHHhhccchhhhHHHHH--HHHH
Confidence            478999999999999998887643320                 0     001111111111110 01111111  1112


Q ss_pred             cCcceeEEeeCCCCcCccC-------cch-hhhccCC-CCCCcEEEEecCChHH---HHHhccCCccccCCCChHHHHHh
Q 038234          160 EGKKYLVVLDDVWTDDYTK-------WEP-FQRCSAN-GQCGNNILVTTHKKTV---ARMMESTNFISIKELSTQECWSL  227 (406)
Q Consensus       160 ~~kr~LlVlDdvw~~~~~~-------~~~-l~~~l~~-~~~gs~IivTtR~~~v---~~~~~~~~~~~l~~L~~~~a~~L  227 (406)
                      ..++++||||++.+.....       +.. +...++. ..++.+++||+|....   .........+.+.+|++++..++
T Consensus        79 ~~~~~llilDglDE~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~liit~r~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  158 (166)
T PF05729_consen   79 KNKRVLLILDGLDELEEQDQSQERQRLLDLLSQLLPQALPPGVKLIITSRPRAFPDLRRRLKQAQILELEPFSEEDIKQY  158 (166)
T ss_pred             cCCceEEEEechHhcccchhhhHHHHHHHHHHHHhhhccCCCCeEEEEEcCChHHHHHHhcCCCcEEEECCCCHHHHHHH
Confidence            5789999999995433211       122 2233333 3568899999998765   33344456899999999999998


Q ss_pred             hhhh
Q 038234          228 FKQE  231 (406)
Q Consensus       228 f~~~  231 (406)
                      +.+.
T Consensus       159 ~~~~  162 (166)
T PF05729_consen  159 LRKY  162 (166)
T ss_pred             HHHH
Confidence            8764

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

Probab=98.79  E-value=1e-07  Score=88.38  Aligned_cols=129  Identities=19%  Similarity=0.226  Sum_probs=79.0

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCChH----------------HHHHHHHHHhcCCCCCCCCHHHHHHHHHh----h-cc
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDKDF----------------RVAKAIIAALGCETSNLGSLQSLVRCISE----S-IE  160 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~~~----------------~~~~~i~~~l~~~~~~~~~~~~~~~~l~~----~-l~  160 (406)
                      ...+.|+|++|+|||||++.+++....                ++...+...++..... .+.......+..    . ..
T Consensus        43 ~~~~~l~G~~G~GKTtl~~~l~~~l~~~~~~~~~~~~~~~~~~~~l~~i~~~lG~~~~~-~~~~~~~~~l~~~l~~~~~~  121 (269)
T TIGR03015        43 EGFILITGEVGAGKTTLIRNLLKRLDQERVVAAKLVNTRVDAEDLLRMVAADFGLETEG-RDKAALLRELEDFLIEQFAA  121 (269)
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHhcCCCCeEEeeeeCCCCCHHHHHHHHHHHcCCCCCC-CCHHHHHHHHHHHHHHHHhC
Confidence            457899999999999999999876431                5556666666544322 222222333322    2 36


Q ss_pred             CcceeEEeeCCCCcCccCcchhhhccC---CCCCCcEEEEecCChHHHHHhc----------cCCccccCCCChHHHHHh
Q 038234          161 GKKYLVVLDDVWTDDYTKWEPFQRCSA---NGQCGNNILVTTHKKTVARMME----------STNFISIKELSTQECWSL  227 (406)
Q Consensus       161 ~kr~LlVlDdvw~~~~~~~~~l~~~l~---~~~~gs~IivTtR~~~v~~~~~----------~~~~~~l~~L~~~~a~~L  227 (406)
                      +++.+||+||+|..+...++.+.....   .......|++|.... ......          ....+.+.+|+.+|...+
T Consensus       122 ~~~~vliiDe~~~l~~~~~~~l~~l~~~~~~~~~~~~vvl~g~~~-~~~~l~~~~~~~l~~r~~~~~~l~~l~~~e~~~~  200 (269)
T TIGR03015       122 GKRALLVVDEAQNLTPELLEELRMLSNFQTDNAKLLQIFLVGQPE-FRETLQSPQLQQLRQRIIASCHLGPLDREETREY  200 (269)
T ss_pred             CCCeEEEEECcccCCHHHHHHHHHHhCcccCCCCeEEEEEcCCHH-HHHHHcCchhHHHHhheeeeeeCCCCCHHHHHHH
Confidence            788999999998766555555543222   112223445555432 222211          134578999999999888


Q ss_pred             hhhhc
Q 038234          228 FKQES  232 (406)
Q Consensus       228 f~~~~  232 (406)
                      +....
T Consensus       201 l~~~l  205 (269)
T TIGR03015       201 IEHRL  205 (269)
T ss_pred             HHHHH
Confidence            87543

Members of this protein are marked as probable ATPases by the nucleotide binding P-loop motif GXXGXGKTT, a motif DEAQ similar to the DEAD/H box of helicases, and extensive homology to ATPases of MSHA-type pilus systems and to GspA proteins associated with type II protein secretion systems.

>PF01637 Arch_ATPase: Archaeal ATPase; InterPro: IPR011579 This domain has been found in a number of bacterial and archaeal proteins, all of which contain a conserved P-loop motif that is involved in binding ATP

Probab=98.78  E-value=1.1e-08  Score=92.46  Aligned_cols=44  Identities=30%  Similarity=0.371  Sum_probs=35.8

Q ss_pred             eecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234           77 ICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus        77 ~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      |+||++++++|.+++...      ....+.|+|+.|+|||+|++.+.+..
T Consensus         1 F~gR~~el~~l~~~l~~~------~~~~~~l~G~rg~GKTsLl~~~~~~~   44 (234)
T PF01637_consen    1 FFGREKELEKLKELLESG------PSQHILLYGPRGSGKTSLLKEFINEL   44 (234)
T ss_dssp             S-S-HHHHHHHHHCHHH--------SSEEEEEESTTSSHHHHHHHHHHHC
T ss_pred             CCCHHHHHHHHHHHHHhh------cCcEEEEEcCCcCCHHHHHHHHHHHh
Confidence            789999999999988743      35688999999999999999888765

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

>PRK13342 recombination factor protein RarA; Reviewed

Probab=98.65  E-value=2.3e-08  Score=98.43  Aligned_cols=143  Identities=20%  Similarity=0.319  Sum_probs=85.4

Q ss_pred             CceecchhhHHH---HHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChHHHHHHHHHHhcCCCCCCCCHHHH
Q 038234           75 SEICGRDYKKNE---LLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDFRVAKAIIAALGCETSNLGSLQSL  151 (406)
Q Consensus        75 ~~~vGR~~~~~~---l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~~~i~~~l~~~~~~~~~~~~~  151 (406)
                      .+++|.+..+..   +.+++..      .....+.++|++|+||||||+.+++.....+.     .+........+...+
T Consensus        12 ~d~vGq~~~v~~~~~L~~~i~~------~~~~~ilL~GppGtGKTtLA~~ia~~~~~~~~-----~l~a~~~~~~~ir~i   80 (413)
T PRK13342         12 DEVVGQEHLLGPGKPLRRMIEA------GRLSSMILWGPPGTGKTTLARIIAGATDAPFE-----ALSAVTSGVKDLREV   80 (413)
T ss_pred             HHhcCcHHHhCcchHHHHHHHc------CCCceEEEECCCCCCHHHHHHHHHHHhCCCEE-----EEecccccHHHHHHH
Confidence            357888776555   6666653      33557888999999999999999875432110     011111111222333


Q ss_pred             HHHHHhh-ccCcceeEEeeCCCCcCccCcchhhhccCCCCCCcEEEE--ecCChH--H-HHHhccCCccccCCCChHHHH
Q 038234          152 VRCISES-IEGKKYLVVLDDVWTDDYTKWEPFQRCSANGQCGNNILV--TTHKKT--V-ARMMESTNFISIKELSTQECW  225 (406)
Q Consensus       152 ~~~l~~~-l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~Iiv--TtR~~~--v-~~~~~~~~~~~l~~L~~~~a~  225 (406)
                      ....... ..+++.+|+||+++.......+.+...+..   |..+++  ||.+..  + .........+.+.+++.++..
T Consensus        81 i~~~~~~~~~g~~~vL~IDEi~~l~~~~q~~LL~~le~---~~iilI~att~n~~~~l~~aL~SR~~~~~~~~ls~e~i~  157 (413)
T PRK13342         81 IEEARQRRSAGRRTILFIDEIHRFNKAQQDALLPHVED---GTITLIGATTENPSFEVNPALLSRAQVFELKPLSEEDIE  157 (413)
T ss_pred             HHHHHHhhhcCCceEEEEechhhhCHHHHHHHHHHhhc---CcEEEEEeCCCChhhhccHHHhccceeeEeCCCCHHHHH
Confidence            3333222 246788999999987655455555555443   444444  344432  1 112233578899999999999


Q ss_pred             Hhhhhh
Q 038234          226 SLFKQE  231 (406)
Q Consensus       226 ~Lf~~~  231 (406)
                      .++.+.
T Consensus       158 ~lL~~~  163 (413)
T PRK13342        158 QLLKRA  163 (413)
T ss_pred             HHHHHH
Confidence            998774

>COG3899 Predicted ATPase [General function prediction only]

Probab=98.63  E-value=3.9e-07  Score=96.85  Aligned_cols=279  Identities=15%  Similarity=0.119  Sum_probs=154.7

Q ss_pred             eecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChH-----------------------HHHHH
Q 038234           77 ICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDF-----------------------RVAKA  133 (406)
Q Consensus        77 ~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~-----------------------~~~~~  133 (406)
                      ++||+.+++.|...+..-.   .....++.+.|.+|||||+|+++|.+....                       +..++
T Consensus         2 l~GRe~ev~~Ll~~f~~v~---~g~~~~~lv~G~sGIGKsalv~ev~~~i~~~~~~~i~~~f~q~~~~ipl~~lvq~~r~   78 (849)
T COG3899           2 LYGRETELAQLLAAFDRVS---KGRGEVVLVAGESGIGKSALVNEVHKPITQQRGYFIKGKFDQFERNIPLSPLVQAFRD   78 (849)
T ss_pred             CCchHhHHHHHHHHHHHHh---CCCeEEEEEeecCCCcHHHHHHHHHHHHhccceeeeHhhcccccCCCchHHHHHHHHH
Confidence            6899999999999887654   355669999999999999999999875432                       11222


Q ss_pred             HHHHh-------------------cCCCC------------------CC----CCHH-----HHHHHHHhhc-cCcceeE
Q 038234          134 IIAAL-------------------GCETS------------------NL----GSLQ-----SLVRCISESI-EGKKYLV  166 (406)
Q Consensus       134 i~~~l-------------------~~~~~------------------~~----~~~~-----~~~~~l~~~l-~~kr~Ll  166 (406)
                      +..++                   +....                  ..    ...+     .....+.... +.|+.++
T Consensus        79 l~~~ll~~~~~~~~~~~~~il~~~g~~~~~~~~vip~L~~i~g~~~~~~el~~~~~~~r~n~~~~~~i~~~~~~~~plVi  158 (849)
T COG3899          79 LMGQLLSESDTRILSWRARLLAALGENGQVIIDVIPELELIIGKRPPALELSPTAAQNRFNLAFLRFIQVFTAEEHPLVI  158 (849)
T ss_pred             HHHHHhhccchHHHHHHHHHHHHhcccchhHHhhhHHHHhhcCCCcchhhcccchhHHHHHHHHHHHHHHHHhccCCeEE
Confidence            22222                   11100                  00    0000     1112222222 3569999


Q ss_pred             EeeCCCCcCccCcchhhhccCCCC----CCcEEEE--ecCCh--HHHHHhccCCccccCCCChHHHHHhhhhhc------
Q 038234          167 VLDDVWTDDYTKWEPFQRCSANGQ----CGNNILV--TTHKK--TVARMMESTNFISIKELSTQECWSLFKQES------  232 (406)
Q Consensus       167 VlDdvw~~~~~~~~~l~~~l~~~~----~gs~Iiv--TtR~~--~v~~~~~~~~~~~l~~L~~~~a~~Lf~~~~------  232 (406)
                      |+||+++.|..+.+.+........    ....|..  |.+..  .+-..-.....+.|.||+..+...+.....      
T Consensus       159 ~leDlhWaD~~SL~lL~~lm~~~~~~~~~~n~v~~~h~~~~~~~~~~~~~~~i~~I~L~PL~~~d~~~lV~~~l~~~~~~  238 (849)
T COG3899         159 VLEDLHWADSASLKLLQLLMDRIAIGAYRDNEVLLLHPLRPTLGEILKSATNITTITLAPLSRADTNQLVAATLGCTKLL  238 (849)
T ss_pred             EEecccccChhHHHHHHHHHHhcchhhhhccccccCCCccchhhHHhhcCCceeEEecCcCchhhHHHHHHHHhCCcccc
Confidence            999998888777666554443221    0112332  22222  111122235789999999999988887654      


Q ss_pred             -------cccc---hhHHHHHHhhhhcchh------hHHhhhhhccchhhhhhhhhhhHHHHHHhccccCChhhhhHHhh
Q 038234          233 -------SAKP---CLLLQKLLGVSCALKE------LEMSGKNSLDSELWQLQELEKDLFSLLLLNYYDLPYRIKQCFRY  296 (406)
Q Consensus       233 -------i~~~---cPLai~~~g~~L~~~~------~~~~w~~~~~~~~~~~~~~~~~~~~~l~~sy~~L~~~~k~cfl~  296 (406)
                             +..+   -|+-+..+-..+....      +...|.--...  -.......++...+..-.+.||...+..+-.
T Consensus       239 ~~p~~~~i~~kt~GnPfFi~e~lk~l~~~~~i~f~~~~~~w~~~~~~--i~~~~~~~~vv~~l~~rl~kL~~~t~~Vl~~  316 (849)
T COG3899         239 PAPLLELIFEKTKGNPFFIEEFLKALYEEGLLVFNFDTGAWQCSIAS--LGILATTDAVVEFLAARLQKLPGTTREVLKA  316 (849)
T ss_pred             cchHHHHHHHHhcCCCccHHHHHHHHHhCCeeEecCCCcceeccHHh--cCCchhhHHHHHHHHHHHhcCCHHHHHHHHH
Confidence                   1111   1444444433333221      11112111100  0111222336667899999999999999999


Q ss_pred             hcccCCCCccCHHHHHHHHHHCCCcccccCCCHHHHHHHHHHHHHhcCCcceeecCCCCc-ccE--E-EECHHHHHHHHH
Q 038234          297 CFISPKDSCIWKEDLIKLWIAQSFIEAKENKEMEIIDEEYFDYLTARSFFQEFHKGSDDI-ITE--C-KMHDIVHDFAQF  372 (406)
Q Consensus       297 la~Fp~~~~i~~~~Li~~W~aeg~i~~~~~~~~e~~~~~~l~~L~~~sll~~~~~~~~~~-~~~--~-~mHdlv~~~~~~  372 (406)
                      .|++-..  |+-+.|...+-.          .....+...++.|....++-.++....+. +..  | ..|+++++.+..
T Consensus       317 AA~iG~~--F~l~~La~l~~~----------~~~~~a~~l~~al~e~lI~~~~~~yr~~~~~~~~~Y~F~H~~vqqaaY~  384 (849)
T COG3899         317 AACIGNR--FDLDTLAALAED----------SPALEAAALLDALQEGLILPLSETYRFGSNVDIATYKFLHDRVQQAAYN  384 (849)
T ss_pred             HHHhCcc--CCHHHHHHHHhh----------chHHHHHHHHHHhHhhceeccccccccccccchhhHHhhHHHHHHHHhc
Confidence            9998655  666667666632          33445555566665555543221111111 111  2 458888877754

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

Probab=98.58  E-value=6.5e-08  Score=89.40  Aligned_cols=127  Identities=14%  Similarity=0.265  Sum_probs=83.8

Q ss_pred             CCCcEEEEEeeeCCCcHHHHHHHHhcCChHHHHHHHHHHhcCCCCCCCCHHHHHHHHHhh--ccCcceeEEeeCCCCcCc
Q 038234           99 QKPIKMISIVGMGGIGKITLAQMAYNDKDFRVAKAIIAALGCETSNLGSLQSLVRCISES--IEGKKYLVVLDDVWTDDY  176 (406)
Q Consensus        99 ~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~--l~~kr~LlVlDdvw~~~~  176 (406)
                      ......+.+||++|+||||||+.+.+..+..-..  +..+........+...+.+.-++.  +.++|.+|++|.|+..+.
T Consensus       159 q~~ipSmIlWGppG~GKTtlArlia~tsk~~Syr--fvelSAt~a~t~dvR~ife~aq~~~~l~krkTilFiDEiHRFNk  236 (554)
T KOG2028|consen  159 QNRIPSMILWGPPGTGKTTLARLIASTSKKHSYR--FVELSATNAKTNDVRDIFEQAQNEKSLTKRKTILFIDEIHRFNK  236 (554)
T ss_pred             cCCCCceEEecCCCCchHHHHHHHHhhcCCCceE--EEEEeccccchHHHHHHHHHHHHHHhhhcceeEEEeHHhhhhhh
Confidence            4557888999999999999999998765432100  011122222333444444444433  467899999999977654


Q ss_pred             cCcchhhhccCCCCCCcEEEE--ecCChH---HHHHhccCCccccCCCChHHHHHhhhh
Q 038234          177 TKWEPFQRCSANGQCGNNILV--TTHKKT---VARMMESTNFISIKELSTQECWSLFKQ  230 (406)
Q Consensus       177 ~~~~~l~~~l~~~~~gs~Iiv--TtR~~~---v~~~~~~~~~~~l~~L~~~~a~~Lf~~  230 (406)
                      .+-+.   .||.-.+|+.++|  ||.++.   .+..+....++.|++|+.++-..++.+
T Consensus       237 sQQD~---fLP~VE~G~I~lIGATTENPSFqln~aLlSRC~VfvLekL~~n~v~~iL~r  292 (554)
T KOG2028|consen  237 SQQDT---FLPHVENGDITLIGATTENPSFQLNAALLSRCRVFVLEKLPVNAVVTILMR  292 (554)
T ss_pred             hhhhc---ccceeccCceEEEecccCCCccchhHHHHhccceeEeccCCHHHHHHHHHH
Confidence            44443   4566666877765  777764   233345578999999999998888876

>PF13173 AAA_14: AAA domain

Probab=98.57  E-value=3.4e-08  Score=80.77  Aligned_cols=116  Identities=20%  Similarity=0.211  Sum_probs=70.3

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCCh--HHHHHHHHHHhcCCCC-CCCCHHHHHHHHHhhccCcceeEEeeCCCCcCccC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDKD--FRVAKAIIAALGCETS-NLGSLQSLVRCISESIEGKKYLVVLDDVWTDDYTK  178 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~~--~~~~~~i~~~l~~~~~-~~~~~~~~~~~l~~~l~~kr~LlVlDdvw~~~~~~  178 (406)
                      -+++.|.|+.|+|||||+++++++..  .++.   ...+..... ...+.+ +.+.+.+....++.+|+||+++..  ..
T Consensus         2 ~~~~~l~G~R~vGKTtll~~~~~~~~~~~~~~---yi~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~i~iDEiq~~--~~   75 (128)
T PF13173_consen    2 RKIIILTGPRGVGKTTLLKQLAKDLLPPENIL---YINFDDPRDRRLADPD-LLEYFLELIKPGKKYIFIDEIQYL--PD   75 (128)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHhcccccce---eeccCCHHHHHHhhhh-hHHHHHHhhccCCcEEEEehhhhh--cc
Confidence            35899999999999999998886643  1000   000000000 000000 233444444457889999999554  46


Q ss_pred             cchhhhccCCCCCCcEEEEecCChHHHHHh------ccCCccccCCCChHH
Q 038234          179 WEPFQRCSANGQCGNNILVTTHKKTVARMM------ESTNFISIKELSTQE  223 (406)
Q Consensus       179 ~~~l~~~l~~~~~gs~IivTtR~~~v~~~~------~~~~~~~l~~L~~~~  223 (406)
                      |......+-+..+..+|++|+........-      +....+++.||+-.|
T Consensus        76 ~~~~lk~l~d~~~~~~ii~tgS~~~~l~~~~~~~l~gr~~~~~l~Plsf~E  126 (128)
T PF13173_consen   76 WEDALKFLVDNGPNIKIILTGSSSSLLSKDIAESLAGRVIEIELYPLSFRE  126 (128)
T ss_pred             HHHHHHHHHHhccCceEEEEccchHHHhhcccccCCCeEEEEEECCCCHHH
Confidence            776655555555667999999987666431      124567888888766

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

Probab=98.54  E-value=9.4e-08  Score=83.19  Aligned_cols=48  Identities=19%  Similarity=0.274  Sum_probs=31.9

Q ss_pred             ceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234           76 EICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus        76 ~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      +|+||+++++++...|....   ....+.+.|+|.+|+|||+|.+.++...
T Consensus         1 ~fvgR~~e~~~l~~~l~~~~---~~~~~~~ll~G~~G~GKT~ll~~~~~~~   48 (185)
T PF13191_consen    1 QFVGREEEIERLRDLLDAAQ---SGSPRNLLLTGESGSGKTSLLRALLDRL   48 (185)
T ss_dssp             --TT-HHHHHHHHHTTGGTS---S-----EEE-B-TTSSHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHHH---cCCCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            48999999999999995221   4557899999999999999998776654

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

Probab=98.53  E-value=3.4e-05  Score=74.25  Aligned_cols=266  Identities=14%  Similarity=0.101  Sum_probs=144.0

Q ss_pred             CceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChH-------------------HHHHHHH
Q 038234           75 SEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDF-------------------RVAKAII  135 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~-------------------~~~~~i~  135 (406)
                      ..+.+|+++++++...|...-.  +..+.-+.|+|.+|+|||+.++.+.+....                   +++..++
T Consensus        17 ~~l~~Re~ei~~l~~~l~~~~~--~~~p~n~~iyG~~GTGKT~~~~~v~~~l~~~~~~~~~~yINc~~~~t~~~i~~~i~   94 (366)
T COG1474          17 EELPHREEEINQLASFLAPALR--GERPSNIIIYGPTGTGKTATVKFVMEELEESSANVEVVYINCLELRTPYQVLSKIL   94 (366)
T ss_pred             ccccccHHHHHHHHHHHHHHhc--CCCCccEEEECCCCCCHhHHHHHHHHHHHhhhccCceEEEeeeeCCCHHHHHHHHH
Confidence            3488999999999988765443  222334899999999999999999886543                   6778888


Q ss_pred             HHhcCCCCCCCCHHHHHHHHHhhcc--CcceeEEeeCCCCcCccCcchhhhccCCCCC-CcE--EEEecCChHHHHHhcc
Q 038234          136 AALGCETSNLGSLQSLVRCISESIE--GKKYLVVLDDVWTDDYTKWEPFQRCSANGQC-GNN--ILVTTHKKTVARMMES  210 (406)
Q Consensus       136 ~~l~~~~~~~~~~~~~~~~l~~~l~--~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~-gs~--IivTtR~~~v~~~~~~  210 (406)
                      ..++.....-....+..+.+.+.+.  ++.+++|||++..-....-+.+-..+..... .++  ||..+-+......+.+
T Consensus        95 ~~~~~~p~~g~~~~~~~~~l~~~~~~~~~~~IvvLDEid~L~~~~~~~LY~L~r~~~~~~~~v~vi~i~n~~~~~~~ld~  174 (366)
T COG1474          95 NKLGKVPLTGDSSLEILKRLYDNLSKKGKTVIVILDEVDALVDKDGEVLYSLLRAPGENKVKVSIIAVSNDDKFLDYLDP  174 (366)
T ss_pred             HHcCCCCCCCCchHHHHHHHHHHHHhcCCeEEEEEcchhhhccccchHHHHHHhhccccceeEEEEEEeccHHHHHHhhh
Confidence            8887444334555666666666654  5889999999943221111222222222111 333  3444444433333321


Q ss_pred             -------CCccccCCCChHHHHHhhhhhc---cccch------hHHHHHHhhhh----------cchhhHHhhhhh--cc
Q 038234          211 -------TNFISIKELSTQECWSLFKQES---SAKPC------LLLQKLLGVSC----------ALKELEMSGKNS--LD  262 (406)
Q Consensus       211 -------~~~~~l~~L~~~~a~~Lf~~~~---i~~~c------PLai~~~g~~L----------~~~~~~~~w~~~--~~  262 (406)
                             ...+...|-+.+|-..++..++   +...+      |++....|..=          +......+|...  ..
T Consensus       175 rv~s~l~~~~I~F~pY~a~el~~Il~~R~~~~~~~~~~~~~vl~lia~~~a~~~GDAR~aidilr~A~eiAe~~~~~~v~  254 (366)
T COG1474         175 RVKSSLGPSEIVFPPYTAEELYDILRERVEEGFSAGVIDDDVLKLIAALVAAESGDARKAIDILRRAGEIAEREGSRKVS  254 (366)
T ss_pred             hhhhccCcceeeeCCCCHHHHHHHHHHHHHhhccCCCcCccHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHhhCCCCcC
Confidence                   2336788889999888888877   22222      33333322211          100001111111  11


Q ss_pred             chhhhhhhhhhhHHHHHHhccccCChhhhhHHhhhcccCCCCccCHHHHHH--HHHHCCCcccccCCCHHHHHHHHHHHH
Q 038234          263 SELWQLQELEKDLFSLLLLNYYDLPYRIKQCFRYCFISPKDSCIWKEDLIK--LWIAQSFIEAKENKEMEIIDEEYFDYL  340 (406)
Q Consensus       263 ~~~~~~~~~~~~~~~~l~~sy~~L~~~~k~cfl~la~Fp~~~~i~~~~Li~--~W~aeg~i~~~~~~~~e~~~~~~l~~L  340 (406)
                      ...-.. ....--...+.-....||.+.|-.+.....--  ..+....+-.  .++.+.+     .. .+..-.+++++|
T Consensus       255 ~~~v~~-a~~~~~~~~~~~~~~~L~~~~ki~L~~i~~~~--~~~~~~~~y~~y~~~~~~~-----~~-~~~~~~~ii~~L  325 (366)
T COG1474         255 EDHVRE-AQEEIERDVLEEVLKTLPLHQKIVLLAIVELT--VEISTGELYDVYESLCERL-----RT-SQRRFSDIISEL  325 (366)
T ss_pred             HHHHHH-HHHHhhHHHHHHHHHcCCHhHHHHHHHHHHhc--CCCChHHHHHHHHHHHhhh-----Cc-hHHHHHHHHHHH
Confidence            100000 01111123344457888888776555443322  2244443333  2333322     11 334555778999


Q ss_pred             HhcCCcceeec
Q 038234          341 TARSFFQEFHK  351 (406)
Q Consensus       341 ~~~sll~~~~~  351 (406)
                      ...+++.....
T Consensus       326 ~~lgiv~~~~~  336 (366)
T COG1474         326 EGLGIVSASLI  336 (366)
T ss_pred             HhcCeEEeeec
Confidence            99999975443

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

Probab=98.52  E-value=1.7e-07  Score=97.40  Aligned_cols=143  Identities=21%  Similarity=0.332  Sum_probs=83.0

Q ss_pred             CceecchhhHH---HHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChHHHHHHHHHHhcCCCCCCCCHHHH
Q 038234           75 SEICGRDYKKN---ELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDFRVAKAIIAALGCETSNLGSLQSL  151 (406)
Q Consensus        75 ~~~vGR~~~~~---~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~~~i~~~l~~~~~~~~~~~~~  151 (406)
                      .+++|.+..+.   .+.+.+..      .....+.++|++|+||||||+.+++.....+.     .+........+....
T Consensus        28 dd~vGQe~ii~~~~~L~~~i~~------~~~~slLL~GPpGtGKTTLA~aIA~~~~~~f~-----~lna~~~~i~dir~~   96 (725)
T PRK13341         28 EEFVGQDHILGEGRLLRRAIKA------DRVGSLILYGPPGVGKTTLARIIANHTRAHFS-----SLNAVLAGVKDLRAE   96 (725)
T ss_pred             HHhcCcHHHhhhhHHHHHHHhc------CCCceEEEECCCCCCHHHHHHHHHHHhcCcce-----eehhhhhhhHHHHHH
Confidence            45889887764   45555542      33556789999999999999999876532211     011000111122222


Q ss_pred             HHHHHhhc--cCcceeEEeeCCCCcCccCcchhhhccCCCCCCcEEEE--ecCChH--HHH-HhccCCccccCCCChHHH
Q 038234          152 VRCISESI--EGKKYLVVLDDVWTDDYTKWEPFQRCSANGQCGNNILV--TTHKKT--VAR-MMESTNFISIKELSTQEC  224 (406)
Q Consensus       152 ~~~l~~~l--~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~Iiv--TtR~~~--v~~-~~~~~~~~~l~~L~~~~a  224 (406)
                      .....+.+  .+++.+|||||++..+....+.+...+.   .|+.+++  ||.+..  +.. ......++.+.+|+.++.
T Consensus        97 i~~a~~~l~~~~~~~IL~IDEIh~Ln~~qQdaLL~~lE---~g~IiLI~aTTenp~~~l~~aL~SR~~v~~l~pLs~edi  173 (725)
T PRK13341         97 VDRAKERLERHGKRTILFIDEVHRFNKAQQDALLPWVE---NGTITLIGATTENPYFEVNKALVSRSRLFRLKSLSDEDL  173 (725)
T ss_pred             HHHHHHHhhhcCCceEEEEeChhhCCHHHHHHHHHHhc---CceEEEEEecCCChHhhhhhHhhccccceecCCCCHHHH
Confidence            23332222  2467799999997655444555544333   3555555  344431  211 122356899999999998


Q ss_pred             HHhhhhh
Q 038234          225 WSLFKQE  231 (406)
Q Consensus       225 ~~Lf~~~  231 (406)
                      ..++.+.
T Consensus       174 ~~IL~~~  180 (725)
T PRK13341        174 HQLLKRA  180 (725)
T ss_pred             HHHHHHH
Confidence            8887653

>PTZ00112 origin recognition complex 1 protein; Provisional

Probab=98.49  E-value=8.9e-06  Score=84.10  Aligned_cols=273  Identities=11%  Similarity=0.036  Sum_probs=138.7

Q ss_pred             CCceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChH------------------------H
Q 038234           74 ESEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDF------------------------R  129 (406)
Q Consensus        74 ~~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~------------------------~  129 (406)
                      ++.+.||++++++|...|...-. +..+..++-|+|++|.|||++++.|.+....                        .
T Consensus       754 PD~LPhREeEIeeLasfL~paIk-gsgpnnvLYIyG~PGTGKTATVK~VLrELqeeaeqk~lp~f~vVYINCm~Lstp~s  832 (1164)
T PTZ00112        754 PKYLPCREKEIKEVHGFLESGIK-QSGSNQILYISGMPGTGKTATVYSVIQLLQHKTKQKLLPSFNVFEINGMNVVHPNA  832 (1164)
T ss_pred             CCcCCChHHHHHHHHHHHHHHHh-cCCCCceEEEECCCCCCHHHHHHHHHHHHHHHHhhccCCCceEEEEeCCccCCHHH
Confidence            35788999999999988865321 1233467789999999999999998654311                        4


Q ss_pred             HHHHHHHHhcCCCCC-CCCHHHHHHHHHhhc-c--CcceeEEeeCCCCcCccCcchhhhccCC-CCCCcEEEE--ecCCh
Q 038234          130 VAKAIIAALGCETSN-LGSLQSLVRCISESI-E--GKKYLVVLDDVWTDDYTKWEPFQRCSAN-GQCGNNILV--TTHKK  202 (406)
Q Consensus       130 ~~~~i~~~l~~~~~~-~~~~~~~~~~l~~~l-~--~kr~LlVlDdvw~~~~~~~~~l~~~l~~-~~~gs~Iiv--TtR~~  202 (406)
                      ++..|+.++....+. ..........+...+ .  +...+||||++..-....-+.|...+.+ ...+++|++  +|.+-
T Consensus       833 IYqvI~qqL~g~~P~~GlsS~evLerLF~~L~k~~r~v~IIILDEID~L~kK~QDVLYnLFR~~~~s~SKLiLIGISNdl  912 (1164)
T PTZ00112        833 AYQVLYKQLFNKKPPNALNSFKILDRLFNQNKKDNRNVSILIIDEIDYLITKTQKVLFTLFDWPTKINSKLVLIAISNTM  912 (1164)
T ss_pred             HHHHHHHHHcCCCCCccccHHHHHHHHHhhhhcccccceEEEeehHhhhCccHHHHHHHHHHHhhccCCeEEEEEecCch
Confidence            566677777443322 222333444444433 2  2345899999953221111122222211 123444443  33321


Q ss_pred             HHH----HHhcc---CCccccCCCChHHHHHhhhhhc-cccc-h-hHHHHHHhhhhcchh-hHHhhhhhccchh-----h
Q 038234          203 TVA----RMMES---TNFISIKELSTQECWSLFKQES-SAKP-C-LLLQKLLGVSCALKE-LEMSGKNSLDSEL-----W  266 (406)
Q Consensus       203 ~v~----~~~~~---~~~~~l~~L~~~~a~~Lf~~~~-i~~~-c-PLai~~~g~~L~~~~-~~~~w~~~~~~~~-----~  266 (406)
                      ...    ..+..   ...+...|.+.++-..++..++ .+.. + +=|+..+|...+... +...-.+++....     .
T Consensus       913 DLperLdPRLRSRLg~eeIvF~PYTaEQL~dILk~RAe~A~gVLdDdAIELIArkVAq~SGDARKALDILRrAgEikegs  992 (1164)
T PTZ00112        913 DLPERLIPRCRSRLAFGRLVFSPYKGDEIEKIIKERLENCKEIIDHTAIQLCARKVANVSGDIRKALQICRKAFENKRGQ  992 (1164)
T ss_pred             hcchhhhhhhhhccccccccCCCCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHhhhhcCCHHHHHHHHHHHHHhhcCCC
Confidence            111    11111   2346779999999999999877 2222 2 555555554333211 1111111111000     0


Q ss_pred             hh--hh----hhhhHHHHHHhccccCChhhhhHHhhhcccCC---CCccCHHHHHHHH--HHCCCcc--cccCCCHHHHH
Q 038234          267 QL--QE----LEKDLFSLLLLNYYDLPYRIKQCFRYCFISPK---DSCIWKEDLIKLW--IAQSFIE--AKENKEMEIID  333 (406)
Q Consensus       267 ~~--~~----~~~~~~~~l~~sy~~L~~~~k~cfl~la~Fp~---~~~i~~~~Li~~W--~aeg~i~--~~~~~~~e~~~  333 (406)
                      ..  ..    ...--...+.-....||.+.|-.++.+...-.   ...++...+....  +++..-.  +....+ + ..
T Consensus       993 kVT~eHVrkAleeiE~srI~e~IktLPlHqKLVLlALIlLlk~tg~~~i~TGEVYerYk~Lce~~Gk~iGv~plT-q-RV 1070 (1164)
T PTZ00112        993 KIVPRDITEATNQLFDSPLTNAINYLPWPFKMFLTCLIVELRMLNDFIIPYKKVLNRYKVLVETSGKYIGMCSNN-E-LF 1070 (1164)
T ss_pred             ccCHHHHHHHHHHHHhhhHHHHHHcCCHHHHHHHHHHHHHHhhcCCCceeHHHHHHHHHHHHHhhhhhcCCCCcH-H-HH
Confidence            00  00    00111122344556788888776664443212   2235555544432  2331100  111112 2 66


Q ss_pred             HHHHHHHHhcCCccee
Q 038234          334 EEYFDYLTARSFFQEF  349 (406)
Q Consensus       334 ~~~l~~L~~~sll~~~  349 (406)
                      .+++.+|...|+|-..
T Consensus      1071 ~d~L~eL~~LGIIl~e 1086 (1164)
T PTZ00112       1071 KIMLDKLVKMGILLIR 1086 (1164)
T ss_pred             HHHHHHHHhcCeEEec
Confidence            7889999999998643

>PRK04195 replication factor C large subunit; Provisional

Probab=98.46  E-value=1.6e-06  Score=87.22  Aligned_cols=147  Identities=22%  Similarity=0.267  Sum_probs=87.2

Q ss_pred             CceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChHHHHHHHHHHhcCCCCCCCCHHHHHHH
Q 038234           75 SEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDFRVAKAIIAALGCETSNLGSLQSLVRC  154 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~  154 (406)
                      .+++|.+..++.+.+|+.....  ....+.+.|+|++|+||||+|+.+++.....+       +.....+....+.+...
T Consensus        14 ~dlvg~~~~~~~l~~~l~~~~~--g~~~~~lLL~GppG~GKTtla~ala~el~~~~-------ielnasd~r~~~~i~~~   84 (482)
T PRK04195         14 SDVVGNEKAKEQLREWIESWLK--GKPKKALLLYGPPGVGKTSLAHALANDYGWEV-------IELNASDQRTADVIERV   84 (482)
T ss_pred             HHhcCCHHHHHHHHHHHHHHhc--CCCCCeEEEECCCCCCHHHHHHHHHHHcCCCE-------EEEcccccccHHHHHHH
Confidence            4689999999999999875421  23367899999999999999999988764210       00000111111222222


Q ss_pred             HHhh-----cc-CcceeEEeeCCCCcCc----cCcchhhhccCCCCCCcEEEEecCCh-HHHH-Hh-ccCCccccCCCCh
Q 038234          155 ISES-----IE-GKKYLVVLDDVWTDDY----TKWEPFQRCSANGQCGNNILVTTHKK-TVAR-MM-ESTNFISIKELST  221 (406)
Q Consensus       155 l~~~-----l~-~kr~LlVlDdvw~~~~----~~~~~l~~~l~~~~~gs~IivTtR~~-~v~~-~~-~~~~~~~l~~L~~  221 (406)
                      +...     +. .++-+||||+++....    .....+...+.. . +..||+|+.+. .... .+ .....+.+.+++.
T Consensus        85 i~~~~~~~sl~~~~~kvIiIDEaD~L~~~~d~~~~~aL~~~l~~-~-~~~iIli~n~~~~~~~k~Lrsr~~~I~f~~~~~  162 (482)
T PRK04195         85 AGEAATSGSLFGARRKLILLDEVDGIHGNEDRGGARAILELIKK-A-KQPIILTANDPYDPSLRELRNACLMIEFKRLST  162 (482)
T ss_pred             HHHhhccCcccCCCCeEEEEecCcccccccchhHHHHHHHHHHc-C-CCCEEEeccCccccchhhHhccceEEEecCCCH
Confidence            2111     12 3678999999965332    123445444442 2 33455555432 1111 11 2356789999999


Q ss_pred             HHHHHhhhhhc
Q 038234          222 QECWSLFKQES  232 (406)
Q Consensus       222 ~~a~~Lf~~~~  232 (406)
                      ++....+.+.+
T Consensus       163 ~~i~~~L~~i~  173 (482)
T PRK04195        163 RSIVPVLKRIC  173 (482)
T ss_pred             HHHHHHHHHHH
Confidence            99888877755

>PRK06893 DNA replication initiation factor; Validated

Probab=98.46  E-value=2.6e-07  Score=83.53  Aligned_cols=123  Identities=19%  Similarity=0.228  Sum_probs=70.9

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCChHHHHHHHHHHhcCCCCCCCCHHHHHHHHHhhccCcceeEEeeCCCCcC-ccCcc
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDKDFRVAKAIIAALGCETSNLGSLQSLVRCISESIEGKKYLVVLDDVWTDD-YTKWE  180 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdvw~~~-~~~~~  180 (406)
                      .+.+.|+|++|+|||+|++++++....+.....+...       ...+.....+.+.+. +.-+|+|||+|... ...|.
T Consensus        39 ~~~l~l~G~~G~GKThL~~ai~~~~~~~~~~~~y~~~-------~~~~~~~~~~~~~~~-~~dlLilDDi~~~~~~~~~~  110 (229)
T PRK06893         39 QPFFYIWGGKSSGKSHLLKAVSNHYLLNQRTAIYIPL-------SKSQYFSPAVLENLE-QQDLVCLDDLQAVIGNEEWE  110 (229)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHHcCCCeEEeeH-------HHhhhhhHHHHhhcc-cCCEEEEeChhhhcCChHHH
Confidence            3568999999999999999998763210000000000       000011111122222 33599999998642 23454


Q ss_pred             h-hhhccCCC-CCCcEEE-EecCC---------hHHHHHhccCCccccCCCChHHHHHhhhhhc
Q 038234          181 P-FQRCSANG-QCGNNIL-VTTHK---------KTVARMMESTNFISIKELSTQECWSLFKQES  232 (406)
Q Consensus       181 ~-l~~~l~~~-~~gs~Ii-vTtR~---------~~v~~~~~~~~~~~l~~L~~~~a~~Lf~~~~  232 (406)
                      . +...+... ..|..+| +|+..         +.+...+.....+++++++.++.++++++.+
T Consensus       111 ~~l~~l~n~~~~~~~~illits~~~p~~l~~~~~~L~sRl~~g~~~~l~~pd~e~~~~iL~~~a  174 (229)
T PRK06893        111 LAIFDLFNRIKEQGKTLLLISADCSPHALSIKLPDLASRLTWGEIYQLNDLTDEQKIIVLQRNA  174 (229)
T ss_pred             HHHHHHHHHHHHcCCcEEEEeCCCChHHccccchhHHHHHhcCCeeeCCCCCHHHHHHHHHHHH
Confidence            2 33333221 2344554 55544         4666666667899999999999999998765

>PRK12323 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.42  E-value=7.8e-06  Score=82.67  Aligned_cols=153  Identities=12%  Similarity=0.188  Sum_probs=97.1

Q ss_pred             CceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChH-----------------HHHHHHHHH
Q 038234           75 SEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDF-----------------RVAKAIIAA  137 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~-----------------~~~~~i~~~  137 (406)
                      .++||-+..++.|.+.+...     .-.+.+.++|..|+||||+|+.+.+....                 .....|...
T Consensus        16 ddVIGQe~vv~~L~~al~~g-----RLpHA~LFtGP~GvGKTTLAriLAkaLnC~~p~~~~g~~~~PCG~C~sC~~I~aG   90 (700)
T PRK12323         16 TTLVGQEHVVRALTHALEQQ-----RLHHAYLFTGTRGVGKTTLSRILAKSLNCTGADGEGGITAQPCGQCRACTEIDAG   90 (700)
T ss_pred             HHHcCcHHHHHHHHHHHHhC-----CCceEEEEECCCCCCHHHHHHHHHHHhcCCCccccccCCCCCCcccHHHHHHHcC
Confidence            46899999999999999753     33567789999999999999887654321                 111111100


Q ss_pred             h-----cCCCCCCCCHHHHHHHHHhh----ccCcceeEEeeCCCCcCccCcchhhhccCCCCCCcEEEE-ecCChHHHHH
Q 038234          138 L-----GCETSNLGSLQSLVRCISES----IEGKKYLVVLDDVWTDDYTKWEPFQRCSANGQCGNNILV-TTHKKTVARM  207 (406)
Q Consensus       138 l-----~~~~~~~~~~~~~~~~l~~~----l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~Iiv-TtR~~~v~~~  207 (406)
                      -     ..+.......+++.+.+.+.    ..++.-++|||+++..+...++.|...+-.-..++.+|+ ||....+...
T Consensus        91 ~hpDviEIdAas~~gVDdIReLie~~~~~P~~gr~KViIIDEah~Ls~~AaNALLKTLEEPP~~v~FILaTtep~kLlpT  170 (700)
T PRK12323         91 RFVDYIEMDAASNRGVDEMAQLLDKAVYAPTAGRFKVYMIDEVHMLTNHAFNAMLKTLEEPPEHVKFILATTDPQKIPVT  170 (700)
T ss_pred             CCCcceEecccccCCHHHHHHHHHHHHhchhcCCceEEEEEChHhcCHHHHHHHHHhhccCCCCceEEEEeCChHhhhhH
Confidence            0     00001112334444333332    245667999999987777777787777765445556554 5544555443


Q ss_pred             h-ccCCccccCCCChHHHHHhhhhhc
Q 038234          208 M-ESTNFISIKELSTQECWSLFKQES  232 (406)
Q Consensus       208 ~-~~~~~~~l~~L~~~~a~~Lf~~~~  232 (406)
                      + +....+.+..++.++..+.+.+.+
T Consensus       171 IrSRCq~f~f~~ls~eei~~~L~~Il  196 (700)
T PRK12323        171 VLSRCLQFNLKQMPPGHIVSHLDAIL  196 (700)
T ss_pred             HHHHHHhcccCCCChHHHHHHHHHHH
Confidence            3 336789999999999888877644

>PRK07003 DNA polymerase III subunits gamma and tau; Validated

Probab=98.41  E-value=3e-06  Score=86.74  Aligned_cols=153  Identities=10%  Similarity=0.175  Sum_probs=97.7

Q ss_pred             CceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChH------------HHHHHHHHHh----
Q 038234           75 SEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDF------------RVAKAIIAAL----  138 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~------------~~~~~i~~~l----  138 (406)
                      .++||.+..++.|.+++...     .-.+.+.++|..|+||||+|+.+.+....            .....+...-    
T Consensus        16 dEVIGQe~Vv~~L~~aL~~g-----RL~HAyLFtGPpGvGKTTlAriLAKaLnCe~~~~~~PCG~C~sCr~I~~G~h~Dv   90 (830)
T PRK07003         16 ASLVGQEHVVRALTHALDGG-----RLHHAYLFTGTRGVGKTTLSRIFAKALNCETGVTSQPCGVCRACREIDEGRFVDY   90 (830)
T ss_pred             HHHcCcHHHHHHHHHHHhcC-----CCCeEEEEECCCCCCHHHHHHHHHHHhcCccCCCCCCCcccHHHHHHhcCCCceE
Confidence            46899999999999998743     33556789999999999999877764321            1111111100    


Q ss_pred             -cCCCCCCCCHHHHHHHHHhh----ccCcceeEEeeCCCCcCccCcchhhhccCCCCCCcEEEEecCCh-HHHHH-hccC
Q 038234          139 -GCETSNLGSLQSLVRCISES----IEGKKYLVVLDDVWTDDYTKWEPFQRCSANGQCGNNILVTTHKK-TVARM-MEST  211 (406)
Q Consensus       139 -~~~~~~~~~~~~~~~~l~~~----l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTtR~~-~v~~~-~~~~  211 (406)
                       ..+.......+++...+...    ..++.-++|||+++..+...++.+...+-......++|++|.+. .+... .+..
T Consensus        91 iEIDAas~rgVDdIReLIe~a~~~P~~gr~KVIIIDEah~LT~~A~NALLKtLEEPP~~v~FILaTtd~~KIp~TIrSRC  170 (830)
T PRK07003         91 VEMDAASNRGVDEMAALLERAVYAPVDARFKVYMIDEVHMLTNHAFNAMLKTLEEPPPHVKFILATTDPQKIPVTVLSRC  170 (830)
T ss_pred             EEecccccccHHHHHHHHHHHHhccccCCceEEEEeChhhCCHHHHHHHHHHHHhcCCCeEEEEEECChhhccchhhhhe
Confidence             00001112233333333322    23455689999998777667888877776655577877777764 33322 2336


Q ss_pred             CccccCCCChHHHHHhhhhhc
Q 038234          212 NFISIKELSTQECWSLFKQES  232 (406)
Q Consensus       212 ~~~~l~~L~~~~a~~Lf~~~~  232 (406)
                      ..+.+.+++.++..+.+.+..
T Consensus       171 q~f~Fk~Ls~eeIv~~L~~Il  191 (830)
T PRK07003        171 LQFNLKQMPAGHIVSHLERIL  191 (830)
T ss_pred             EEEecCCcCHHHHHHHHHHHH
Confidence            789999999999988887754

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

Probab=98.41  E-value=8.5e-07  Score=73.48  Aligned_cols=43  Identities=30%  Similarity=0.341  Sum_probs=35.3

Q ss_pred             ecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234           78 CGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus        78 vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      +|++..+..+...+...      ..+.+.|+|.+|+|||+|++.+++..
T Consensus         1 ~~~~~~~~~i~~~~~~~------~~~~v~i~G~~G~GKT~l~~~i~~~~   43 (151)
T cd00009           1 VGQEEAIEALREALELP------PPKNLLLYGPPGTGKTTLARAIANEL   43 (151)
T ss_pred             CchHHHHHHHHHHHhCC------CCCeEEEECCCCCCHHHHHHHHHHHh
Confidence            37788888888888642      35578899999999999999998764

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.

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

Probab=98.39  E-value=6.3e-07  Score=73.33  Aligned_cols=98  Identities=17%  Similarity=0.234  Sum_probs=64.4

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCCh----------H------------HHHHHHHHHhcCCCCCCCCHHHHHHHHHhhc
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDKD----------F------------RVAKAIIAALGCETSNLGSLQSLVRCISESI  159 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~~----------~------------~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l  159 (406)
                      .+.+.|+|.+|+|||+++..+.+...          +            .+...++..++.......+...+...+.+.+
T Consensus         4 ~~~~~i~G~~G~GKT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~l~~~~~~~l   83 (131)
T PF13401_consen    4 QRILVISGPPGSGKTTLIKRLARQLNAEAEIKNHPDVIYVNCPSSRTPRDFAQEILEALGLPLKSRQTSDELRSLLIDAL   83 (131)
T ss_dssp             ---EEEEE-TTSSHHHHHHHHHHHHHHHHHHCCCEEEEEEEHHHHSSHHHHHHHHHHHHT-SSSSTS-HHHHHHHHHHHH
T ss_pred             CcccEEEcCCCCCHHHHHHHHHHHhHHhhhccCCCcEEEEEeCCCCCHHHHHHHHHHHhCccccccCCHHHHHHHHHHHH
Confidence            56889999999999999998887531          1            7788888888877666566777777777777


Q ss_pred             cCcc-eeEEeeCCCCc-CccCcchhhhccCCCCCCcEEEEecCC
Q 038234          160 EGKK-YLVVLDDVWTD-DYTKWEPFQRCSANGQCGNNILVTTHK  201 (406)
Q Consensus       160 ~~kr-~LlVlDdvw~~-~~~~~~~l~~~l~~~~~gs~IivTtR~  201 (406)
                      ...+ .+||+|+++.- +...++.+.....  ..+.++|+..+.
T Consensus        84 ~~~~~~~lviDe~~~l~~~~~l~~l~~l~~--~~~~~vvl~G~~  125 (131)
T PF13401_consen   84 DRRRVVLLVIDEADHLFSDEFLEFLRSLLN--ESNIKVVLVGTP  125 (131)
T ss_dssp             HHCTEEEEEEETTHHHHTHHHHHHHHHHTC--SCBEEEEEEESS
T ss_pred             HhcCCeEEEEeChHhcCCHHHHHHHHHHHh--CCCCeEEEEECh
Confidence            6554 59999999554 3233333433222  556677766553

>PTZ00202 tuzin; Provisional

Probab=98.37  E-value=3.6e-06  Score=80.78  Aligned_cols=154  Identities=12%  Similarity=0.167  Sum_probs=96.0

Q ss_pred             ccCCCceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChH-----------HHHHHHHHHhc
Q 038234           71 FIDESEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDF-----------RVAKAIIAALG  139 (406)
Q Consensus        71 ~~~~~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~-----------~~~~~i~~~l~  139 (406)
                      +.+.++|+||+.++..|...|....   ....+++.|+|++|+|||||++.+......           +++..++..++
T Consensus       258 Pa~~~~FVGReaEla~Lr~VL~~~d---~~~privvLtG~~G~GKTTLlR~~~~~l~~~qL~vNprg~eElLr~LL~ALG  334 (550)
T PTZ00202        258 PAVIRQFVSREAEESWVRQVLRRLD---TAHPRIVVFTGFRGCGKSSLCRSAVRKEGMPAVFVDVRGTEDTLRSVVKALG  334 (550)
T ss_pred             CCCccCCCCcHHHHHHHHHHHhccC---CCCceEEEEECCCCCCHHHHHHHHHhcCCceEEEECCCCHHHHHHHHHHHcC
Confidence            4556789999999999999887543   233569999999999999999888866543           88899999998


Q ss_pred             CCCCCC--CCHHHHHHHHHhh-cc-CcceeEEeeCCCCcCccCcchh---hhccCCCCCCcEEEEecCChHHHHHhc---
Q 038234          140 CETSNL--GSLQSLVRCISES-IE-GKKYLVVLDDVWTDDYTKWEPF---QRCSANGQCGNNILVTTHKKTVARMME---  209 (406)
Q Consensus       140 ~~~~~~--~~~~~~~~~l~~~-l~-~kr~LlVlDdvw~~~~~~~~~l---~~~l~~~~~gs~IivTtR~~~v~~~~~---  209 (406)
                      ......  +-.+.+.+.+.+. .. |++.+||+-=- +-  .++...   .-.|.+...-|.|++---.+.+....-   
T Consensus       335 V~p~~~k~dLLrqIqeaLl~~~~e~GrtPVLII~lr-eg--~~l~rvyne~v~la~drr~ch~v~evpleslt~~~~~lp  411 (550)
T PTZ00202        335 VPNVEACGDLLDFISEACRRAKKMNGETPLLVLKLR-EG--SSLQRVYNEVVALACDRRLCHVVIEVPLESLTIANTLLP  411 (550)
T ss_pred             CCCcccHHHHHHHHHHHHHHHHHhCCCCEEEEEEec-CC--CcHHHHHHHHHHHHccchhheeeeeehHhhcchhcccCc
Confidence            632221  1123333333332 12 67777777422 11  111111   012233344567777655544332211   


Q ss_pred             cCCccccCCCChHHHHHhhhh
Q 038234          210 STNFISIKELSTQECWSLFKQ  230 (406)
Q Consensus       210 ~~~~~~l~~L~~~~a~~Lf~~  230 (406)
                      ....|-+.+++.++|...-.+
T Consensus       412 rldf~~vp~fsr~qaf~y~~h  432 (550)
T PTZ00202        412 RLDFYLVPNFSRSQAFAYTQH  432 (550)
T ss_pred             cceeEecCCCCHHHHHHHHhh
Confidence            256788899999998776555

>PLN03025 replication factor C subunit; Provisional

Probab=98.36  E-value=8.9e-07  Score=84.21  Aligned_cols=150  Identities=14%  Similarity=0.117  Sum_probs=87.6

Q ss_pred             CceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChHHHHHHHHHHhcCCCCCCCCHHHHHHH
Q 038234           75 SEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDFRVAKAIIAALGCETSNLGSLQSLVRC  154 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~  154 (406)
                      .+++|.+..+..|.+++...      ....+.++|++|+||||+|..+++.............+.  ..+....+.+...
T Consensus        13 ~~~~g~~~~~~~L~~~~~~~------~~~~lll~Gp~G~GKTtla~~la~~l~~~~~~~~~~eln--~sd~~~~~~vr~~   84 (319)
T PLN03025         13 DDIVGNEDAVSRLQVIARDG------NMPNLILSGPPGTGKTTSILALAHELLGPNYKEAVLELN--ASDDRGIDVVRNK   84 (319)
T ss_pred             HHhcCcHHHHHHHHHHHhcC------CCceEEEECCCCCCHHHHHHHHHHHHhcccCccceeeec--ccccccHHHHHHH
Confidence            45789888888888777532      234477999999999999998876531100000000111  1111122223323


Q ss_pred             HHhhc-------cCcceeEEeeCCCCcCccCcchhhhccCCCCCCcEEEEecCC-hHHHHHh-ccCCccccCCCChHHHH
Q 038234          155 ISESI-------EGKKYLVVLDDVWTDDYTKWEPFQRCSANGQCGNNILVTTHK-KTVARMM-ESTNFISIKELSTQECW  225 (406)
Q Consensus       155 l~~~l-------~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTtR~-~~v~~~~-~~~~~~~l~~L~~~~a~  225 (406)
                      ++...       .++.-++|||++........+.+...+......+++|+++.. ..+...+ .....+++.+++.++..
T Consensus        85 i~~~~~~~~~~~~~~~kviiiDE~d~lt~~aq~aL~~~lE~~~~~t~~il~~n~~~~i~~~L~SRc~~i~f~~l~~~~l~  164 (319)
T PLN03025         85 IKMFAQKKVTLPPGRHKIVILDEADSMTSGAQQALRRTMEIYSNTTRFALACNTSSKIIEPIQSRCAIVRFSRLSDQEIL  164 (319)
T ss_pred             HHHHHhccccCCCCCeEEEEEechhhcCHHHHHHHHHHHhcccCCceEEEEeCCccccchhHHHhhhcccCCCCCHHHHH
Confidence            22211       245679999999766544445565555444456677766644 2222211 22467899999999988


Q ss_pred             Hhhhhhc
Q 038234          226 SLFKQES  232 (406)
Q Consensus       226 ~Lf~~~~  232 (406)
                      ..+...+
T Consensus       165 ~~L~~i~  171 (319)
T PLN03025        165 GRLMKVV  171 (319)
T ss_pred             HHHHHHH
Confidence            8887755

>PRK14961 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.35  E-value=3.4e-06  Score=81.65  Aligned_cols=153  Identities=12%  Similarity=0.188  Sum_probs=94.5

Q ss_pred             CceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChH------------HHHHHHHHHhcCC-
Q 038234           75 SEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDF------------RVAKAIIAALGCE-  141 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~------------~~~~~i~~~l~~~-  141 (406)
                      .+++|.+..++.+.+.+...     .-.+.+.++|+.|+||||+|+.+++....            .....+......+ 
T Consensus        16 ~~iiGq~~~~~~l~~~~~~~-----~~~h~~L~~Gp~G~GKTtla~~la~~l~c~~~~~~~pc~~c~~c~~~~~~~~~d~   90 (363)
T PRK14961         16 RDIIGQKHIVTAISNGLSLG-----RIHHAWLLSGTRGVGKTTIARLLAKSLNCQNGITSNPCRKCIICKEIEKGLCLDL   90 (363)
T ss_pred             hhccChHHHHHHHHHHHHcC-----CCCeEEEEecCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHHHHhcCCCCce
Confidence            46889999999999888743     23567899999999999999988765321            1111111111000 


Q ss_pred             ----CCCCCCHHHHHHHHHhh----ccCcceeEEeeCCCCcCccCcchhhhccCCCCCCcEEEEecCC-hHHHHHh-ccC
Q 038234          142 ----TSNLGSLQSLVRCISES----IEGKKYLVVLDDVWTDDYTKWEPFQRCSANGQCGNNILVTTHK-KTVARMM-EST  211 (406)
Q Consensus       142 ----~~~~~~~~~~~~~l~~~----l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTtR~-~~v~~~~-~~~  211 (406)
                          .......+++...+...    ..+++-++|+|++...+...++.+...+........+|++|.+ ..+...+ +..
T Consensus        91 ~~~~~~~~~~v~~ir~i~~~~~~~p~~~~~kviIIDEa~~l~~~a~naLLk~lEe~~~~~~fIl~t~~~~~l~~tI~SRc  170 (363)
T PRK14961         91 IEIDAASRTKVEEMREILDNIYYSPSKSRFKVYLIDEVHMLSRHSFNALLKTLEEPPQHIKFILATTDVEKIPKTILSRC  170 (363)
T ss_pred             EEecccccCCHHHHHHHHHHHhcCcccCCceEEEEEChhhcCHHHHHHHHHHHhcCCCCeEEEEEcCChHhhhHHHHhhc
Confidence                00112233322222211    2345669999999766655566777777655556667766654 3343332 335


Q ss_pred             CccccCCCChHHHHHhhhhhc
Q 038234          212 NFISIKELSTQECWSLFKQES  232 (406)
Q Consensus       212 ~~~~l~~L~~~~a~~Lf~~~~  232 (406)
                      ..+++.+++.++....+.+.+
T Consensus       171 ~~~~~~~l~~~el~~~L~~~~  191 (363)
T PRK14961        171 LQFKLKIISEEKIFNFLKYIL  191 (363)
T ss_pred             eEEeCCCCCHHHHHHHHHHHH
Confidence            788999999999888777644

>PRK12402 replication factor C small subunit 2; Reviewed

Probab=98.34  E-value=1.3e-06  Score=83.69  Aligned_cols=152  Identities=11%  Similarity=0.074  Sum_probs=85.3

Q ss_pred             CceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChH-------------HHHHHHHHHhcCC
Q 038234           75 SEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDF-------------RVAKAIIAALGCE  141 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~-------------~~~~~i~~~l~~~  141 (406)
                      ..++|++..++.+..++...      ..+.+.++|++|+||||+|+.+.+....             ++.......+...
T Consensus        15 ~~~~g~~~~~~~L~~~~~~~------~~~~lll~Gp~GtGKT~la~~~~~~l~~~~~~~~~~~i~~~~~~~~~~~~~~~~   88 (337)
T PRK12402         15 EDILGQDEVVERLSRAVDSP------NLPHLLVQGPPGSGKTAAVRALARELYGDPWENNFTEFNVADFFDQGKKYLVED   88 (337)
T ss_pred             HHhcCCHHHHHHHHHHHhCC------CCceEEEECCCCCCHHHHHHHHHHHhcCcccccceEEechhhhhhcchhhhhcC
Confidence            45889999999998888642      2345789999999999999887664321             1100000000000


Q ss_pred             CC-----------CCCCHHHHHHHHHh---h--ccCcceeEEeeCCCCcCccCcchhhhccCCCCCCcEEEEecCCh-HH
Q 038234          142 TS-----------NLGSLQSLVRCISE---S--IEGKKYLVVLDDVWTDDYTKWEPFQRCSANGQCGNNILVTTHKK-TV  204 (406)
Q Consensus       142 ~~-----------~~~~~~~~~~~l~~---~--l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTtR~~-~v  204 (406)
                      ..           .....+.+...++.   .  +.+.+-+||+||+..........+...+......+++|+|+.+. .+
T Consensus        89 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vlilDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~~~~~~  168 (337)
T PRK12402         89 PRFAHFLGTDKRIRSSKIDNFKHVLKEYASYRPLSADYKTILLDNAEALREDAQQALRRIMEQYSRTCRFIIATRQPSKL  168 (337)
T ss_pred             cchhhhhhhhhhhccchHHHHHHHHHHHHhcCCCCCCCcEEEEeCcccCCHHHHHHHHHHHHhccCCCeEEEEeCChhhC
Confidence            00           00011111111111   1  12345589999995443333344555554444456777776543 22


Q ss_pred             HHHh-ccCCccccCCCChHHHHHhhhhhc
Q 038234          205 ARMM-ESTNFISIKELSTQECWSLFKQES  232 (406)
Q Consensus       205 ~~~~-~~~~~~~l~~L~~~~a~~Lf~~~~  232 (406)
                      ...+ .....+.+.+++.++...++.+.+
T Consensus       169 ~~~L~sr~~~v~~~~~~~~~~~~~l~~~~  197 (337)
T PRK12402        169 IPPIRSRCLPLFFRAPTDDELVDVLESIA  197 (337)
T ss_pred             chhhcCCceEEEecCCCHHHHHHHHHHHH
Confidence            2222 224578889999999888887754

>PRK14960 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.34  E-value=3.7e-06  Score=85.11  Aligned_cols=153  Identities=13%  Similarity=0.163  Sum_probs=97.0

Q ss_pred             CceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChH------------HHHHHHHHHhcCC-
Q 038234           75 SEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDF------------RVAKAIIAALGCE-  141 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~------------~~~~~i~~~l~~~-  141 (406)
                      .+++|.+..++.|.+++...     .-.+.+.++|+.|+||||+|+.+++....            ...+.+...-..+ 
T Consensus        15 ddVIGQe~vv~~L~~aI~~g-----rl~HAyLF~GPpGvGKTTlAriLAK~LnC~~~~~~~pCg~C~sC~~I~~g~hpDv   89 (702)
T PRK14960         15 NELVGQNHVSRALSSALERG-----RLHHAYLFTGTRGVGKTTIARILAKCLNCETGVTSTPCEVCATCKAVNEGRFIDL   89 (702)
T ss_pred             HHhcCcHHHHHHHHHHHHcC-----CCCeEEEEECCCCCCHHHHHHHHHHHhCCCcCCCCCCCccCHHHHHHhcCCCCce
Confidence            46899999999999999753     33568899999999999999988765321            1111111000000 


Q ss_pred             ----CCCCCCHHHHHHHHHhh----ccCcceeEEeeCCCCcCccCcchhhhccCCCCCCcEEEEecCCh-HHH-HHhccC
Q 038234          142 ----TSNLGSLQSLVRCISES----IEGKKYLVVLDDVWTDDYTKWEPFQRCSANGQCGNNILVTTHKK-TVA-RMMEST  211 (406)
Q Consensus       142 ----~~~~~~~~~~~~~l~~~----l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTtR~~-~v~-~~~~~~  211 (406)
                          .......+++...+...    ..++.-++|+|+++..+....+.+...+.....+..+|++|.+. .+. ......
T Consensus        90 iEIDAAs~~~VddIReli~~~~y~P~~gk~KV~IIDEVh~LS~~A~NALLKtLEEPP~~v~FILaTtd~~kIp~TIlSRC  169 (702)
T PRK14960         90 IEIDAASRTKVEDTRELLDNVPYAPTQGRFKVYLIDEVHMLSTHSFNALLKTLEEPPEHVKFLFATTDPQKLPITVISRC  169 (702)
T ss_pred             EEecccccCCHHHHHHHHHHHhhhhhcCCcEEEEEechHhcCHHHHHHHHHHHhcCCCCcEEEEEECChHhhhHHHHHhh
Confidence                01112333333322221    23566799999997766566677777776555566777776653 232 222446


Q ss_pred             CccccCCCChHHHHHhhhhhc
Q 038234          212 NFISIKELSTQECWSLFKQES  232 (406)
Q Consensus       212 ~~~~l~~L~~~~a~~Lf~~~~  232 (406)
                      ..+++.+++.++....+.+.+
T Consensus       170 q~feFkpLs~eEI~k~L~~Il  190 (702)
T PRK14960        170 LQFTLRPLAVDEITKHLGAIL  190 (702)
T ss_pred             heeeccCCCHHHHHHHHHHHH
Confidence            789999999999888877654

>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda

Probab=98.32  E-value=2.7e-06  Score=76.67  Aligned_cols=135  Identities=21%  Similarity=0.212  Sum_probs=74.2

Q ss_pred             chhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChHHHHHHHHHHhcCCCCCCCCHHHHH---HHHH
Q 038234           80 RDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDFRVAKAIIAALGCETSNLGSLQSLV---RCIS  156 (406)
Q Consensus        80 R~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~---~~l~  156 (406)
                      ....++.+.+++..      .....+.|+|++|+|||+||+.+++.....         +.. .-..+...+.   ..+.
T Consensus        22 ~~~~~~~l~~~~~~------~~~~~lll~G~~G~GKT~la~~~~~~~~~~---------~~~-~~~i~~~~~~~~~~~~~   85 (226)
T TIGR03420        22 NAELLAALRQLAAG------KGDRFLYLWGESGSGKSHLLQAACAAAEER---------GKS-AIYLPLAELAQADPEVL   85 (226)
T ss_pred             cHHHHHHHHHHHhc------CCCCeEEEECCCCCCHHHHHHHHHHHHHhc---------CCc-EEEEeHHHHHHhHHHHH
Confidence            34466667766542      335688999999999999999987653210         000 0000001110   1111


Q ss_pred             hhccCcceeEEeeCCCCcCcc-Cc-chhhhccCC-CCCCcEEEEecCChH---------HHHHhccCCccccCCCChHHH
Q 038234          157 ESIEGKKYLVVLDDVWTDDYT-KW-EPFQRCSAN-GQCGNNILVTTHKKT---------VARMMESTNFISIKELSTQEC  224 (406)
Q Consensus       157 ~~l~~kr~LlVlDdvw~~~~~-~~-~~l~~~l~~-~~~gs~IivTtR~~~---------v~~~~~~~~~~~l~~L~~~~a  224 (406)
                      ..+.+ .-+|||||++.-... .| ..+...+.. ...+..+|+||+...         +...+.....+++.+++.++.
T Consensus        86 ~~~~~-~~lLvIDdi~~l~~~~~~~~~L~~~l~~~~~~~~~iIits~~~~~~~~~~~~~L~~r~~~~~~i~l~~l~~~e~  164 (226)
T TIGR03420        86 EGLEQ-ADLVCLDDVEAIAGQPEWQEALFHLYNRVREAGGRLLIAGRAAPAQLPLRLPDLRTRLAWGLVFQLPPLSDEEK  164 (226)
T ss_pred             hhccc-CCEEEEeChhhhcCChHHHHHHHHHHHHHHHcCCeEEEECCCChHHCCcccHHHHHHHhcCeeEecCCCCHHHH
Confidence            22222 348999999654322 22 234433322 122447888887532         222222346789999999888


Q ss_pred             HHhhhhh
Q 038234          225 WSLFKQE  231 (406)
Q Consensus       225 ~~Lf~~~  231 (406)
                      ..++...
T Consensus       165 ~~~l~~~  171 (226)
T TIGR03420       165 IAALQSR  171 (226)
T ss_pred             HHHHHHH
Confidence            8877653

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.

>TIGR01242 26Sp45 26S proteasome subunit P45 family

Probab=98.31  E-value=4.5e-07  Score=87.88  Aligned_cols=156  Identities=11%  Similarity=0.104  Sum_probs=84.9

Q ss_pred             CceecchhhHHHHHHHHhcCCCC-------CCCCcEEEEEeeeCCCcHHHHHHHHhcCChHHHHHHHHHHhcCCCCCCCC
Q 038234           75 SEICGRDYKKNELLSKLLSDSSD-------QQKPIKMISIVGMGGIGKITLAQMAYNDKDFRVAKAIIAALGCETSNLGS  147 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~-------~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~~~i~~~l~~~~~~~~~  147 (406)
                      .++.|+++.++++.+.+......       +-...+-+.++|++|+|||+||+++++.....+.......+...... ..
T Consensus       122 ~di~Gl~~~~~~l~~~i~~~~~~~~~~~~~g~~~p~gvLL~GppGtGKT~lakaia~~l~~~~~~v~~~~l~~~~~g-~~  200 (364)
T TIGR01242       122 EDIGGLEEQIREIREAVELPLKHPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETNATFIRVVGSELVRKYIG-EG  200 (364)
T ss_pred             HHhCChHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhCCCCEEecchHHHHHHhhh-HH
Confidence            46789999999998877432110       11335668999999999999999998866532111111111000000 01


Q ss_pred             HHHHHHHHHhhccCcceeEEeeCCCCcCc-----------c---CcchhhhccCC--CCCCcEEEEecCChHHHH-Hh--
Q 038234          148 LQSLVRCISESIEGKKYLVVLDDVWTDDY-----------T---KWEPFQRCSAN--GQCGNNILVTTHKKTVAR-MM--  208 (406)
Q Consensus       148 ~~~~~~~l~~~l~~kr~LlVlDdvw~~~~-----------~---~~~~l~~~l~~--~~~gs~IivTtR~~~v~~-~~--  208 (406)
                      ...+...+...-...+.+|+||+++.-..           .   .+..+...+..  ...+..||.||....... .+  
T Consensus       201 ~~~i~~~f~~a~~~~p~il~iDEiD~l~~~~~~~~~~~~~~~~~~l~~ll~~ld~~~~~~~v~vI~ttn~~~~ld~al~r  280 (364)
T TIGR01242       201 ARLVREIFELAKEKAPSIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQLLAELDGFDPRGNVKVIAATNRPDILDPALLR  280 (364)
T ss_pred             HHHHHHHHHHHHhcCCcEEEhhhhhhhccccccCCCCccHHHHHHHHHHHHHhhCCCCCCCEEEEEecCChhhCChhhcC
Confidence            11122222222235678999999854210           0   01112111221  123567888887543211 11  


Q ss_pred             --ccCCccccCCCChHHHHHhhhhh
Q 038234          209 --ESTNFISIKELSTQECWSLFKQE  231 (406)
Q Consensus       209 --~~~~~~~l~~L~~~~a~~Lf~~~  231 (406)
                        .-...+.+...+.++..++|...
T Consensus       281 ~grfd~~i~v~~P~~~~r~~Il~~~  305 (364)
T TIGR01242       281 PGRFDRIIEVPLPDFEGRLEILKIH  305 (364)
T ss_pred             cccCceEEEeCCcCHHHHHHHHHHH
Confidence              12457889999999998888764

Many proteins may score above the trusted cutoff because an internal

>PRK06645 DNA polymerase III subunits gamma and tau; Validated

Probab=98.26  E-value=5.9e-06  Score=82.58  Aligned_cols=153  Identities=16%  Similarity=0.221  Sum_probs=97.5

Q ss_pred             CceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChH----------------HHHHHHHHHh
Q 038234           75 SEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDF----------------RVAKAIIAAL  138 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~----------------~~~~~i~~~l  138 (406)
                      .+++|-+..+..|...+...     .-.+.+.++|+.|+||||+|+.+++....                .....+....
T Consensus        21 ~dliGq~~vv~~L~~ai~~~-----ri~~a~Lf~Gp~G~GKTT~ArilAk~Lnc~~~~~~~~~~~~C~~C~~C~~i~~~~   95 (507)
T PRK06645         21 AELQGQEVLVKVLSYTILND-----RLAGGYLLTGIRGVGKTTSARIIAKAVNCSALITENTTIKTCEQCTNCISFNNHN   95 (507)
T ss_pred             HHhcCcHHHHHHHHHHHHcC-----CCCceEEEECCCCCCHHHHHHHHHHHhcCccccccCcCcCCCCCChHHHHHhcCC
Confidence            35789999888888877643     33567899999999999999998765321                0111111100


Q ss_pred             cCC-----CCCCCCHHHHHHHHHhh----ccCcceeEEeeCCCCcCccCcchhhhccCCCCCCcEEE-EecCChHHHHHh
Q 038234          139 GCE-----TSNLGSLQSLVRCISES----IEGKKYLVVLDDVWTDDYTKWEPFQRCSANGQCGNNIL-VTTHKKTVARMM  208 (406)
Q Consensus       139 ~~~-----~~~~~~~~~~~~~l~~~----l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~Ii-vTtR~~~v~~~~  208 (406)
                      ...     .......+++...+...    +.+++-++|+|+++..+...++.+...+......+.+| +||+.+.+...+
T Consensus        96 h~Dv~eidaas~~~vd~Ir~iie~a~~~P~~~~~KVvIIDEa~~Ls~~a~naLLk~LEepp~~~vfI~aTte~~kI~~tI  175 (507)
T PRK06645         96 HPDIIEIDAASKTSVDDIRRIIESAEYKPLQGKHKIFIIDEVHMLSKGAFNALLKTLEEPPPHIIFIFATTEVQKIPATI  175 (507)
T ss_pred             CCcEEEeeccCCCCHHHHHHHHHHHHhccccCCcEEEEEEChhhcCHHHHHHHHHHHhhcCCCEEEEEEeCChHHhhHHH
Confidence            000     00112333333333222    34677799999998776667788877776655566655 455555655544


Q ss_pred             c-cCCccccCCCChHHHHHhhhhhc
Q 038234          209 E-STNFISIKELSTQECWSLFKQES  232 (406)
Q Consensus       209 ~-~~~~~~l~~L~~~~a~~Lf~~~~  232 (406)
                      . ....+++.+++.++....+.+.+
T Consensus       176 ~SRc~~~ef~~ls~~el~~~L~~i~  200 (507)
T PRK06645        176 ISRCQRYDLRRLSFEEIFKLLEYIT  200 (507)
T ss_pred             HhcceEEEccCCCHHHHHHHHHHHH
Confidence            3 35678999999999988887655

>PRK08691 DNA polymerase III subunits gamma and tau; Validated

Probab=98.25  E-value=7.5e-06  Score=83.62  Aligned_cols=153  Identities=12%  Similarity=0.210  Sum_probs=92.3

Q ss_pred             CceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChH------------HHHHHHHHH-----
Q 038234           75 SEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDF------------RVAKAIIAA-----  137 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~------------~~~~~i~~~-----  137 (406)
                      .+++|.+..+..|.+++...     .-.+.+.++|..|+||||+|+.+.+....            .....+...     
T Consensus        16 ddIIGQe~vv~~L~~ai~~~-----rl~Ha~Lf~GP~GvGKTTlAriLAk~LnC~~~~~~~pCg~C~sCr~i~~g~~~Dv   90 (709)
T PRK08691         16 ADLVGQEHVVKALQNALDEG-----RLHHAYLLTGTRGVGKTTIARILAKSLNCENAQHGEPCGVCQSCTQIDAGRYVDL   90 (709)
T ss_pred             HHHcCcHHHHHHHHHHHHcC-----CCCeEEEEECCCCCcHHHHHHHHHHHhcccCCCCCCCCcccHHHHHHhccCccce
Confidence            46899999999999998753     33567899999999999999988764321            111111100     


Q ss_pred             hcCCCCCCCCHHHHHHHHHhh----ccCcceeEEeeCCCCcCccCcchhhhccCCCCCCcEEEEecCCh-HHHHH-hccC
Q 038234          138 LGCETSNLGSLQSLVRCISES----IEGKKYLVVLDDVWTDDYTKWEPFQRCSANGQCGNNILVTTHKK-TVARM-MEST  211 (406)
Q Consensus       138 l~~~~~~~~~~~~~~~~l~~~----l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTtR~~-~v~~~-~~~~  211 (406)
                      +..........+.+...+...    ..+++-++|||++...+....+.+...+......+++|++|.+. .+... .+..
T Consensus        91 lEidaAs~~gVd~IRelle~a~~~P~~gk~KVIIIDEad~Ls~~A~NALLKtLEEPp~~v~fILaTtd~~kL~~TIrSRC  170 (709)
T PRK08691         91 LEIDAASNTGIDNIREVLENAQYAPTAGKYKVYIIDEVHMLSKSAFNAMLKTLEEPPEHVKFILATTDPHKVPVTVLSRC  170 (709)
T ss_pred             EEEeccccCCHHHHHHHHHHHHhhhhhCCcEEEEEECccccCHHHHHHHHHHHHhCCCCcEEEEEeCCccccchHHHHHH
Confidence            000001112233333332221    23566799999996555444555666665444456677666543 22222 2335


Q ss_pred             CccccCCCChHHHHHhhhhhc
Q 038234          212 NFISIKELSTQECWSLFKQES  232 (406)
Q Consensus       212 ~~~~l~~L~~~~a~~Lf~~~~  232 (406)
                      ..+.+.+++.++....+.+.+
T Consensus       171 ~~f~f~~Ls~eeI~~~L~~Il  191 (709)
T PRK08691        171 LQFVLRNMTAQQVADHLAHVL  191 (709)
T ss_pred             hhhhcCCCCHHHHHHHHHHHH
Confidence            678888999999888887655

>PRK00440 rfc replication factor C small subunit; Reviewed

Probab=98.25  E-value=1.7e-06  Score=82.18  Aligned_cols=150  Identities=13%  Similarity=0.092  Sum_probs=86.2

Q ss_pred             CceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChHHHHHHHHHHhcCCCCCCCCHHHHHHH
Q 038234           75 SEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDFRVAKAIIAALGCETSNLGSLQSLVRC  154 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~  154 (406)
                      .+++|++..++.+.+++...      ..+.+.++|.+|+||||+|+.+++.............+..  ......+.+...
T Consensus        17 ~~~~g~~~~~~~l~~~i~~~------~~~~~ll~G~~G~GKt~~~~~l~~~l~~~~~~~~~i~~~~--~~~~~~~~~~~~   88 (319)
T PRK00440         17 DEIVGQEEIVERLKSYVKEK------NMPHLLFAGPPGTGKTTAALALARELYGEDWRENFLELNA--SDERGIDVIRNK   88 (319)
T ss_pred             HHhcCcHHHHHHHHHHHhCC------CCCeEEEECCCCCCHHHHHHHHHHHHcCCccccceEEecc--ccccchHHHHHH
Confidence            45889999999999988643      2335799999999999999988765311000000000100  011111212222


Q ss_pred             HHhh-----cc-CcceeEEeeCCCCcCccCcchhhhccCCCCCCcEEEEecCC-hHHHHH-hccCCccccCCCChHHHHH
Q 038234          155 ISES-----IE-GKKYLVVLDDVWTDDYTKWEPFQRCSANGQCGNNILVTTHK-KTVARM-MESTNFISIKELSTQECWS  226 (406)
Q Consensus       155 l~~~-----l~-~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTtR~-~~v~~~-~~~~~~~~l~~L~~~~a~~  226 (406)
                      +.+.     .. ..+-++++|++..........+...+......+.+|+++.. ..+... ......+++.+++.++...
T Consensus        89 i~~~~~~~~~~~~~~~vviiDe~~~l~~~~~~~L~~~le~~~~~~~lIl~~~~~~~l~~~l~sr~~~~~~~~l~~~ei~~  168 (319)
T PRK00440         89 IKEFARTAPVGGAPFKIIFLDEADNLTSDAQQALRRTMEMYSQNTRFILSCNYSSKIIDPIQSRCAVFRFSPLKKEAVAE  168 (319)
T ss_pred             HHHHHhcCCCCCCCceEEEEeCcccCCHHHHHHHHHHHhcCCCCCeEEEEeCCccccchhHHHHhheeeeCCCCHHHHHH
Confidence            2222     11 34568999998544333344565555544455677776643 222221 1224568999999999888


Q ss_pred             hhhhhc
Q 038234          227 LFKQES  232 (406)
Q Consensus       227 Lf~~~~  232 (406)
                      .+...+
T Consensus       169 ~l~~~~  174 (319)
T PRK00440        169 RLRYIA  174 (319)
T ss_pred             HHHHHH
Confidence            777655

>PRK09087 hypothetical protein; Validated

Probab=98.24  E-value=4e-06  Score=75.40  Aligned_cols=113  Identities=13%  Similarity=0.120  Sum_probs=68.0

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCChHHHHHHHHHHhcCCCCCCCCHHHHHHHHHhhccCcceeEEeeCCCCcCccCcch
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDKDFRVAKAIIAALGCETSNLGSLQSLVRCISESIEGKKYLVVLDDVWTDDYTKWEP  181 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdvw~~~~~~~~~  181 (406)
                      .+.+.|+|.+|+|||+|++.+++.....+.               +.......+...+.+  -+|++||+.... ..-..
T Consensus        44 ~~~l~l~G~~GsGKThLl~~~~~~~~~~~i---------------~~~~~~~~~~~~~~~--~~l~iDDi~~~~-~~~~~  105 (226)
T PRK09087         44 SPVVVLAGPVGSGKTHLASIWREKSDALLI---------------HPNEIGSDAANAAAE--GPVLIEDIDAGG-FDETG  105 (226)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHhcCCEEe---------------cHHHcchHHHHhhhc--CeEEEECCCCCC-CCHHH
Confidence            456899999999999999988765432100               000111111111111  378899995321 11122


Q ss_pred             hhhccCC-CCCCcEEEEecCC---------hHHHHHhccCCccccCCCChHHHHHhhhhhc
Q 038234          182 FQRCSAN-GQCGNNILVTTHK---------KTVARMMESTNFISIKELSTQECWSLFKQES  232 (406)
Q Consensus       182 l~~~l~~-~~~gs~IivTtR~---------~~v~~~~~~~~~~~l~~L~~~~a~~Lf~~~~  232 (406)
                      +...+.. ...|..||+|++.         +.+...+....++++++++.++-.+++++.+
T Consensus       106 lf~l~n~~~~~g~~ilits~~~p~~~~~~~~dL~SRl~~gl~~~l~~pd~e~~~~iL~~~~  166 (226)
T PRK09087        106 LFHLINSVRQAGTSLLMTSRLWPSSWNVKLPDLKSRLKAATVVEIGEPDDALLSQVIFKLF  166 (226)
T ss_pred             HHHHHHHHHhCCCeEEEECCCChHHhccccccHHHHHhCCceeecCCCCHHHHHHHHHHHH
Confidence            3332321 1336678888873         3455555667899999999999999988755

>PRK14949 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.24  E-value=1e-05  Score=84.50  Aligned_cols=153  Identities=12%  Similarity=0.196  Sum_probs=97.1

Q ss_pred             CceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChHH------------HHHHHHHH-----
Q 038234           75 SEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDFR------------VAKAIIAA-----  137 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~------------~~~~i~~~-----  137 (406)
                      .+++|.+..+..|.+++...     .-.+.+.++|+.|+||||+|+.+++.....            ....+...     
T Consensus        16 ddIIGQe~Iv~~LknaI~~~-----rl~HAyLFtGPpGtGKTTLARiLAk~Lnce~~~~~~pCg~C~sC~~i~~g~~~Dv   90 (944)
T PRK14949         16 EQMVGQSHVLHALTNALTQQ-----RLHHAYLFTGTRGVGKTSLARLFAKGLNCEQGVTATPCGVCSSCVEIAQGRFVDL   90 (944)
T ss_pred             HHhcCcHHHHHHHHHHHHhC-----CCCeEEEEECCCCCCHHHHHHHHHHhccCccCCCCCCCCCchHHHHHhcCCCceE
Confidence            46899999999999988743     235566899999999999999988764321            00111110     


Q ss_pred             --hcCC-CCCCCCHHHHHHHHHh-hccCcceeEEeeCCCCcCccCcchhhhccCCCCCCcEEEEecCC-hHHHHH-hccC
Q 038234          138 --LGCE-TSNLGSLQSLVRCISE-SIEGKKYLVVLDDVWTDDYTKWEPFQRCSANGQCGNNILVTTHK-KTVARM-MEST  211 (406)
Q Consensus       138 --l~~~-~~~~~~~~~~~~~l~~-~l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTtR~-~~v~~~-~~~~  211 (406)
                        +... ....+...++...+.. ...+++-++|||+++..+....+.|...+-......++|++|.+ ..+... ....
T Consensus        91 iEidAas~~kVDdIReLie~v~~~P~~gk~KViIIDEAh~LT~eAqNALLKtLEEPP~~vrFILaTTe~~kLl~TIlSRC  170 (944)
T PRK14949         91 IEVDAASRTKVDDTRELLDNVQYRPSRGRFKVYLIDEVHMLSRSSFNALLKTLEEPPEHVKFLLATTDPQKLPVTVLSRC  170 (944)
T ss_pred             EEeccccccCHHHHHHHHHHHHhhhhcCCcEEEEEechHhcCHHHHHHHHHHHhccCCCeEEEEECCCchhchHHHHHhh
Confidence              0000 0111122333333221 12467779999999877767777777777655556666655544 444433 2346


Q ss_pred             CccccCCCChHHHHHhhhhhc
Q 038234          212 NFISIKELSTQECWSLFKQES  232 (406)
Q Consensus       212 ~~~~l~~L~~~~a~~Lf~~~~  232 (406)
                      ..|.+.+|+.++....+.+.+
T Consensus       171 q~f~fkpLs~eEI~~~L~~il  191 (944)
T PRK14949        171 LQFNLKSLTQDEIGTQLNHIL  191 (944)
T ss_pred             eEEeCCCCCHHHHHHHHHHHH
Confidence            789999999999988887744

>PRK14963 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.23  E-value=1.3e-06  Score=87.47  Aligned_cols=153  Identities=14%  Similarity=0.195  Sum_probs=93.3

Q ss_pred             CceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChH-----------HHHHHHHHHhcCC--
Q 038234           75 SEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDF-----------RVAKAIIAALGCE--  141 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~-----------~~~~~i~~~l~~~--  141 (406)
                      .+++|.+..++.|.+++...     .-.+.+.++|++|+||||+|+.+++....           .-...+.......  
T Consensus        14 ~dvvGq~~v~~~L~~~i~~~-----~l~ha~Lf~GppGtGKTTlA~~lA~~l~c~~~~~~~cg~C~sc~~i~~~~h~dv~   88 (504)
T PRK14963         14 DEVVGQEHVKEVLLAALRQG-----RLGHAYLFSGPRGVGKTTTARLIAMAVNCSGEDPKPCGECESCLAVRRGAHPDVL   88 (504)
T ss_pred             HHhcChHHHHHHHHHHHHcC-----CCCeEEEEECCCCCCHHHHHHHHHHHHhccCCCCCCCCcChhhHHHhcCCCCceE
Confidence            45899998888888888753     23567799999999999999888765321           0000110000000  


Q ss_pred             ---CCCCCCHHH---HHHHHHh-hccCcceeEEeeCCCCcCccCcchhhhccCCCCCCcEEEEecCC-hHHHHHh-ccCC
Q 038234          142 ---TSNLGSLQS---LVRCISE-SIEGKKYLVVLDDVWTDDYTKWEPFQRCSANGQCGNNILVTTHK-KTVARMM-ESTN  212 (406)
Q Consensus       142 ---~~~~~~~~~---~~~~l~~-~l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTtR~-~~v~~~~-~~~~  212 (406)
                         .......+.   +...+.. -..+++-++|+|+++......++.+...+......+.+|++|.. ..+...+ ....
T Consensus        89 el~~~~~~~vd~iR~l~~~~~~~p~~~~~kVVIIDEad~ls~~a~naLLk~LEep~~~t~~Il~t~~~~kl~~~I~SRc~  168 (504)
T PRK14963         89 EIDAASNNSVEDVRDLREKVLLAPLRGGRKVYILDEAHMMSKSAFNALLKTLEEPPEHVIFILATTEPEKMPPTILSRTQ  168 (504)
T ss_pred             EecccccCCHHHHHHHHHHHhhccccCCCeEEEEECccccCHHHHHHHHHHHHhCCCCEEEEEEcCChhhCChHHhcceE
Confidence               001112222   2222222 12356679999999766655677777777655455555555543 3333332 2356


Q ss_pred             ccccCCCChHHHHHhhhhhc
Q 038234          213 FISIKELSTQECWSLFKQES  232 (406)
Q Consensus       213 ~~~l~~L~~~~a~~Lf~~~~  232 (406)
                      .+++.+++.++....+.+.+
T Consensus       169 ~~~f~~ls~~el~~~L~~i~  188 (504)
T PRK14963        169 HFRFRRLTEEEIAGKLRRLL  188 (504)
T ss_pred             EEEecCCCHHHHHHHHHHHH
Confidence            89999999999999887755

>PRK14956 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.22  E-value=2.4e-06  Score=83.96  Aligned_cols=153  Identities=13%  Similarity=0.161  Sum_probs=94.5

Q ss_pred             CceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChH------------HHHHHHHHHhcCCC
Q 038234           75 SEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDF------------RVAKAIIAALGCET  142 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~------------~~~~~i~~~l~~~~  142 (406)
                      .+++|.+..+..|..++...     .-.+.+.++|+.|+||||+|+.+++....            .....+......+.
T Consensus        18 ~dvVGQe~iv~~L~~~i~~~-----ri~ha~Lf~GP~GtGKTTlAriLAk~Lnce~~~~~~pCg~C~sC~~i~~g~~~dv   92 (484)
T PRK14956         18 RDVIHQDLAIGALQNALKSG-----KIGHAYIFFGPRGVGKTTIARILAKRLNCENPIGNEPCNECTSCLEITKGISSDV   92 (484)
T ss_pred             HHHhChHHHHHHHHHHHHcC-----CCCeEEEEECCCCCCHHHHHHHHHHhcCcccccCccccCCCcHHHHHHccCCccc
Confidence            45899998999999888753     22456899999999999999998775432            11111111111111


Q ss_pred             C-----C---CCCHHHHHHHHHhh-ccCcceeEEeeCCCCcCccCcchhhhccCCCCCCcEEE-EecCChHHHHHh-ccC
Q 038234          143 S-----N---LGSLQSLVRCISES-IEGKKYLVVLDDVWTDDYTKWEPFQRCSANGQCGNNIL-VTTHKKTVARMM-EST  211 (406)
Q Consensus       143 ~-----~---~~~~~~~~~~l~~~-l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~Ii-vTtR~~~v~~~~-~~~  211 (406)
                      .     .   .++..++...+... ..++.-++|+|+++..+...++.+...+........+| .||....+...+ ...
T Consensus        93 iEIdaas~~gVd~IReL~e~l~~~p~~g~~KV~IIDEah~Ls~~A~NALLKtLEEPp~~viFILaTte~~kI~~TI~SRC  172 (484)
T PRK14956         93 LEIDAASNRGIENIRELRDNVKFAPMGGKYKVYIIDEVHMLTDQSFNALLKTLEEPPAHIVFILATTEFHKIPETILSRC  172 (484)
T ss_pred             eeechhhcccHHHHHHHHHHHHhhhhcCCCEEEEEechhhcCHHHHHHHHHHhhcCCCceEEEeecCChhhccHHHHhhh
Confidence            0     1   11222233332221 24566799999998777667777777775544455555 454444443333 335


Q ss_pred             CccccCCCChHHHHHhhhhhc
Q 038234          212 NFISIKELSTQECWSLFKQES  232 (406)
Q Consensus       212 ~~~~l~~L~~~~a~~Lf~~~~  232 (406)
                      ..|.+.+++.++....+.+.+
T Consensus       173 q~~~f~~ls~~~i~~~L~~i~  193 (484)
T PRK14956        173 QDFIFKKVPLSVLQDYSEKLC  193 (484)
T ss_pred             heeeecCCCHHHHHHHHHHHH
Confidence            779999999998888777654

>PRK14957 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.22  E-value=2e-06  Score=86.41  Aligned_cols=153  Identities=15%  Similarity=0.193  Sum_probs=94.5

Q ss_pred             CceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChH------------HHHHHHHHH-----
Q 038234           75 SEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDF------------RVAKAIIAA-----  137 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~------------~~~~~i~~~-----  137 (406)
                      .+++|.+..+..|...+...     ...+.+.++|+.|+||||+|+.+++....            .....+...     
T Consensus        16 ~diiGq~~~v~~L~~~i~~~-----rl~ha~Lf~Gp~GvGKTTlAr~lAk~L~c~~~~~~~pCg~C~sC~~i~~~~~~dl   90 (546)
T PRK14957         16 AEVAGQQHALNSLVHALETQ-----KVHHAYLFTGTRGVGKTTLGRLLAKCLNCKTGVTAEPCNKCENCVAINNNSFIDL   90 (546)
T ss_pred             HHhcCcHHHHHHHHHHHHcC-----CCCeEEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCcccHHHHHHhcCCCCce
Confidence            45889999999999988743     33566889999999999999988763211            001111000     


Q ss_pred             --hcC-CCCCCCCHHHHHHHHHhh-ccCcceeEEeeCCCCcCccCcchhhhccCCCCCCcEEEE-ecCChHHHHH-hccC
Q 038234          138 --LGC-ETSNLGSLQSLVRCISES-IEGKKYLVVLDDVWTDDYTKWEPFQRCSANGQCGNNILV-TTHKKTVARM-MEST  211 (406)
Q Consensus       138 --l~~-~~~~~~~~~~~~~~l~~~-l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~Iiv-TtR~~~v~~~-~~~~  211 (406)
                        +.. .....++...+...+... ..+++-++|+|++...+...++.+...+-.....+.+|+ ||....+... ....
T Consensus        91 ieidaas~~gvd~ir~ii~~~~~~p~~g~~kViIIDEa~~ls~~a~naLLK~LEepp~~v~fIL~Ttd~~kil~tI~SRc  170 (546)
T PRK14957         91 IEIDAASRTGVEETKEILDNIQYMPSQGRYKVYLIDEVHMLSKQSFNALLKTLEEPPEYVKFILATTDYHKIPVTILSRC  170 (546)
T ss_pred             EEeecccccCHHHHHHHHHHHHhhhhcCCcEEEEEechhhccHHHHHHHHHHHhcCCCCceEEEEECChhhhhhhHHHhe
Confidence              000 000111223333333322 346677999999977666667777777766555666654 5444444433 3346


Q ss_pred             CccccCCCChHHHHHhhhhhc
Q 038234          212 NFISIKELSTQECWSLFKQES  232 (406)
Q Consensus       212 ~~~~l~~L~~~~a~~Lf~~~~  232 (406)
                      ..+++.+++.++....+.+.+
T Consensus       171 ~~~~f~~Ls~~eI~~~L~~il  191 (546)
T PRK14957        171 IQLHLKHISQADIKDQLKIIL  191 (546)
T ss_pred             eeEEeCCCCHHHHHHHHHHHH
Confidence            889999999999877776643

>TIGR02903 spore_lon_C ATP-dependent protease, Lon family

Probab=98.20  E-value=1.1e-05  Score=83.17  Aligned_cols=152  Identities=20%  Similarity=0.221  Sum_probs=95.9

Q ss_pred             CceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChH------------------H-------
Q 038234           75 SEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDF------------------R-------  129 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~------------------~-------  129 (406)
                      +.++|++..+..+.+.+..      .....+.|+|++|+||||||+.+++....                  .       
T Consensus       154 ~~iiGqs~~~~~l~~~ia~------~~~~~vlL~Gp~GtGKTTLAr~i~~~~~~~~~~~~~~~~~fv~i~~~~l~~d~~~  227 (615)
T TIGR02903       154 SEIVGQERAIKALLAKVAS------PFPQHIILYGPPGVGKTTAARLALEEAKKLKHTPFAEDAPFVEVDGTTLRWDPRE  227 (615)
T ss_pred             HhceeCcHHHHHHHHHHhc------CCCCeEEEECCCCCCHHHHHHHHHHhhhhccCCcccCCCCeEEEechhccCCHHH
Confidence            4689999999988887743      23457999999999999999988643310                  0       


Q ss_pred             HHHHHH---------------HHhcCCC----------------CCCC-CHHHHHHHHHhhccCcceeEEeeCCCCcCcc
Q 038234          130 VAKAII---------------AALGCET----------------SNLG-SLQSLVRCISESIEGKKYLVVLDDVWTDDYT  177 (406)
Q Consensus       130 ~~~~i~---------------~~l~~~~----------------~~~~-~~~~~~~~l~~~l~~kr~LlVlDdvw~~~~~  177 (406)
                      +...++               ...+...                ++.. -....+..+.+.+..++++++.|+.|..+..
T Consensus       228 i~~~llg~~~~~~~~~a~~~l~~~gl~~~~~g~v~~asgGvL~LDEi~~Ld~~~Q~~Ll~~Le~~~v~~~~~~~~~~~~~  307 (615)
T TIGR02903       228 VTNPLLGSVHDPIYQGARRDLAETGVPEPKTGLVTDAHGGVLFIDEIGELDPLLQNKLLKVLEDKRVEFSSSYYDPDDPN  307 (615)
T ss_pred             HhHHhcCCccHHHHHHHHHHHHHcCCCchhcCchhhcCCCeEEEeccccCCHHHHHHHHHHHhhCeEEeecceeccCCcc
Confidence            000000               0000000                0000 1123566777888888888888888777767


Q ss_pred             CcchhhhccCCCCCCcEEEE--ecCChHH-HHHh-ccCCccccCCCChHHHHHhhhhhc
Q 038234          178 KWEPFQRCSANGQCGNNILV--TTHKKTV-ARMM-ESTNFISIKELSTQECWSLFKQES  232 (406)
Q Consensus       178 ~~~~l~~~l~~~~~gs~Iiv--TtR~~~v-~~~~-~~~~~~~l~~L~~~~a~~Lf~~~~  232 (406)
                      .|..+...+....+...+++  ||++... ...+ .....+.+.+++.+|.+.++.+.+
T Consensus       308 ~~~~ik~~~~~~~~~~~VLI~aTt~~~~~l~~aLrSR~~~i~~~pls~edi~~Il~~~a  366 (615)
T TIGR02903       308 VPKYIKKLFEEGAPADFVLIGATTRDPEEINPALRSRCAEVFFEPLTPEDIALIVLNAA  366 (615)
T ss_pred             cchhhhhhcccCccceEEEEEeccccccccCHHHHhceeEEEeCCCCHHHHHHHHHHHH
Confidence            78887776666555555555  5664321 1111 123467889999999999998865

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.

>PRK07994 DNA polymerase III subunits gamma and tau; Validated

Probab=98.19  E-value=5.8e-06  Score=84.55  Aligned_cols=153  Identities=12%  Similarity=0.153  Sum_probs=96.1

Q ss_pred             CceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChH------------HHHHHHHHHhcC--
Q 038234           75 SEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDF------------RVAKAIIAALGC--  140 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~------------~~~~~i~~~l~~--  140 (406)
                      .++||-+.-+..|.+.+...     .-.+.+.++|..|+||||+|+.+++....            .....+...-..  
T Consensus        16 ~divGQe~vv~~L~~~l~~~-----rl~hAyLf~Gp~GvGKTTlAr~lAk~L~c~~~~~~~pCg~C~~C~~i~~g~~~D~   90 (647)
T PRK07994         16 AEVVGQEHVLTALANALDLG-----RLHHAYLFSGTRGVGKTTIARLLAKGLNCETGITATPCGECDNCREIEQGRFVDL   90 (647)
T ss_pred             HHhcCcHHHHHHHHHHHHcC-----CCCeEEEEECCCCCCHHHHHHHHHHhhhhccCCCCCCCCCCHHHHHHHcCCCCCc
Confidence            46899999999999888743     23456789999999999999988765432            111111100000  


Q ss_pred             ---CCCCCCCHHHHH---HHHHhh-ccCcceeEEeeCCCCcCccCcchhhhccCCCCCCcEEEEecCC-hHHHHH-hccC
Q 038234          141 ---ETSNLGSLQSLV---RCISES-IEGKKYLVVLDDVWTDDYTKWEPFQRCSANGQCGNNILVTTHK-KTVARM-MEST  211 (406)
Q Consensus       141 ---~~~~~~~~~~~~---~~l~~~-l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTtR~-~~v~~~-~~~~  211 (406)
                         ........+++.   +.+... ..+++-++|||+++..+....+.|...+-.-....++|++|.+ ..+... ....
T Consensus        91 ieidaas~~~VddiR~li~~~~~~p~~g~~KV~IIDEah~Ls~~a~NALLKtLEEPp~~v~FIL~Tt~~~kLl~TI~SRC  170 (647)
T PRK07994         91 IEIDAASRTKVEDTRELLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTILSRC  170 (647)
T ss_pred             eeecccccCCHHHHHHHHHHHHhhhhcCCCEEEEEechHhCCHHHHHHHHHHHHcCCCCeEEEEecCCccccchHHHhhh
Confidence               000012233333   222211 3466779999999877766777777777655556666555544 444433 2346


Q ss_pred             CccccCCCChHHHHHhhhhhc
Q 038234          212 NFISIKELSTQECWSLFKQES  232 (406)
Q Consensus       212 ~~~~l~~L~~~~a~~Lf~~~~  232 (406)
                      ..+.+.+++.++....+.+..
T Consensus       171 ~~~~f~~Ls~~ei~~~L~~il  191 (647)
T PRK07994        171 LQFHLKALDVEQIRQQLEHIL  191 (647)
T ss_pred             eEeeCCCCCHHHHHHHHHHHH
Confidence            889999999999988877643

>PRK05564 DNA polymerase III subunit delta'; Validated

Probab=98.16  E-value=2.7e-06  Score=80.75  Aligned_cols=151  Identities=17%  Similarity=0.163  Sum_probs=97.4

Q ss_pred             CceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChHHH----HHHHHHHhcCCCCCCCCHHH
Q 038234           75 SEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDFRV----AKAIIAALGCETSNLGSLQS  150 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~----~~~i~~~l~~~~~~~~~~~~  150 (406)
                      .+++|-+..++.+.+++...     .-.+...++|+.|+||||+|+.+++..-...    ..++. .+..........++
T Consensus         4 ~~i~g~~~~~~~l~~~~~~~-----~~~ha~Lf~G~~G~Gk~~la~~~a~~l~c~~~~~~h~D~~-~~~~~~~~~i~v~~   77 (313)
T PRK05564          4 HTIIGHENIKNRIKNSIIKN-----RFSHAHIIVGEDGIGKSLLAKEIALKILGKSQQREYVDII-EFKPINKKSIGVDD   77 (313)
T ss_pred             hhccCcHHHHHHHHHHHHcC-----CCCceEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCeE-EeccccCCCCCHHH
Confidence            35789888899999998643     3356789999999999999998876321000    00000 00000011123344


Q ss_pred             HHHHHH---h-hccCcceeEEeeCCCCcCccCcchhhhccCCCCCCcEEEEecCChH-HHHH-hccCCccccCCCChHHH
Q 038234          151 LVRCIS---E-SIEGKKYLVVLDDVWTDDYTKWEPFQRCSANGQCGNNILVTTHKKT-VARM-MESTNFISIKELSTQEC  224 (406)
Q Consensus       151 ~~~~l~---~-~l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTtR~~~-v~~~-~~~~~~~~l~~L~~~~a  224 (406)
                      +...+.   . -..+++-++|+|++...+...++.+...+.....++.+|++|.+.+ +... .+....+.+.+++.++.
T Consensus        78 ir~~~~~~~~~p~~~~~kv~iI~~ad~m~~~a~naLLK~LEepp~~t~~il~~~~~~~ll~TI~SRc~~~~~~~~~~~~~  157 (313)
T PRK05564         78 IRNIIEEVNKKPYEGDKKVIIIYNSEKMTEQAQNAFLKTIEEPPKGVFIILLCENLEQILDTIKSRCQIYKLNRLSKEEI  157 (313)
T ss_pred             HHHHHHHHhcCcccCCceEEEEechhhcCHHHHHHHHHHhcCCCCCeEEEEEeCChHhCcHHHHhhceeeeCCCcCHHHH
Confidence            333332   1 2345667888888877777788889999987778889988887653 2222 23367899999999998


Q ss_pred             HHhhhhh
Q 038234          225 WSLFKQE  231 (406)
Q Consensus       225 ~~Lf~~~  231 (406)
                      ...+.+.
T Consensus       158 ~~~l~~~  164 (313)
T PRK05564        158 EKFISYK  164 (313)
T ss_pred             HHHHHHH
Confidence            8777654

>PRK14962 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.16  E-value=2.1e-06  Score=85.38  Aligned_cols=152  Identities=16%  Similarity=0.243  Sum_probs=88.4

Q ss_pred             CceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChH------------HHHHHHHHHhcC--
Q 038234           75 SEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDF------------RVAKAIIAALGC--  140 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~------------~~~~~i~~~l~~--  140 (406)
                      .+++|.+..+..|...+...     .-.+.+.++|++|+||||+|+.+++....            .....+......  
T Consensus        14 ~divGq~~i~~~L~~~i~~~-----~l~~~~Lf~GPpGtGKTTlA~~lA~~l~~~~~~~~~pc~~c~~c~~i~~g~~~dv   88 (472)
T PRK14962         14 SEVVGQDHVKKLIINALKKN-----SISHAYIFAGPRGTGKTTVARILAKSLNCENRKGVEPCNECRACRSIDEGTFMDV   88 (472)
T ss_pred             HHccCcHHHHHHHHHHHHcC-----CCCeEEEEECCCCCCHHHHHHHHHHHhccccCCCCCCCcccHHHHHHhcCCCCcc
Confidence            46899988888887777642     23466899999999999999988765321            011111000000  


Q ss_pred             ---CCCCCCCHHHHHHHHHhh-----ccCcceeEEeeCCCCcCccCcchhhhccCCCCCCcEEEEecCC-hHHHHHh-cc
Q 038234          141 ---ETSNLGSLQSLVRCISES-----IEGKKYLVVLDDVWTDDYTKWEPFQRCSANGQCGNNILVTTHK-KTVARMM-ES  210 (406)
Q Consensus       141 ---~~~~~~~~~~~~~~l~~~-----l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTtR~-~~v~~~~-~~  210 (406)
                         ........+.+. .+.+.     ..+++-++|+|+++.......+.+...+........+|++|.+ ..+...+ ..
T Consensus        89 ~el~aa~~~gid~iR-~i~~~~~~~p~~~~~kVvIIDE~h~Lt~~a~~~LLk~LE~p~~~vv~Ilattn~~kl~~~L~SR  167 (472)
T PRK14962         89 IELDAASNRGIDEIR-KIRDAVGYRPMEGKYKVYIIDEVHMLTKEAFNALLKTLEEPPSHVVFVLATTNLEKVPPTIISR  167 (472)
T ss_pred             EEEeCcccCCHHHHH-HHHHHHhhChhcCCeEEEEEEChHHhHHHHHHHHHHHHHhCCCcEEEEEEeCChHhhhHHHhcC
Confidence               000112233322 22222     2356679999999655444455566666544444444444443 3443333 33


Q ss_pred             CCccccCCCChHHHHHhhhhhc
Q 038234          211 TNFISIKELSTQECWSLFKQES  232 (406)
Q Consensus       211 ~~~~~l~~L~~~~a~~Lf~~~~  232 (406)
                      ...+.+.+++.++....+.+.+
T Consensus       168 ~~vv~f~~l~~~el~~~L~~i~  189 (472)
T PRK14962        168 CQVIEFRNISDELIIKRLQEVA  189 (472)
T ss_pred             cEEEEECCccHHHHHHHHHHHH
Confidence            6788999999999888777654

>PRK14951 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.14  E-value=5.7e-06  Score=84.36  Aligned_cols=153  Identities=12%  Similarity=0.206  Sum_probs=94.7

Q ss_pred             CceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChH-----------------HHHHHHHHH
Q 038234           75 SEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDF-----------------RVAKAIIAA  137 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~-----------------~~~~~i~~~  137 (406)
                      .++||-+.-+..|.+++...     .-.+.+.++|..|+||||+|+.+.+....                 .....+...
T Consensus        16 ~dviGQe~vv~~L~~~l~~~-----rl~ha~Lf~Gp~GvGKTtlAr~lAk~LnC~~~~~~~~~~~~pCg~C~~C~~i~~g   90 (618)
T PRK14951         16 SEMVGQEHVVQALTNALTQQ-----RLHHAYLFTGTRGVGKTTVSRILAKSLNCQGPDGQGGITATPCGVCQACRDIDSG   90 (618)
T ss_pred             HHhcCcHHHHHHHHHHHHcC-----CCCeEEEEECCCCCCHHHHHHHHHHHhcCCCcccccCCCCCCCCccHHHHHHHcC
Confidence            45899888888888888753     33567799999999999999888543210                 111111100


Q ss_pred             hcCC-----CCCCCCHHHHHHHHHhh----ccCcceeEEeeCCCCcCccCcchhhhccCCCCCCcEEEEecCC-hHHHH-
Q 038234          138 LGCE-----TSNLGSLQSLVRCISES----IEGKKYLVVLDDVWTDDYTKWEPFQRCSANGQCGNNILVTTHK-KTVAR-  206 (406)
Q Consensus       138 l~~~-----~~~~~~~~~~~~~l~~~----l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTtR~-~~v~~-  206 (406)
                      -..+     .......+++...+...    ..++.-++|||+++..+...++.+...+..-...+++|++|.+ ..+.. 
T Consensus        91 ~h~D~~eldaas~~~Vd~iReli~~~~~~p~~g~~KV~IIDEvh~Ls~~a~NaLLKtLEEPP~~~~fIL~Ttd~~kil~T  170 (618)
T PRK14951         91 RFVDYTELDAASNRGVDEVQQLLEQAVYKPVQGRFKVFMIDEVHMLTNTAFNAMLKTLEEPPEYLKFVLATTDPQKVPVT  170 (618)
T ss_pred             CCCceeecCcccccCHHHHHHHHHHHHhCcccCCceEEEEEChhhCCHHHHHHHHHhcccCCCCeEEEEEECCchhhhHH
Confidence            0000     00112233333333221    2345568999999877777777777777665556666655543 44432 


Q ss_pred             HhccCCccccCCCChHHHHHhhhhhc
Q 038234          207 MMESTNFISIKELSTQECWSLFKQES  232 (406)
Q Consensus       207 ~~~~~~~~~l~~L~~~~a~~Lf~~~~  232 (406)
                      .......+++.+++.++....+.+.+
T Consensus       171 IlSRc~~~~f~~Ls~eei~~~L~~i~  196 (618)
T PRK14951        171 VLSRCLQFNLRPMAPETVLEHLTQVL  196 (618)
T ss_pred             HHHhceeeecCCCCHHHHHHHHHHHH
Confidence            23446889999999999888887654

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=98.13  E-value=4.8e-06  Score=88.73  Aligned_cols=148  Identities=14%  Similarity=0.163  Sum_probs=83.4

Q ss_pred             CceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChH----------HHHHHHHHHhcCCCCC
Q 038234           75 SEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDF----------RVAKAIIAALGCETSN  144 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~----------~~~~~i~~~l~~~~~~  144 (406)
                      ..++||+.++.++++.|....      ..-+.++|.+|+|||+||+.+++....          ++..--+..+......
T Consensus       187 d~~iGr~~ei~~~i~~l~r~~------~~n~lLvG~pGvGKTal~~~La~~i~~~~v~~~l~~~~i~~l~l~~l~ag~~~  260 (852)
T TIGR03345       187 DPVLGRDDEIRQMIDILLRRR------QNNPILTGEAGVGKTAVVEGLALRIAAGDVPPALRNVRLLSLDLGLLQAGASV  260 (852)
T ss_pred             CcccCCHHHHHHHHHHHhcCC------cCceeEECCCCCCHHHHHHHHHHHHhhCCCCccccCCeEEEeehhhhhccccc
Confidence            468999999999999987542      335569999999999999988875421          0000000001100111


Q ss_pred             CCCH-HHHHHHHHhhc-cCcceeEEeeCCCCcCc-----cCcc---hhhhccCCCCCCcEEEEecCChHHHHH-------
Q 038234          145 LGSL-QSLVRCISESI-EGKKYLVVLDDVWTDDY-----TKWE---PFQRCSANGQCGNNILVTTHKKTVARM-------  207 (406)
Q Consensus       145 ~~~~-~~~~~~l~~~l-~~kr~LlVlDdvw~~~~-----~~~~---~l~~~l~~~~~gs~IivTtR~~~v~~~-------  207 (406)
                      ..+. +.+...+.+.- .+++.+|++|+++.-..     ..-+   .+...+.. + .-++|-||...+....       
T Consensus       261 ~ge~e~~lk~ii~e~~~~~~~~ILfIDEih~l~~~g~~~~~~d~~n~Lkp~l~~-G-~l~~IgaTT~~e~~~~~~~d~AL  338 (852)
T TIGR03345       261 KGEFENRLKSVIDEVKASPQPIILFIDEAHTLIGAGGQAGQGDAANLLKPALAR-G-ELRTIAATTWAEYKKYFEKDPAL  338 (852)
T ss_pred             chHHHHHHHHHHHHHHhcCCCeEEEEeChHHhccCCCccccccHHHHhhHHhhC-C-CeEEEEecCHHHHhhhhhccHHH
Confidence            1111 22333333322 25789999999865321     1112   13332222 1 2455555554332211       


Q ss_pred             hccCCccccCCCChHHHHHhhhh
Q 038234          208 MESTNFISIKELSTQECWSLFKQ  230 (406)
Q Consensus       208 ~~~~~~~~l~~L~~~~a~~Lf~~  230 (406)
                      ......+.+.+++.++...++..
T Consensus       339 ~rRf~~i~v~eps~~~~~~iL~~  361 (852)
T TIGR03345       339 TRRFQVVKVEEPDEETAIRMLRG  361 (852)
T ss_pred             HHhCeEEEeCCCCHHHHHHHHHH
Confidence            12356899999999999999754

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.

>PRK14955 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.11  E-value=1e-05  Score=79.29  Aligned_cols=153  Identities=11%  Similarity=0.148  Sum_probs=91.9

Q ss_pred             CceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChH--------------------HHHHHH
Q 038234           75 SEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDF--------------------RVAKAI  134 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~--------------------~~~~~i  134 (406)
                      .+++|.+.-++.|.+++...     .-.+.+.++|+.|+||||+|..+++....                    ..-..+
T Consensus        16 ~eiiGq~~~~~~L~~~~~~~-----~~~ha~lf~Gp~G~GKtt~A~~~a~~l~c~~~~~~~~~~~~~~~~c~~c~~c~~~   90 (397)
T PRK14955         16 ADITAQEHITRTIQNSLRMG-----RVGHGYIFSGLRGVGKTTAARVFAKAVNCQRMIDDADYLQEVTEPCGECESCRDF   90 (397)
T ss_pred             hhccChHHHHHHHHHHHHhC-----CcceeEEEECCCCCCHHHHHHHHHHHhcCCCCcCcccccccCCCCCCCCHHHHHH
Confidence            46889888888888888642     23456889999999999999887654311                    000001


Q ss_pred             HHHhcCC-----CCCCCCHHHHHHHHHhh----ccCcceeEEeeCCCCcCccCcchhhhccCCCCCCcEEEEec-CChHH
Q 038234          135 IAALGCE-----TSNLGSLQSLVRCISES----IEGKKYLVVLDDVWTDDYTKWEPFQRCSANGQCGNNILVTT-HKKTV  204 (406)
Q Consensus       135 ~~~l~~~-----~~~~~~~~~~~~~l~~~----l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTt-R~~~v  204 (406)
                      .......     .......+++.......    ..+++-++|+|++...+...++.+...+.+..+.+.+|++| +...+
T Consensus        91 ~~~~~~n~~~~~~~~~~~id~Ir~l~~~~~~~p~~~~~kvvIIdea~~l~~~~~~~LLk~LEep~~~t~~Il~t~~~~kl  170 (397)
T PRK14955         91 DAGTSLNISEFDAASNNSVDDIRLLRENVRYGPQKGRYRVYIIDEVHMLSIAAFNAFLKTLEEPPPHAIFIFATTELHKI  170 (397)
T ss_pred             hcCCCCCeEeecccccCCHHHHHHHHHHHhhchhcCCeEEEEEeChhhCCHHHHHHHHHHHhcCCCCeEEEEEeCChHHh
Confidence            0000000     00111234443322222    23566689999997665556777777776655566665554 44444


Q ss_pred             HHHhc-cCCccccCCCChHHHHHhhhhhc
Q 038234          205 ARMME-STNFISIKELSTQECWSLFKQES  232 (406)
Q Consensus       205 ~~~~~-~~~~~~l~~L~~~~a~~Lf~~~~  232 (406)
                      ...+. ....+++.+++.++....+...+
T Consensus       171 ~~tl~sR~~~v~f~~l~~~ei~~~l~~~~  199 (397)
T PRK14955        171 PATIASRCQRFNFKRIPLEEIQQQLQGIC  199 (397)
T ss_pred             HHHHHHHHHHhhcCCCCHHHHHHHHHHHH
Confidence            43322 24678999999999887776644

>PRK14964 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.10  E-value=3e-05  Score=77.08  Aligned_cols=153  Identities=14%  Similarity=0.175  Sum_probs=95.2

Q ss_pred             CceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChH------------HHHHHHHHHhcCCC
Q 038234           75 SEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDF------------RVAKAIIAALGCET  142 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~------------~~~~~i~~~l~~~~  142 (406)
                      .++||.+..++.|.+.+..+     .-.+.+.++|+.|+||||+|+.+++....            ..-..+......+.
T Consensus        13 ~dliGQe~vv~~L~~a~~~~-----ri~ha~Lf~Gp~G~GKTT~ArilAk~LnC~~~~~~~pCg~C~~C~~i~~~~~~Dv   87 (491)
T PRK14964         13 KDLVGQDVLVRILRNAFTLN-----KIPQSILLVGASGVGKTTCARIISLCLNCSNGPTSDPCGTCHNCISIKNSNHPDV   87 (491)
T ss_pred             HHhcCcHHHHHHHHHHHHcC-----CCCceEEEECCCCccHHHHHHHHHHHHcCcCCCCCCCccccHHHHHHhccCCCCE
Confidence            46899998888888887643     23557899999999999999888752110            11122211111110


Q ss_pred             -----CCCCCHHHHHHHHHhh----ccCcceeEEeeCCCCcCccCcchhhhccCCCCCCcEEEEec-CChHHHHHh-ccC
Q 038234          143 -----SNLGSLQSLVRCISES----IEGKKYLVVLDDVWTDDYTKWEPFQRCSANGQCGNNILVTT-HKKTVARMM-EST  211 (406)
Q Consensus       143 -----~~~~~~~~~~~~l~~~----l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTt-R~~~v~~~~-~~~  211 (406)
                           ......+++...+...    ..++.-++|+|+++..+....+.+...+..-.+.+.+|++| ..+.+...+ ...
T Consensus        88 ~eidaas~~~vddIR~Iie~~~~~P~~~~~KVvIIDEah~Ls~~A~NaLLK~LEePp~~v~fIlatte~~Kl~~tI~SRc  167 (491)
T PRK14964         88 IEIDAASNTSVDDIKVILENSCYLPISSKFKVYIIDEVHMLSNSAFNALLKTLEEPAPHVKFILATTEVKKIPVTIISRC  167 (491)
T ss_pred             EEEecccCCCHHHHHHHHHHHHhccccCCceEEEEeChHhCCHHHHHHHHHHHhCCCCCeEEEEEeCChHHHHHHHHHhh
Confidence                 1122333333322221    23566789999996665555667777776655566666554 445555443 346


Q ss_pred             CccccCCCChHHHHHhhhhhc
Q 038234          212 NFISIKELSTQECWSLFKQES  232 (406)
Q Consensus       212 ~~~~l~~L~~~~a~~Lf~~~~  232 (406)
                      ..+++.+++.++....+.+.+
T Consensus       168 ~~~~f~~l~~~el~~~L~~ia  188 (491)
T PRK14964        168 QRFDLQKIPTDKLVEHLVDIA  188 (491)
T ss_pred             eeeecccccHHHHHHHHHHHH
Confidence            788999999999888877755

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

Probab=98.10  E-value=3.7e-06  Score=88.73  Aligned_cols=149  Identities=16%  Similarity=0.140  Sum_probs=81.8

Q ss_pred             CceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChH----------HHHHHHHHHhcCCCCC
Q 038234           75 SEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDF----------RVAKAIIAALGCETSN  144 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~----------~~~~~i~~~l~~~~~~  144 (406)
                      +.++||++++.++++.|....      ..-+.++|++|+|||++|+.+++....          ++..--+..+......
T Consensus       182 ~~~igr~~ei~~~~~~L~~~~------~~n~lL~G~pG~GKT~l~~~la~~~~~~~~p~~l~~~~~~~~~~~~l~a~~~~  255 (731)
T TIGR02639       182 DPLIGREDELERTIQVLCRRK------KNNPLLVGEPGVGKTAIAEGLALRIAEGKVPENLKNAKIYSLDMGSLLAGTKY  255 (731)
T ss_pred             CcccCcHHHHHHHHHHHhcCC------CCceEEECCCCCCHHHHHHHHHHHHHhCCCchhhcCCeEEEecHHHHhhhccc
Confidence            468999999999999887532      334679999999999999988765311          0000000011100001


Q ss_pred             CCCHHH-HHHHHHhhccCcceeEEeeCCCCcCc---------cCcchhhhccCCCCCC-cEEEEecCChHHHHH------
Q 038234          145 LGSLQS-LVRCISESIEGKKYLVVLDDVWTDDY---------TKWEPFQRCSANGQCG-NNILVTTHKKTVARM------  207 (406)
Q Consensus       145 ~~~~~~-~~~~l~~~l~~kr~LlVlDdvw~~~~---------~~~~~l~~~l~~~~~g-s~IivTtR~~~v~~~------  207 (406)
                      ..+.+. +.+.+.+.-..++.+|++|+++.-..         +.-+.+...+.   .| -.+|-+|..++....      
T Consensus       256 ~g~~e~~l~~i~~~~~~~~~~ILfiDEih~l~~~g~~~~~~~~~~~~L~~~l~---~g~i~~IgaTt~~e~~~~~~~d~a  332 (731)
T TIGR02639       256 RGDFEERLKAVVSEIEKEPNAILFIDEIHTIVGAGATSGGSMDASNLLKPALS---SGKLRCIGSTTYEEYKNHFEKDRA  332 (731)
T ss_pred             cchHHHHHHHHHHHHhccCCeEEEEecHHHHhccCCCCCccHHHHHHHHHHHh---CCCeEEEEecCHHHHHHHhhhhHH
Confidence            112222 22223322235689999999953210         01122333332   23 244444443222111      


Q ss_pred             -hccCCccccCCCChHHHHHhhhhhc
Q 038234          208 -MESTNFISIKELSTQECWSLFKQES  232 (406)
Q Consensus       208 -~~~~~~~~l~~L~~~~a~~Lf~~~~  232 (406)
                       ...-..+.+.+++.++...++....
T Consensus       333 l~rRf~~i~v~~p~~~~~~~il~~~~  358 (731)
T TIGR02639       333 LSRRFQKIDVGEPSIEETVKILKGLK  358 (731)
T ss_pred             HHHhCceEEeCCCCHHHHHHHHHHHH
Confidence             1224678999999999999988533

>PRK08084 DNA replication initiation factor; Provisional

Probab=98.08  E-value=5.3e-06  Score=75.27  Aligned_cols=123  Identities=15%  Similarity=0.171  Sum_probs=67.1

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCChHHHHHHHHHHhcCCCCCCCCHHHHHHHHHhhccCcceeEEeeCCCCcCc-cCcc
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDKDFRVAKAIIAALGCETSNLGSLQSLVRCISESIEGKKYLVVLDDVWTDDY-TKWE  180 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdvw~~~~-~~~~  180 (406)
                      ...+.|+|++|+|||+|++.+++.....-....+..+.   .......++.+.+.+     --+|++||+..... ..|.
T Consensus        45 ~~~l~l~Gp~G~GKThLl~a~~~~~~~~~~~v~y~~~~---~~~~~~~~~~~~~~~-----~dlliiDdi~~~~~~~~~~  116 (235)
T PRK08084         45 SGYIYLWSREGAGRSHLLHAACAELSQRGRAVGYVPLD---KRAWFVPEVLEGMEQ-----LSLVCIDNIECIAGDELWE  116 (235)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEEHH---HHhhhhHHHHHHhhh-----CCEEEEeChhhhcCCHHHH
Confidence            45789999999999999998876432100000000000   000001112222211     24899999954321 2343


Q ss_pred             h-hhhccCC-CCCC-cEEEEecCCh---------HHHHHhccCCccccCCCChHHHHHhhhhhc
Q 038234          181 P-FQRCSAN-GQCG-NNILVTTHKK---------TVARMMESTNFISIKELSTQECWSLFKQES  232 (406)
Q Consensus       181 ~-l~~~l~~-~~~g-s~IivTtR~~---------~v~~~~~~~~~~~l~~L~~~~a~~Lf~~~~  232 (406)
                      . +...+.. ...| .++|+||+..         .+...+....++++.+++.++-.+++.+.+
T Consensus       117 ~~lf~l~n~~~e~g~~~li~ts~~~p~~l~~~~~~L~SRl~~g~~~~l~~~~~~~~~~~l~~~a  180 (235)
T PRK08084        117 MAIFDLYNRILESGRTRLLITGDRPPRQLNLGLPDLASRLDWGQIYKLQPLSDEEKLQALQLRA  180 (235)
T ss_pred             HHHHHHHHHHHHcCCCeEEEeCCCChHHcCcccHHHHHHHhCCceeeecCCCHHHHHHHHHHHH
Confidence            2 2222211 1123 3788998754         344455567899999999999888877644

>PHA02544 44 clamp loader, small subunit; Provisional

Probab=98.08  E-value=1.1e-05  Score=76.56  Aligned_cols=143  Identities=13%  Similarity=0.111  Sum_probs=84.0

Q ss_pred             CceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChHHHHHHHHHHhcCCCCCCCCHHHHHHH
Q 038234           75 SEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDFRVAKAIIAALGCETSNLGSLQSLVRC  154 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~  154 (406)
                      .+++|.+...+.+..++...     ....++.++|++|+|||++|+.+++.....+.     .+....   ...+.+...
T Consensus        21 ~~~~~~~~~~~~l~~~~~~~-----~~~~~lll~G~~G~GKT~la~~l~~~~~~~~~-----~i~~~~---~~~~~i~~~   87 (316)
T PHA02544         21 DECILPAADKETFKSIVKKG-----RIPNMLLHSPSPGTGKTTVAKALCNEVGAEVL-----FVNGSD---CRIDFVRNR   87 (316)
T ss_pred             HHhcCcHHHHHHHHHHHhcC-----CCCeEEEeeCcCCCCHHHHHHHHHHHhCccce-----EeccCc---ccHHHHHHH
Confidence            56899999999999988742     33567888999999999999999775421110     011111   112222222


Q ss_pred             HHhh-----ccCcceeEEeeCCCCc-CccCcchhhhccCCCCCCcEEEEecCChH-HHHHh-ccCCccccCCCChHHHHH
Q 038234          155 ISES-----IEGKKYLVVLDDVWTD-DYTKWEPFQRCSANGQCGNNILVTTHKKT-VARMM-ESTNFISIKELSTQECWS  226 (406)
Q Consensus       155 l~~~-----l~~kr~LlVlDdvw~~-~~~~~~~l~~~l~~~~~gs~IivTtR~~~-v~~~~-~~~~~~~l~~L~~~~a~~  226 (406)
                      +.+.     +.+.+-++|+||+... .......+...+.....++.+|+||.... +...+ +....+.+...+.++...
T Consensus        88 l~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~~L~~~le~~~~~~~~Ilt~n~~~~l~~~l~sR~~~i~~~~p~~~~~~~  167 (316)
T PHA02544         88 LTRFASTVSLTGGGKVIIIDEFDRLGLADAQRHLRSFMEAYSKNCSFIITANNKNGIIEPLRSRCRVIDFGVPTKEEQIE  167 (316)
T ss_pred             HHHHHHhhcccCCCeEEEEECcccccCHHHHHHHHHHHHhcCCCceEEEEcCChhhchHHHHhhceEEEeCCCCHHHHHH
Confidence            2222     1245568999999544 21222334444444456778888886532 11111 224567777778888776


Q ss_pred             hhhh
Q 038234          227 LFKQ  230 (406)
Q Consensus       227 Lf~~  230 (406)
                      ++..
T Consensus       168 il~~  171 (316)
T PHA02544        168 MMKQ  171 (316)
T ss_pred             HHHH
Confidence            6554

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

Probab=98.07  E-value=5.3e-06  Score=73.02  Aligned_cols=148  Identities=14%  Similarity=0.164  Sum_probs=77.8

Q ss_pred             CceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChHHHHHHHHHHhcCCCCCCCCHHHHHHH
Q 038234           75 SEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDFRVAKAIIAALGCETSNLGSLQSLVRC  154 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~  154 (406)
                      .+|||.+.-+..+.-.+..... .++.+..+.+||++|+||||||.-+++.....+.     ...  .+......++...
T Consensus        24 ~efiGQ~~l~~~l~i~i~aa~~-r~~~l~h~lf~GPPG~GKTTLA~IIA~e~~~~~~-----~~s--g~~i~k~~dl~~i   95 (233)
T PF05496_consen   24 DEFIGQEHLKGNLKILIRAAKK-RGEALDHMLFYGPPGLGKTTLARIIANELGVNFK-----ITS--GPAIEKAGDLAAI   95 (233)
T ss_dssp             CCS-S-HHHHHHHHHHHHHHHC-TTS---EEEEESSTTSSHHHHHHHHHHHCT--EE-----EEE--CCC--SCHHHHHH
T ss_pred             HHccCcHHHHhhhHHHHHHHHh-cCCCcceEEEECCCccchhHHHHHHHhccCCCeE-----ecc--chhhhhHHHHHHH
Confidence            5799998888776554432110 1355778999999999999999999888765331     111  1222334455555


Q ss_pred             HHhhccCcceeEEeeCCCCcCccCcchhhhccCC--------CC-----------CCcEEEEecCChHHHHHhcc--CCc
Q 038234          155 ISESIEGKKYLVVLDDVWTDDYTKWEPFQRCSAN--------GQ-----------CGNNILVTTHKKTVARMMES--TNF  213 (406)
Q Consensus       155 l~~~l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~--------~~-----------~gs~IivTtR~~~v~~~~~~--~~~  213 (406)
                      +...  +++-+|++|.++..+...-+.+...+-+        .+           +-+-|=.|||...+..-+..  .-+
T Consensus        96 l~~l--~~~~ILFIDEIHRlnk~~qe~LlpamEd~~idiiiG~g~~ar~~~~~l~~FTligATTr~g~ls~pLrdRFgi~  173 (233)
T PF05496_consen   96 LTNL--KEGDILFIDEIHRLNKAQQEILLPAMEDGKIDIIIGKGPNARSIRINLPPFTLIGATTRAGLLSSPLRDRFGIV  173 (233)
T ss_dssp             HHT----TT-EEEECTCCC--HHHHHHHHHHHHCSEEEEEBSSSSS-BEEEEE----EEEEEESSGCCTSHCCCTTSSEE
T ss_pred             HHhc--CCCcEEEEechhhccHHHHHHHHHHhccCeEEEEeccccccceeeccCCCceEeeeeccccccchhHHhhccee
Confidence            5443  3456888899976553332323222211        11           12345568887554443332  233


Q ss_pred             cccCCCChHHHHHhhhhhc
Q 038234          214 ISIKELSTQECWSLFKQES  232 (406)
Q Consensus       214 ~~l~~L~~~~a~~Lf~~~~  232 (406)
                      .+++..+.+|-..++.+.+
T Consensus       174 ~~l~~Y~~~el~~Iv~r~a  192 (233)
T PF05496_consen  174 LRLEFYSEEELAKIVKRSA  192 (233)
T ss_dssp             EE----THHHHHHHHHHCC
T ss_pred             cchhcCCHHHHHHHHHHHH
Confidence            4789999999999888766

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.

>PRK05896 DNA polymerase III subunits gamma and tau; Validated

Probab=98.07  E-value=1.4e-05  Score=80.63  Aligned_cols=153  Identities=16%  Similarity=0.234  Sum_probs=92.8

Q ss_pred             CceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChH------------HHHHHHHHHhcCC-
Q 038234           75 SEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDF------------RVAKAIIAALGCE-  141 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~------------~~~~~i~~~l~~~-  141 (406)
                      .+++|.+..++.+.+.+...     ...+.+.++|+.|+||||+|+.+++....            ...+.+......+ 
T Consensus        16 ~dIIGQe~iv~~L~~aI~~~-----rl~hA~Lf~GP~GvGKTTlA~~lAk~L~C~~~~~~~~Cg~C~sCr~i~~~~h~Di   90 (605)
T PRK05896         16 KQIIGQELIKKILVNAILNN-----KLTHAYIFSGPRGIGKTSIAKIFAKAINCLNPKDGDCCNSCSVCESINTNQSVDI   90 (605)
T ss_pred             HHhcCcHHHHHHHHHHHHcC-----CCCceEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCcccHHHHHHHcCCCCce
Confidence            46889999999999988643     33567889999999999999888664311            1111111111110 


Q ss_pred             ----CCCCCCHH---HHHHHHHhh-ccCcceeEEeeCCCCcCccCcchhhhccCCCCCCcEEEEec-CChHHHHH-hccC
Q 038234          142 ----TSNLGSLQ---SLVRCISES-IEGKKYLVVLDDVWTDDYTKWEPFQRCSANGQCGNNILVTT-HKKTVARM-MEST  211 (406)
Q Consensus       142 ----~~~~~~~~---~~~~~l~~~-l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTt-R~~~v~~~-~~~~  211 (406)
                          .......+   .+...+... ..+++-++|+|++...+...++.+...+......+.+|++| ....+... ....
T Consensus        91 ieIdaas~igVd~IReIi~~~~~~P~~~~~KVIIIDEad~Lt~~A~NaLLKtLEEPp~~tvfIL~Tt~~~KLl~TI~SRc  170 (605)
T PRK05896         91 VELDAASNNGVDEIRNIIDNINYLPTTFKYKVYIIDEAHMLSTSAWNALLKTLEEPPKHVVFIFATTEFQKIPLTIISRC  170 (605)
T ss_pred             EEeccccccCHHHHHHHHHHHHhchhhCCcEEEEEechHhCCHHHHHHHHHHHHhCCCcEEEEEECCChHhhhHHHHhhh
Confidence                00112222   233222221 22345579999997665556667777765544455555544 44444433 3346


Q ss_pred             CccccCCCChHHHHHhhhhhc
Q 038234          212 NFISIKELSTQECWSLFKQES  232 (406)
Q Consensus       212 ~~~~l~~L~~~~a~~Lf~~~~  232 (406)
                      ..+++.+++.++....+...+
T Consensus       171 q~ieF~~Ls~~eL~~~L~~il  191 (605)
T PRK05896        171 QRYNFKKLNNSELQELLKSIA  191 (605)
T ss_pred             hhcccCCCCHHHHHHHHHHHH
Confidence            789999999999888777644

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

Probab=98.06  E-value=2.1e-05  Score=71.71  Aligned_cols=151  Identities=13%  Similarity=0.180  Sum_probs=91.7

Q ss_pred             CceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChH-HHHHHHHHHhcCCCC-C-------C
Q 038234           75 SEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDF-RVAKAIIAALGCETS-N-------L  145 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~-~~~~~i~~~l~~~~~-~-------~  145 (406)
                      .+++|-+..+.-|.+.+..      ....+...+|++|.|||+-|..+++..-. +....=...+..... +       .
T Consensus        36 de~~gQe~vV~~L~~a~~~------~~lp~~LFyGPpGTGKTStalafar~L~~~~~~~~rvl~lnaSderGisvvr~Ki  109 (346)
T KOG0989|consen   36 DELAGQEHVVQVLKNALLR------RILPHYLFYGPPGTGKTSTALAFARALNCEQLFPCRVLELNASDERGISVVREKI  109 (346)
T ss_pred             HhhcchHHHHHHHHHHHhh------cCCceEEeeCCCCCcHhHHHHHHHHHhcCccccccchhhhcccccccccchhhhh
Confidence            4688999999999998875      23667889999999999999887665322 111000011111110 0       0


Q ss_pred             CCHHHHHHHHHhhccC---cc-eeEEeeCCCCcCccCcchhhhccCCCCCCcEEEEecCC-hHHHHHh-ccCCccccCCC
Q 038234          146 GSLQSLVRCISESIEG---KK-YLVVLDDVWTDDYTKWEPFQRCSANGQCGNNILVTTHK-KTVARMM-ESTNFISIKEL  219 (406)
Q Consensus       146 ~~~~~~~~~l~~~l~~---kr-~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTtR~-~~v~~~~-~~~~~~~l~~L  219 (406)
                      .+...+..... ...+   ++ -.+|||++.....+.|..+...+.+....++.|+.+.. ..+..-+ ....-+..++|
T Consensus       110 k~fakl~~~~~-~~~~~~~~~fKiiIlDEcdsmtsdaq~aLrr~mE~~s~~trFiLIcnylsrii~pi~SRC~KfrFk~L  188 (346)
T KOG0989|consen  110 KNFAKLTVLLK-RSDGYPCPPFKIIILDECDSMTSDAQAALRRTMEDFSRTTRFILICNYLSRIIRPLVSRCQKFRFKKL  188 (346)
T ss_pred             cCHHHHhhccc-cccCCCCCcceEEEEechhhhhHHHHHHHHHHHhccccceEEEEEcCChhhCChHHHhhHHHhcCCCc
Confidence            11111111111 0111   22 37899999988889999999999887767776554443 3222221 22456788889


Q ss_pred             ChHHHHHhhhhhc
Q 038234          220 STQECWSLFKQES  232 (406)
Q Consensus       220 ~~~~a~~Lf~~~~  232 (406)
                      ..++...-+...+
T Consensus       189 ~d~~iv~rL~~Ia  201 (346)
T KOG0989|consen  189 KDEDIVDRLEKIA  201 (346)
T ss_pred             chHHHHHHHHHHH
Confidence            8888777777666

>PRK03992 proteasome-activating nucleotidase; Provisional

Probab=98.05  E-value=2.6e-06  Score=83.10  Aligned_cols=156  Identities=12%  Similarity=0.098  Sum_probs=83.2

Q ss_pred             CceecchhhHHHHHHHHhcCCC-------CCCCCcEEEEEeeeCCCcHHHHHHHHhcCChHHHHHHHHHHhcCCCCCCCC
Q 038234           75 SEICGRDYKKNELLSKLLSDSS-------DQQKPIKMISIVGMGGIGKITLAQMAYNDKDFRVAKAIIAALGCETSNLGS  147 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~-------~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~~~i~~~l~~~~~~~~~  147 (406)
                      .++.|+++.++++.+.+...-.       -+-...+-|.++|++|+|||++|+++++.....+..-....+...... ..
T Consensus       131 ~di~Gl~~~~~~l~~~i~~pl~~~~~~~~~g~~~p~gvLL~GppGtGKT~lAkaia~~~~~~~i~v~~~~l~~~~~g-~~  209 (389)
T PRK03992        131 EDIGGLEEQIREVREAVELPLKKPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETNATFIRVVGSELVQKFIG-EG  209 (389)
T ss_pred             HHhCCcHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCceEEECCCCCChHHHHHHHHHHhCCCEEEeehHHHhHhhcc-ch
Confidence            3567999999998887632110       012446678999999999999999998765431110000011000000 11


Q ss_pred             HHHHHHHHHhhccCcceeEEeeCCCCcC-----------ccCcchhhhcc---CC--CCCCcEEEEecCChHHHHH-h-c
Q 038234          148 LQSLVRCISESIEGKKYLVVLDDVWTDD-----------YTKWEPFQRCS---AN--GQCGNNILVTTHKKTVARM-M-E  209 (406)
Q Consensus       148 ~~~~~~~l~~~l~~kr~LlVlDdvw~~~-----------~~~~~~l~~~l---~~--~~~gs~IivTtR~~~v~~~-~-~  209 (406)
                      ...+...+...-...+.+|+|||+..--           ......+...+   ..  ...+..||.||........ + .
T Consensus       210 ~~~i~~~f~~a~~~~p~IlfiDEiD~l~~~r~~~~~~~~~~~~~~l~~lL~~ld~~~~~~~v~VI~aTn~~~~ld~allR  289 (389)
T PRK03992        210 ARLVRELFELAREKAPSIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQLLAEMDGFDPRGNVKIIAATNRIDILDPAILR  289 (389)
T ss_pred             HHHHHHHHHHHHhcCCeEEEEechhhhhcccccCCCCccHHHHHHHHHHHHhccccCCCCCEEEEEecCChhhCCHHHcC
Confidence            1112222222223567899999995320           00011122222   11  1234567777765432211 1 1


Q ss_pred             ---cCCccccCCCChHHHHHhhhhh
Q 038234          210 ---STNFISIKELSTQECWSLFKQE  231 (406)
Q Consensus       210 ---~~~~~~l~~L~~~~a~~Lf~~~  231 (406)
                         -...+.+.+.+.++-.++|+..
T Consensus       290 pgRfd~~I~v~~P~~~~R~~Il~~~  314 (389)
T PRK03992        290 PGRFDRIIEVPLPDEEGRLEILKIH  314 (389)
T ss_pred             CccCceEEEECCCCHHHHHHHHHHH
Confidence               1456889999988888888753

>CHL00095 clpC Clp protease ATP binding subunit

Probab=98.04  E-value=9.6e-06  Score=86.65  Aligned_cols=147  Identities=16%  Similarity=0.137  Sum_probs=81.2

Q ss_pred             CceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChH----HHHH-------HHHHHhcCCCC
Q 038234           75 SEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDF----RVAK-------AIIAALGCETS  143 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~----~~~~-------~i~~~l~~~~~  143 (406)
                      ..++||+++++++++.|....      ..-+.++|++|+|||++|+.++.....    ..+.       ++..-+.+. .
T Consensus       179 ~~~igr~~ei~~~~~~L~r~~------~~n~lL~G~pGvGKTal~~~la~~i~~~~vp~~l~~~~i~~l~~~~l~ag~-~  251 (821)
T CHL00095        179 DPVIGREKEIERVIQILGRRT------KNNPILIGEPGVGKTAIAEGLAQRIVNRDVPDILEDKLVITLDIGLLLAGT-K  251 (821)
T ss_pred             CCCCCcHHHHHHHHHHHcccc------cCCeEEECCCCCCHHHHHHHHHHHHHhCCCChhhcCCeEEEeeHHHHhccC-C
Confidence            468999999999999997542      334569999999999999888765421    0000       000001111 1


Q ss_pred             CCCCHH-HHHHHHHhhccCcceeEEeeCCCCcC-----ccC--c-chhhhccCCCCCCcEEEEecCChHHHHH-------
Q 038234          144 NLGSLQ-SLVRCISESIEGKKYLVVLDDVWTDD-----YTK--W-EPFQRCSANGQCGNNILVTTHKKTVARM-------  207 (406)
Q Consensus       144 ~~~~~~-~~~~~l~~~l~~kr~LlVlDdvw~~~-----~~~--~-~~l~~~l~~~~~gs~IivTtR~~~v~~~-------  207 (406)
                      ...+.+ .+...+.+.-..++.+|++|+++.--     ...  . +.+...+.. + .-++|.+|........       
T Consensus       252 ~~ge~e~rl~~i~~~~~~~~~~ILfiDEih~l~~~g~~~g~~~~a~lLkp~l~r-g-~l~~IgaTt~~ey~~~ie~D~aL  329 (821)
T CHL00095        252 YRGEFEERLKRIFDEIQENNNIILVIDEVHTLIGAGAAEGAIDAANILKPALAR-G-ELQCIGATTLDEYRKHIEKDPAL  329 (821)
T ss_pred             CccHHHHHHHHHHHHHHhcCCeEEEEecHHHHhcCCCCCCcccHHHHhHHHHhC-C-CcEEEEeCCHHHHHHHHhcCHHH
Confidence            112222 22333333334578999999994211     001  1 122222221 1 2355655555443221       


Q ss_pred             hccCCccccCCCChHHHHHhhhh
Q 038234          208 MESTNFISIKELSTQECWSLFKQ  230 (406)
Q Consensus       208 ~~~~~~~~l~~L~~~~a~~Lf~~  230 (406)
                      ......+.+...+.++...++..
T Consensus       330 ~rRf~~I~v~ep~~~e~~aILr~  352 (821)
T CHL00095        330 ERRFQPVYVGEPSVEETIEILFG  352 (821)
T ss_pred             HhcceEEecCCCCHHHHHHHHHH
Confidence            12245678888888888777754

>PRK14958 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.03  E-value=7e-06  Score=82.48  Aligned_cols=153  Identities=10%  Similarity=0.107  Sum_probs=94.0

Q ss_pred             CceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChH------------HHHHHHHHHhcC--
Q 038234           75 SEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDF------------RVAKAIIAALGC--  140 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~------------~~~~~i~~~l~~--  140 (406)
                      .++||-+..++.|.+++...     .-.+.+.++|+.|+||||+|+.+.+....            .....+...-..  
T Consensus        16 ~divGq~~v~~~L~~~~~~~-----~l~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pCg~C~~C~~i~~g~~~d~   90 (509)
T PRK14958         16 QEVIGQAPVVRALSNALDQQ-----YLHHAYLFTGTRGVGKTTISRILAKCLNCEKGVSANPCNDCENCREIDEGRFPDL   90 (509)
T ss_pred             HHhcCCHHHHHHHHHHHHhC-----CCCeeEEEECCCCCCHHHHHHHHHHHhcCCCCCCcccCCCCHHHHHHhcCCCceE
Confidence            45899999999999999753     33556789999999999999888764321            111111110000  


Q ss_pred             ---CCCCCCCHHHHHHHHHh----hccCcceeEEeeCCCCcCccCcchhhhccCCCCCCcEEEEecCC-hHHHHH-hccC
Q 038234          141 ---ETSNLGSLQSLVRCISE----SIEGKKYLVVLDDVWTDDYTKWEPFQRCSANGQCGNNILVTTHK-KTVARM-MEST  211 (406)
Q Consensus       141 ---~~~~~~~~~~~~~~l~~----~l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTtR~-~~v~~~-~~~~  211 (406)
                         ........+++...+..    -..++.-++|+|+++..+....+.+...+......+++|++|.+ ..+... ....
T Consensus        91 ~eidaas~~~v~~iR~l~~~~~~~p~~~~~kV~iIDE~~~ls~~a~naLLk~LEepp~~~~fIlattd~~kl~~tI~SRc  170 (509)
T PRK14958         91 FEVDAASRTKVEDTRELLDNIPYAPTKGRFKVYLIDEVHMLSGHSFNALLKTLEEPPSHVKFILATTDHHKLPVTVLSRC  170 (509)
T ss_pred             EEEcccccCCHHHHHHHHHHHhhccccCCcEEEEEEChHhcCHHHHHHHHHHHhccCCCeEEEEEECChHhchHHHHHHh
Confidence               00112233333332222    12356668999999776666677777777665556777665544 333322 2335


Q ss_pred             CccccCCCChHHHHHhhhhhc
Q 038234          212 NFISIKELSTQECWSLFKQES  232 (406)
Q Consensus       212 ~~~~l~~L~~~~a~~Lf~~~~  232 (406)
                      ..+++.+++.++....+.+.+
T Consensus       171 ~~~~f~~l~~~~i~~~l~~il  191 (509)
T PRK14958        171 LQFHLAQLPPLQIAAHCQHLL  191 (509)
T ss_pred             hhhhcCCCCHHHHHHHHHHHH
Confidence            778899999988766555443

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

Probab=98.02  E-value=2.4e-05  Score=70.11  Aligned_cols=144  Identities=11%  Similarity=0.203  Sum_probs=79.5

Q ss_pred             ceecc-hhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChH-------------HHHHHHHHHhcCC
Q 038234           76 EICGR-DYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDF-------------RVAKAIIAALGCE  141 (406)
Q Consensus        76 ~~vGR-~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~-------------~~~~~i~~~l~~~  141 (406)
                      .++|- .+..-...+.+....   +.....+-|+|..|+|||+|.+++++....             ++...+...+.. 
T Consensus        10 fv~g~~N~~a~~~~~~ia~~~---~~~~~~l~l~G~~G~GKTHLL~Ai~~~~~~~~~~~~v~y~~~~~f~~~~~~~~~~-   85 (219)
T PF00308_consen   10 FVVGESNELAYAAAKAIAENP---GERYNPLFLYGPSGLGKTHLLQAIANEAQKQHPGKRVVYLSAEEFIREFADALRD-   85 (219)
T ss_dssp             S--TTTTHHHHHHHHHHHHST---TTSSSEEEEEESTTSSHHHHHHHHHHHHHHHCTTS-EEEEEHHHHHHHHHHHHHT-
T ss_pred             CCcCCcHHHHHHHHHHHHhcC---CCCCCceEEECCCCCCHHHHHHHHHHHHHhccccccceeecHHHHHHHHHHHHHc-
Confidence            34564 333344444454432   234456789999999999999999875321             444445444432 


Q ss_pred             CCCCCCHHHHHHHHHhhccCcceeEEeeCCCCcCcc-Ccch-hhhccCC-CCCCcEEEEecCCh---------HHHHHhc
Q 038234          142 TSNLGSLQSLVRCISESIEGKKYLVVLDDVWTDDYT-KWEP-FQRCSAN-GQCGNNILVTTHKK---------TVARMME  209 (406)
Q Consensus       142 ~~~~~~~~~~~~~l~~~l~~kr~LlVlDdvw~~~~~-~~~~-l~~~l~~-~~~gs~IivTtR~~---------~v~~~~~  209 (406)
                          ....++.    +.+. .-=+|+|||++.-... .|.. +...+.. ...|.+||+|+...         .+...+.
T Consensus        86 ----~~~~~~~----~~~~-~~DlL~iDDi~~l~~~~~~q~~lf~l~n~~~~~~k~li~ts~~~P~~l~~~~~~L~SRl~  156 (219)
T PF00308_consen   86 ----GEIEEFK----DRLR-SADLLIIDDIQFLAGKQRTQEELFHLFNRLIESGKQLILTSDRPPSELSGLLPDLRSRLS  156 (219)
T ss_dssp             ----TSHHHHH----HHHC-TSSEEEEETGGGGTTHHHHHHHHHHHHHHHHHTTSEEEEEESS-TTTTTTS-HHHHHHHH
T ss_pred             ----ccchhhh----hhhh-cCCEEEEecchhhcCchHHHHHHHHHHHHHHhhCCeEEEEeCCCCccccccChhhhhhHh
Confidence                1122222    2222 2348999999653211 2222 2222221 12366899999643         3445556


Q ss_pred             cCCccccCCCChHHHHHhhhhhc
Q 038234          210 STNFISIKELSTQECWSLFKQES  232 (406)
Q Consensus       210 ~~~~~~l~~L~~~~a~~Lf~~~~  232 (406)
                      ..-++++.+++.++-..++.+.+
T Consensus       157 ~Gl~~~l~~pd~~~r~~il~~~a  179 (219)
T PF00308_consen  157 WGLVVELQPPDDEDRRRILQKKA  179 (219)
T ss_dssp             CSEEEEE----HHHHHHHHHHHH
T ss_pred             hcchhhcCCCCHHHHHHHHHHHH
Confidence            67889999999999988888765

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.

>PRK08727 hypothetical protein; Validated

Probab=98.02  E-value=2.2e-05  Score=71.08  Aligned_cols=120  Identities=18%  Similarity=0.182  Sum_probs=67.3

Q ss_pred             EEEEEeeeCCCcHHHHHHHHhcCChHHHHHHHHHHhcCCCCCCCCHHHHHHHHHhhcc--CcceeEEeeCCCCcCc-cCc
Q 038234          103 KMISIVGMGGIGKITLAQMAYNDKDFRVAKAIIAALGCETSNLGSLQSLVRCISESIE--GKKYLVVLDDVWTDDY-TKW  179 (406)
Q Consensus       103 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~--~kr~LlVlDdvw~~~~-~~~  179 (406)
                      ..+.|+|.+|+|||+|++++++.....         +.. ....+..+....+...+.  .+.-+|||||+..... ..|
T Consensus        42 ~~l~l~G~~G~GKThL~~a~~~~~~~~---------~~~-~~y~~~~~~~~~~~~~~~~l~~~dlLiIDDi~~l~~~~~~  111 (233)
T PRK08727         42 DWLYLSGPAGTGKTHLALALCAAAEQA---------GRS-SAYLPLQAAAGRLRDALEALEGRSLVALDGLESIAGQRED  111 (233)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHHHc---------CCc-EEEEeHHHhhhhHHHHHHHHhcCCEEEEeCcccccCChHH
Confidence            459999999999999999987643210         000 000001111111111111  2335999999953321 123


Q ss_pred             ch-hhhccCC-CCCCcEEEEecCCh---------HHHHHhccCCccccCCCChHHHHHhhhhhc
Q 038234          180 EP-FQRCSAN-GQCGNNILVTTHKK---------TVARMMESTNFISIKELSTQECWSLFKQES  232 (406)
Q Consensus       180 ~~-l~~~l~~-~~~gs~IivTtR~~---------~v~~~~~~~~~~~l~~L~~~~a~~Lf~~~~  232 (406)
                      .. +...+.. ..+|..||+|++..         .+...+....++++++++.++-..++.+.+
T Consensus       112 ~~~lf~l~n~~~~~~~~vI~ts~~~p~~l~~~~~dL~SRl~~~~~~~l~~~~~e~~~~iL~~~a  175 (233)
T PRK08727        112 EVALFDFHNRARAAGITLLYTARQMPDGLALVLPDLRSRLAQCIRIGLPVLDDVARAAVLRERA  175 (233)
T ss_pred             HHHHHHHHHHHHHcCCeEEEECCCChhhhhhhhHHHHHHHhcCceEEecCCCHHHHHHHHHHHH
Confidence            22 2222221 12356799999853         233333446788999999999999888754

>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau

Probab=98.01  E-value=4.2e-05  Score=73.89  Aligned_cols=153  Identities=10%  Similarity=0.176  Sum_probs=91.2

Q ss_pred             CceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChH------------HHHHHHHHHhcCC-
Q 038234           75 SEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDF------------RVAKAIIAALGCE-  141 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~------------~~~~~i~~~l~~~-  141 (406)
                      .+++|.+..++.+.+++...     ...+.+.++|++|+|||++|+.+.+....            .-...+....... 
T Consensus        14 ~~iig~~~~~~~l~~~~~~~-----~~~~~~Ll~G~~G~GKt~~a~~la~~l~~~~~~~~~~c~~c~~c~~~~~~~~~~~   88 (355)
T TIGR02397        14 EDVIGQEHIVQTLKNAIKNG-----RIAHAYLFSGPRGTGKTSIARIFAKALNCQNGPDGEPCNECESCKEINSGSSLDV   88 (355)
T ss_pred             hhccCcHHHHHHHHHHHHcC-----CCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHHHHhcCCCCCE
Confidence            45799999999999988643     33567889999999999999877654211            0001111100000 


Q ss_pred             ----CCCCCC---HHHHHHHHHhh-ccCcceeEEeeCCCCcCccCcchhhhccCCCCCCcEEEEecCChH-HHHHh-ccC
Q 038234          142 ----TSNLGS---LQSLVRCISES-IEGKKYLVVLDDVWTDDYTKWEPFQRCSANGQCGNNILVTTHKKT-VARMM-EST  211 (406)
Q Consensus       142 ----~~~~~~---~~~~~~~l~~~-l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTtR~~~-v~~~~-~~~  211 (406)
                          ......   ...+...+... ..+++-++|+|++........+.+...+......+.+|++|.+.. +...+ ...
T Consensus        89 ~~~~~~~~~~~~~~~~l~~~~~~~p~~~~~~vviidea~~l~~~~~~~Ll~~le~~~~~~~lIl~~~~~~~l~~~l~sr~  168 (355)
T TIGR02397        89 IEIDAASNNGVDDIREILDNVKYAPSSGKYKVYIIDEVHMLSKSAFNALLKTLEEPPEHVVFILATTEPHKIPATILSRC  168 (355)
T ss_pred             EEeeccccCCHHHHHHHHHHHhcCcccCCceEEEEeChhhcCHHHHHHHHHHHhCCccceeEEEEeCCHHHHHHHHHhhe
Confidence                000112   22333333222 335566899999855443445566666655455667666665543 33322 235


Q ss_pred             CccccCCCChHHHHHhhhhhc
Q 038234          212 NFISIKELSTQECWSLFKQES  232 (406)
Q Consensus       212 ~~~~l~~L~~~~a~~Lf~~~~  232 (406)
                      ..+++.+++.++....+...+
T Consensus       169 ~~~~~~~~~~~~l~~~l~~~~  189 (355)
T TIGR02397       169 QRFDFKRIPLEDIVERLKKIL  189 (355)
T ss_pred             eEEEcCCCCHHHHHHHHHHHH
Confidence            678889999999888887654

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.

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

Probab=98.00  E-value=7.1e-06  Score=73.16  Aligned_cols=128  Identities=17%  Similarity=0.273  Sum_probs=77.8

Q ss_pred             ccCCCceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChHHHHHHHHHHhcCCCCCCCCHHH
Q 038234           71 FIDESEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDFRVAKAIIAALGCETSNLGSLQS  150 (406)
Q Consensus        71 ~~~~~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~~~i~~~l~~~~~~~~~~~~  150 (406)
                      .+.-.+++|.+...+.|++-...-..  ..+..-+.+||..|.|||+|++++.+.+..+-    +.-+.....+..++..
T Consensus        23 ~~~l~~L~Gie~Qk~~l~~Nt~~Fl~--G~pannvLL~G~rGtGKSSlVkall~~y~~~G----LRlIev~k~~L~~l~~   96 (249)
T PF05673_consen   23 PIRLDDLIGIERQKEALIENTEQFLQ--GLPANNVLLWGARGTGKSSLVKALLNEYADQG----LRLIEVSKEDLGDLPE   96 (249)
T ss_pred             CCCHHHhcCHHHHHHHHHHHHHHHHc--CCCCcceEEecCCCCCHHHHHHHHHHHHhhcC----ceEEEECHHHhccHHH
Confidence            34446799999998888775443222  34466778899999999999999887654311    1111112223345566


Q ss_pred             HHHHHHhhccCcceeEEeeCCCCc-CccCcchhhhccCCC----CCCcEEEEecCChHHHH
Q 038234          151 LVRCISESIEGKKYLVVLDDVWTD-DYTKWEPFQRCSANG----QCGNNILVTTHKKTVAR  206 (406)
Q Consensus       151 ~~~~l~~~l~~kr~LlVlDdvw~~-~~~~~~~l~~~l~~~----~~gs~IivTtR~~~v~~  206 (406)
                      +...++.  ...||+|++||+--+ +...+..++..|..+    ..+..|..||-.+++..
T Consensus        97 l~~~l~~--~~~kFIlf~DDLsFe~~d~~yk~LKs~LeGgle~~P~NvliyATSNRRHLv~  155 (249)
T PF05673_consen   97 LLDLLRD--RPYKFILFCDDLSFEEGDTEYKALKSVLEGGLEARPDNVLIYATSNRRHLVP  155 (249)
T ss_pred             HHHHHhc--CCCCEEEEecCCCCCCCcHHHHHHHHHhcCccccCCCcEEEEEecchhhccc
Confidence            6666664  467999999998432 223456666666432    22334445555455544

>PRK07764 DNA polymerase III subunits gamma and tau; Validated

Probab=97.99  E-value=3.1e-05  Score=81.83  Aligned_cols=153  Identities=11%  Similarity=0.137  Sum_probs=96.6

Q ss_pred             CceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChH------------HHHHHHHHHhcC--
Q 038234           75 SEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDF------------RVAKAIIAALGC--  140 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~------------~~~~~i~~~l~~--  140 (406)
                      .++||.+..++.|..++...     .-.+.+.++|..|+||||+|+.+.+....            .....+...-..  
T Consensus        15 ~eiiGqe~v~~~L~~~i~~~-----ri~Ha~Lf~Gp~G~GKTt~A~~lAr~L~C~~~~~~~pCg~C~sC~~~~~g~~~~~   89 (824)
T PRK07764         15 AEVIGQEHVTEPLSTALDSG-----RINHAYLFSGPRGCGKTSSARILARSLNCVEGPTSTPCGECDSCVALAPGGPGSL   89 (824)
T ss_pred             HHhcCcHHHHHHHHHHHHhC-----CCCceEEEECCCCCCHHHHHHHHHHHhCcccCCCCCCCcccHHHHHHHcCCCCCC
Confidence            35899999999999998753     33456889999999999999888765421            111111111000  


Q ss_pred             -----CCCCCCCHHHHHHHHHh----hccCcceeEEeeCCCCcCccCcchhhhccCCCCCCcEEEEec-CChHHHHHh-c
Q 038234          141 -----ETSNLGSLQSLVRCISE----SIEGKKYLVVLDDVWTDDYTKWEPFQRCSANGQCGNNILVTT-HKKTVARMM-E  209 (406)
Q Consensus       141 -----~~~~~~~~~~~~~~l~~----~l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTt-R~~~v~~~~-~  209 (406)
                           .......++++.....+    -..++.-++|||+++..+....+.|+..+.+-...+.+|++| ....+...+ .
T Consensus        90 dv~eidaas~~~Vd~iR~l~~~~~~~p~~~~~KV~IIDEad~lt~~a~NaLLK~LEEpP~~~~fIl~tt~~~kLl~TIrS  169 (824)
T PRK07764         90 DVTEIDAASHGGVDDARELRERAFFAPAESRYKIFIIDEAHMVTPQGFNALLKIVEEPPEHLKFIFATTEPDKVIGTIRS  169 (824)
T ss_pred             cEEEecccccCCHHHHHHHHHHHHhchhcCCceEEEEechhhcCHHHHHHHHHHHhCCCCCeEEEEEeCChhhhhHHHHh
Confidence                 00011223333332111    134566689999998777777778888887665666666555 444555443 3


Q ss_pred             cCCccccCCCChHHHHHhhhhhc
Q 038234          210 STNFISIKELSTQECWSLFKQES  232 (406)
Q Consensus       210 ~~~~~~l~~L~~~~a~~Lf~~~~  232 (406)
                      ....|++..++.++....+.+..
T Consensus       170 Rc~~v~F~~l~~~~l~~~L~~il  192 (824)
T PRK07764        170 RTHHYPFRLVPPEVMRGYLERIC  192 (824)
T ss_pred             heeEEEeeCCCHHHHHHHHHHHH
Confidence            36789999999999887777643

>PRK05642 DNA replication initiation factor; Validated

Probab=97.98  E-value=6e-05  Score=68.28  Aligned_cols=120  Identities=20%  Similarity=0.269  Sum_probs=66.1

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCChHHHHHHHHHHhcCCCCCCCCHHHHH---HHHHhhccCcceeEEeeCCCCcC-cc
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDKDFRVAKAIIAALGCETSNLGSLQSLV---RCISESIEGKKYLVVLDDVWTDD-YT  177 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~---~~l~~~l~~kr~LlVlDdvw~~~-~~  177 (406)
                      ...+.|+|..|+|||+|++++++.....         +.. .-..+.+++.   ..+.+.+.+- =+||+||+.... ..
T Consensus        45 ~~~l~l~G~~G~GKTHLl~a~~~~~~~~---------~~~-v~y~~~~~~~~~~~~~~~~~~~~-d~LiiDDi~~~~~~~  113 (234)
T PRK05642         45 ESLIYLWGKDGVGRSHLLQAACLRFEQR---------GEP-AVYLPLAELLDRGPELLDNLEQY-ELVCLDDLDVIAGKA  113 (234)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHhC---------CCc-EEEeeHHHHHhhhHHHHHhhhhC-CEEEEechhhhcCCh
Confidence            4678999999999999999887532110         000 0000001111   1122222222 278899995331 12


Q ss_pred             Ccch-hhhccCC-CCCCcEEEEecCChH---------HHHHhccCCccccCCCChHHHHHhhhhhc
Q 038234          178 KWEP-FQRCSAN-GQCGNNILVTTHKKT---------VARMMESTNFISIKELSTQECWSLFKQES  232 (406)
Q Consensus       178 ~~~~-l~~~l~~-~~~gs~IivTtR~~~---------v~~~~~~~~~~~l~~L~~~~a~~Lf~~~~  232 (406)
                      .|.. +...+.. ..+|..+|+|++...         +...+....++++++++.++-..++++++
T Consensus       114 ~~~~~Lf~l~n~~~~~g~~ilits~~~p~~l~~~~~~L~SRl~~gl~~~l~~~~~e~~~~il~~ka  179 (234)
T PRK05642        114 DWEEALFHLFNRLRDSGRRLLLAASKSPRELPIKLPDLKSRLTLALVFQMRGLSDEDKLRALQLRA  179 (234)
T ss_pred             HHHHHHHHHHHHHHhcCCEEEEeCCCCHHHcCccCccHHHHHhcCeeeecCCCCHHHHHHHHHHHH
Confidence            4433 3333321 234667888887532         22233345778899999999888877543

>PRK06620 hypothetical protein; Validated

Probab=97.97  E-value=2.7e-05  Score=69.44  Aligned_cols=108  Identities=15%  Similarity=0.087  Sum_probs=64.1

Q ss_pred             EEEEEeeeCCCcHHHHHHHHhcCChHHHHHHHHHHhcCCCCCCCCHHHHHHHHHhhccCcceeEEeeCCCCcCccCcchh
Q 038234          103 KMISIVGMGGIGKITLAQMAYNDKDFRVAKAIIAALGCETSNLGSLQSLVRCISESIEGKKYLVVLDDVWTDDYTKWEPF  182 (406)
Q Consensus       103 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdvw~~~~~~~~~l  182 (406)
                      +.+.|+|++|+|||+|++.+++.....+..          ..... +       +.. ...-+|++||++....   ..+
T Consensus        45 ~~l~l~Gp~G~GKThLl~a~~~~~~~~~~~----------~~~~~-~-------~~~-~~~d~lliDdi~~~~~---~~l  102 (214)
T PRK06620         45 FTLLIKGPSSSGKTYLTKIWQNLSNAYIIK----------DIFFN-E-------EIL-EKYNAFIIEDIENWQE---PAL  102 (214)
T ss_pred             ceEEEECCCCCCHHHHHHHHHhccCCEEcc----------hhhhc-h-------hHH-hcCCEEEEeccccchH---HHH
Confidence            678999999999999999987765321100          00000 0       111 2335789999952210   112


Q ss_pred             hhccCC-CCCCcEEEEecCCh-------HHHHHhccCCccccCCCChHHHHHhhhhhc
Q 038234          183 QRCSAN-GQCGNNILVTTHKK-------TVARMMESTNFISIKELSTQECWSLFKQES  232 (406)
Q Consensus       183 ~~~l~~-~~~gs~IivTtR~~-------~v~~~~~~~~~~~l~~L~~~~a~~Lf~~~~  232 (406)
                      ...+.. ...|..||+|++..       .+...+....++++++++.++-..++++.+
T Consensus       103 f~l~N~~~e~g~~ilits~~~p~~l~l~~L~SRl~~gl~~~l~~pd~~~~~~~l~k~~  160 (214)
T PRK06620        103 LHIFNIINEKQKYLLLTSSDKSRNFTLPDLSSRIKSVLSILLNSPDDELIKILIFKHF  160 (214)
T ss_pred             HHHHHHHHhcCCEEEEEcCCCccccchHHHHHHHhCCceEeeCCCCHHHHHHHHHHHH
Confidence            222211 13466899988753       233334446689999999998777777643

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

Probab=97.97  E-value=1.4e-06  Score=71.11  Aligned_cols=68  Identities=21%  Similarity=0.173  Sum_probs=38.4

Q ss_pred             EEEeeeCCCcHHHHHHHHhcCChHHHHHHHHHHhcCCCCCCCCHHHHHHHHHhhccC-cceeEEeeCCCC
Q 038234          105 ISIVGMGGIGKITLAQMAYNDKDFRVAKAIIAALGCETSNLGSLQSLVRCISESIEG-KKYLVVLDDVWT  173 (406)
Q Consensus       105 i~I~G~gGiGKTtLA~~v~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~-kr~LlVlDdvw~  173 (406)
                      |.|+|++|+|||++|+.+++.....+..--...+. ..........+...+.+.-.. ++.+|++||+..
T Consensus         1 ill~G~~G~GKT~l~~~la~~l~~~~~~i~~~~~~-~~~~~~~~~~i~~~~~~~~~~~~~~vl~iDe~d~   69 (132)
T PF00004_consen    1 ILLHGPPGTGKTTLARALAQYLGFPFIEIDGSELI-SSYAGDSEQKIRDFFKKAKKSAKPCVLFIDEIDK   69 (132)
T ss_dssp             EEEESSTTSSHHHHHHHHHHHTTSEEEEEETTHHH-TSSTTHHHHHHHHHHHHHHHTSTSEEEEEETGGG
T ss_pred             CEEECcCCCCeeHHHHHHHhhcccccccccccccc-cccccccccccccccccccccccceeeeeccchh
Confidence            57999999999999999988764311000000000 001112233344444443333 389999999954

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

>PRK14969 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.96  E-value=1.1e-05  Score=81.69  Aligned_cols=153  Identities=12%  Similarity=0.178  Sum_probs=91.9

Q ss_pred             CceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChH------------HHHHHHHHHhc---
Q 038234           75 SEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDF------------RVAKAIIAALG---  139 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~------------~~~~~i~~~l~---  139 (406)
                      .+++|-+.-++.|.+++...     .-.+.+.++|+.|+||||+|+.+.+....            .....+...-.   
T Consensus        16 ~divGq~~v~~~L~~~i~~~-----~~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pcg~C~~C~~i~~~~~~d~   90 (527)
T PRK14969         16 SELVGQEHVVRALTNALEQQ-----RLHHAYLFTGTRGVGKTTLARILAKSLNCETGVTATPCGVCSACLEIDSGRFVDL   90 (527)
T ss_pred             HHhcCcHHHHHHHHHHHHcC-----CCCEEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHHHHhcCCCCce
Confidence            45889999999999988753     23456789999999999999888654321            00011100000   


Q ss_pred             --CCCCCCCCHHHHHHHHHhh----ccCcceeEEeeCCCCcCccCcchhhhccCCCCCCcEEEEecCC-hHHHHH-hccC
Q 038234          140 --CETSNLGSLQSLVRCISES----IEGKKYLVVLDDVWTDDYTKWEPFQRCSANGQCGNNILVTTHK-KTVARM-MEST  211 (406)
Q Consensus       140 --~~~~~~~~~~~~~~~l~~~----l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTtR~-~~v~~~-~~~~  211 (406)
                        .........+++...+...    ..+++-++|+|++...+....+.+...+......+.+|++|.+ +.+... ....
T Consensus        91 ~ei~~~~~~~vd~ir~l~~~~~~~p~~~~~kVvIIDEad~ls~~a~naLLK~LEepp~~~~fIL~t~d~~kil~tI~SRc  170 (527)
T PRK14969         91 IEVDAASNTQVDAMRELLDNAQYAPTRGRFKVYIIDEVHMLSKSAFNAMLKTLEEPPEHVKFILATTDPQKIPVTVLSRC  170 (527)
T ss_pred             eEeeccccCCHHHHHHHHHHHhhCcccCCceEEEEcCcccCCHHHHHHHHHHHhCCCCCEEEEEEeCChhhCchhHHHHH
Confidence              0001112233333222221    2466779999999766655566677777655556666655544 333322 2235


Q ss_pred             CccccCCCChHHHHHhhhhhc
Q 038234          212 NFISIKELSTQECWSLFKQES  232 (406)
Q Consensus       212 ~~~~l~~L~~~~a~~Lf~~~~  232 (406)
                      ..+++.+++.++....+.+.+
T Consensus       171 ~~~~f~~l~~~~i~~~L~~il  191 (527)
T PRK14969        171 LQFNLKQMPPPLIVSHLQHIL  191 (527)
T ss_pred             HHHhcCCCCHHHHHHHHHHHH
Confidence            778999999998887666543

>PRK14954 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.95  E-value=4.6e-05  Score=78.08  Aligned_cols=153  Identities=13%  Similarity=0.166  Sum_probs=93.0

Q ss_pred             CceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChH--------------------HHHHHH
Q 038234           75 SEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDF--------------------RVAKAI  134 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~--------------------~~~~~i  134 (406)
                      .+++|.+..+..|.+.+..+     .-.+.+.++|+.|+||||+|+.+.+....                    .....+
T Consensus        16 ~eivGQe~i~~~L~~~i~~~-----ri~ha~Lf~Gp~GvGKttlA~~lAk~L~c~~~~~~~~~~~~~~~~Cg~C~sC~~~   90 (620)
T PRK14954         16 ADITAQEHITHTIQNSLRMD-----RVGHGYIFSGLRGVGKTTAARVFAKAVNCQRMIDDPVYLQEVTEPCGECESCRDF   90 (620)
T ss_pred             HHhcCcHHHHHHHHHHHHcC-----CCCeeEEEECCCCCCHHHHHHHHHHHhCCCCcCCccccccccCCCCccCHHHHHH
Confidence            46889998888888888642     23456889999999999999877654311                    000001


Q ss_pred             HHHhcCC-----CCCCCCHHHHHHHHHhh----ccCcceeEEeeCCCCcCccCcchhhhccCCCCCCcEEEE-ecCChHH
Q 038234          135 IAALGCE-----TSNLGSLQSLVRCISES----IEGKKYLVVLDDVWTDDYTKWEPFQRCSANGQCGNNILV-TTHKKTV  204 (406)
Q Consensus       135 ~~~l~~~-----~~~~~~~~~~~~~l~~~----l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~Iiv-TtR~~~v  204 (406)
                      ...-...     .......+++...+...    ..+++-++|+|+++..+....+.|...+..-...+.+|+ |++...+
T Consensus        91 ~~g~~~n~~~~d~~s~~~vd~Ir~l~e~~~~~P~~~~~KVvIIdEad~Lt~~a~naLLK~LEePp~~tv~IL~t~~~~kL  170 (620)
T PRK14954         91 DAGTSLNISEFDAASNNSVDDIRQLRENVRYGPQKGRYRVYIIDEVHMLSTAAFNAFLKTLEEPPPHAIFIFATTELHKI  170 (620)
T ss_pred             hccCCCCeEEecccccCCHHHHHHHHHHHHhhhhcCCCEEEEEeChhhcCHHHHHHHHHHHhCCCCCeEEEEEeCChhhh
Confidence            0000000     00112234444333222    335566899999976655556667777765555555554 5444555


Q ss_pred             HHH-hccCCccccCCCChHHHHHhhhhhc
Q 038234          205 ARM-MESTNFISIKELSTQECWSLFKQES  232 (406)
Q Consensus       205 ~~~-~~~~~~~~l~~L~~~~a~~Lf~~~~  232 (406)
                      ... ......+++.+++.++....+.+.+
T Consensus       171 l~TI~SRc~~vef~~l~~~ei~~~L~~i~  199 (620)
T PRK14954        171 PATIASRCQRFNFKRIPLDEIQSQLQMIC  199 (620)
T ss_pred             hHHHHhhceEEecCCCCHHHHHHHHHHHH
Confidence            443 3347789999999999877776644

>PRK07940 DNA polymerase III subunit delta'; Validated

Probab=97.95  E-value=4e-05  Score=74.48  Aligned_cols=155  Identities=11%  Similarity=0.111  Sum_probs=92.5

Q ss_pred             ceecchhhHHHHHHHHhcCCCC----CCCCcEEEEEeeeCCCcHHHHHHHHhcCChH-----------HHHHHHHHHhcC
Q 038234           76 EICGRDYKKNELLSKLLSDSSD----QQKPIKMISIVGMGGIGKITLAQMAYNDKDF-----------RVAKAIIAALGC  140 (406)
Q Consensus        76 ~~vGR~~~~~~l~~~L~~~~~~----~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~-----------~~~~~i~~~l~~  140 (406)
                      +++|-+.-++.|.+.+......    +..-.+.+.++|++|+|||++|+.+++..-.           ..-..+.....+
T Consensus         6 ~IiGq~~~~~~L~~~i~~~~~~~~~~~~~l~ha~Lf~Gp~G~GKt~lA~~lA~~l~c~~~~~~~Cg~C~~C~~~~~~~hp   85 (394)
T PRK07940          6 DLVGQEAVVAELRAAARAARADVAAAGSGMTHAWLFTGPPGSGRSVAARAFAAALQCTDPDEPGCGECRACRTVLAGTHP   85 (394)
T ss_pred             hccChHHHHHHHHHHHHhccccccccCCCCCeEEEEECCCCCcHHHHHHHHHHHhCCCCCCCCCCCCCHHHHHHhcCCCC
Confidence            5789988899999988754210    0113567889999999999999887653110           111111111111


Q ss_pred             CC----C--CCCCHHHHH---HHHHh-hccCcceeEEeeCCCCcCccCcchhhhccCCCCCCcEEEEecCC-hHHHHHh-
Q 038234          141 ET----S--NLGSLQSLV---RCISE-SIEGKKYLVVLDDVWTDDYTKWEPFQRCSANGQCGNNILVTTHK-KTVARMM-  208 (406)
Q Consensus       141 ~~----~--~~~~~~~~~---~~l~~-~l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTtR~-~~v~~~~-  208 (406)
                      +.    +  .....+++.   +.+.. -..+++-++|+|++...+....+.+...+.....++.+|++|.+ ..+...+ 
T Consensus        86 D~~~i~~~~~~i~i~~iR~l~~~~~~~p~~~~~kViiIDead~m~~~aanaLLk~LEep~~~~~fIL~a~~~~~llpTIr  165 (394)
T PRK07940         86 DVRVVAPEGLSIGVDEVRELVTIAARRPSTGRWRIVVIEDADRLTERAANALLKAVEEPPPRTVWLLCAPSPEDVLPTIR  165 (394)
T ss_pred             CEEEeccccccCCHHHHHHHHHHHHhCcccCCcEEEEEechhhcCHHHHHHHHHHhhcCCCCCeEEEEECChHHChHHHH
Confidence            00    0  112233322   22221 12355568889999777666666677776555556666666665 3444332 


Q ss_pred             ccCCccccCCCChHHHHHhhhh
Q 038234          209 ESTNFISIKELSTQECWSLFKQ  230 (406)
Q Consensus       209 ~~~~~~~l~~L~~~~a~~Lf~~  230 (406)
                      +....+.+.+++.++....+.+
T Consensus       166 SRc~~i~f~~~~~~~i~~~L~~  187 (394)
T PRK07940        166 SRCRHVALRTPSVEAVAEVLVR  187 (394)
T ss_pred             hhCeEEECCCCCHHHHHHHHHH
Confidence            3367899999999999888864

>PRK14970 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.94  E-value=9.6e-06  Score=78.77  Aligned_cols=153  Identities=13%  Similarity=0.226  Sum_probs=88.6

Q ss_pred             CceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChHHHHH----HH-HHHhcCCCCCCCCHH
Q 038234           75 SEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDFRVAK----AI-IAALGCETSNLGSLQ  149 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~~----~i-~~~l~~~~~~~~~~~  149 (406)
                      .+++|.+..++.+.+.+...     .-.+.+.++|++|+|||++|+.+.+........    .+ ...+..........+
T Consensus        17 ~~iig~~~~~~~l~~~i~~~-----~~~~~~L~~G~~G~GKt~~a~~la~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~   91 (367)
T PRK14970         17 DDVVGQSHITNTLLNAIENN-----HLAQALLFCGPRGVGKTTCARILARKINQPGYDDPNEDFSFNIFELDAASNNSVD   91 (367)
T ss_pred             HhcCCcHHHHHHHHHHHHcC-----CCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCcceEEeccccCCCHH
Confidence            45789999999999998743     235688999999999999998886643210000    00 000000001112223


Q ss_pred             HHHHHHHhh----ccCcceeEEeeCCCCcCccCcchhhhccCCCCCCcEEEEec-CChHHHHH-hccCCccccCCCChHH
Q 038234          150 SLVRCISES----IEGKKYLVVLDDVWTDDYTKWEPFQRCSANGQCGNNILVTT-HKKTVARM-MESTNFISIKELSTQE  223 (406)
Q Consensus       150 ~~~~~l~~~----l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTt-R~~~v~~~-~~~~~~~~l~~L~~~~  223 (406)
                      ++...+.+.    ..+++-++|+|++.......++.+...+......+.+|++| ....+... ......+++.+++.++
T Consensus        92 ~i~~l~~~~~~~p~~~~~kiviIDE~~~l~~~~~~~ll~~le~~~~~~~~Il~~~~~~kl~~~l~sr~~~v~~~~~~~~~  171 (367)
T PRK14970         92 DIRNLIDQVRIPPQTGKYKIYIIDEVHMLSSAAFNAFLKTLEEPPAHAIFILATTEKHKIIPTILSRCQIFDFKRITIKD  171 (367)
T ss_pred             HHHHHHHHHhhccccCCcEEEEEeChhhcCHHHHHHHHHHHhCCCCceEEEEEeCCcccCCHHHHhcceeEecCCccHHH
Confidence            333333221    23556689999985544344556655554434455555544 33333322 2235678999999999


Q ss_pred             HHHhhhhhc
Q 038234          224 CWSLFKQES  232 (406)
Q Consensus       224 a~~Lf~~~~  232 (406)
                      ....+...+
T Consensus       172 l~~~l~~~~  180 (367)
T PRK14970        172 IKEHLAGIA  180 (367)
T ss_pred             HHHHHHHHH
Confidence            888777654

>PRK09111 DNA polymerase III subunits gamma and tau; Validated

Probab=97.94  E-value=3.5e-05  Score=78.71  Aligned_cols=153  Identities=10%  Similarity=0.204  Sum_probs=94.5

Q ss_pred             CceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChHH-----------------HHHHHHHH
Q 038234           75 SEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDFR-----------------VAKAIIAA  137 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~-----------------~~~~i~~~  137 (406)
                      .+++|.+..++.|.+.+...     .-.+.+.++|+.|+||||+|+.+++.....                 -...+...
T Consensus        24 ~dliGq~~~v~~L~~~~~~g-----ri~ha~L~~Gp~GvGKTt~Ar~lAk~L~c~~~~~~~~~~~~~cg~c~~C~~i~~g   98 (598)
T PRK09111         24 DDLIGQEAMVRTLTNAFETG-----RIAQAFMLTGVRGVGKTTTARILARALNYEGPDGDGGPTIDLCGVGEHCQAIMEG   98 (598)
T ss_pred             HHhcCcHHHHHHHHHHHHcC-----CCCceEEEECCCCCCHHHHHHHHHHhhCcCCccccCCCccccCcccHHHHHHhcC
Confidence            46899999999999988753     335578899999999999999887653210                 01111111


Q ss_pred             hcCCC-----CCCCCHHHHH---HHHHhh-ccCcceeEEeeCCCCcCccCcchhhhccCCCCCCcEEEE-ecCChHHHHH
Q 038234          138 LGCET-----SNLGSLQSLV---RCISES-IEGKKYLVVLDDVWTDDYTKWEPFQRCSANGQCGNNILV-TTHKKTVARM  207 (406)
Q Consensus       138 l~~~~-----~~~~~~~~~~---~~l~~~-l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~Iiv-TtR~~~v~~~  207 (406)
                      ...+.     ......+++.   ..++.. ..+++-++|+|++...+....+.|...+..-...+.+|+ |+..+.+...
T Consensus        99 ~h~Dv~e~~a~s~~gvd~IReIie~~~~~P~~a~~KVvIIDEad~Ls~~a~naLLKtLEePp~~~~fIl~tte~~kll~t  178 (598)
T PRK09111         99 RHVDVLEMDAASHTGVDDIREIIESVRYRPVSARYKVYIIDEVHMLSTAAFNALLKTLEEPPPHVKFIFATTEIRKVPVT  178 (598)
T ss_pred             CCCceEEecccccCCHHHHHHHHHHHHhchhcCCcEEEEEEChHhCCHHHHHHHHHHHHhCCCCeEEEEEeCChhhhhHH
Confidence            11100     0112233333   222211 234566899999966655556667777765555666655 4444444433


Q ss_pred             h-ccCCccccCCCChHHHHHhhhhhc
Q 038234          208 M-ESTNFISIKELSTQECWSLFKQES  232 (406)
Q Consensus       208 ~-~~~~~~~l~~L~~~~a~~Lf~~~~  232 (406)
                      + .....+++.+++.++....+.+.+
T Consensus       179 I~SRcq~~~f~~l~~~el~~~L~~i~  204 (598)
T PRK09111        179 VLSRCQRFDLRRIEADVLAAHLSRIA  204 (598)
T ss_pred             HHhheeEEEecCCCHHHHHHHHHHHH
Confidence            3 336788999999999888887754

>PRK09112 DNA polymerase III subunit delta'; Validated

Probab=97.94  E-value=6.3e-05  Score=72.10  Aligned_cols=152  Identities=14%  Similarity=0.112  Sum_probs=94.4

Q ss_pred             CCceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChH------------------HHHHHHH
Q 038234           74 ESEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDF------------------RVAKAII  135 (406)
Q Consensus        74 ~~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~------------------~~~~~i~  135 (406)
                      ...++|.+.....+...+...     ...+.+.|+|+.|+||||+|..+.+..-.                  ...+.+.
T Consensus        22 ~~~l~Gh~~a~~~L~~a~~~g-----rl~ha~L~~G~~G~GKttlA~~lA~~Llc~~~~~~~~~~~~~~~~~c~~c~~i~   96 (351)
T PRK09112         22 NTRLFGHEEAEAFLAQAYREG-----KLHHALLFEGPEGIGKATLAFHLANHILSHPDPAEAPETLADPDPASPVWRQIA   96 (351)
T ss_pred             hhhccCcHHHHHHHHHHHHcC-----CCCeeEeeECCCCCCHHHHHHHHHHHHcCCCccccCccccCCCCCCCHHHHHHH
Confidence            356899999999999998753     33567899999999999999776553211                  1111121


Q ss_pred             HHhcC-------CC-C------CCCCHHHHHHHHHhhc-----cCcceeEEeeCCCCcCccCcchhhhccCCCCCCcEEE
Q 038234          136 AALGC-------ET-S------NLGSLQSLVRCISESI-----EGKKYLVVLDDVWTDDYTKWEPFQRCSANGQCGNNIL  196 (406)
Q Consensus       136 ~~l~~-------~~-~------~~~~~~~~~~~l~~~l-----~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~Ii  196 (406)
                      ..-.+       .. .      .....+++. .+.+.+     .+++-++|+|++...+....+.+...+.....+..+|
T Consensus        97 ~~~hPdl~~l~~~~~~~~~~~~~~I~vd~iR-~l~~~l~~~~~~g~~rVviIDeAd~l~~~aanaLLk~LEEpp~~~~fi  175 (351)
T PRK09112         97 QGAHPNLLHITRPFDEKTGKFKTAITVDEIR-RVGHFLSQTSGDGNWRIVIIDPADDMNRNAANAILKTLEEPPARALFI  175 (351)
T ss_pred             cCCCCCEEEeecccccccccccccCCHHHHH-HHHHHhhhccccCCceEEEEEchhhcCHHHHHHHHHHHhcCCCCceEE
Confidence            11000       00 0      011233332 333332     3567799999998777666777777775544455555


Q ss_pred             Eec-CChHHHHHh-ccCCccccCCCChHHHHHhhhhh
Q 038234          197 VTT-HKKTVARMM-ESTNFISIKELSTQECWSLFKQE  231 (406)
Q Consensus       197 vTt-R~~~v~~~~-~~~~~~~l~~L~~~~a~~Lf~~~  231 (406)
                      ++| +...+...+ +....+.+.+++.++...++.+.
T Consensus       176 Lit~~~~~llptIrSRc~~i~l~pl~~~~~~~~L~~~  212 (351)
T PRK09112        176 LISHSSGRLLPTIRSRCQPISLKPLDDDELKKALSHL  212 (351)
T ss_pred             EEECChhhccHHHHhhccEEEecCCCHHHHHHHHHHh
Confidence            444 433333322 23578999999999999888773

>PRK07471 DNA polymerase III subunit delta'; Validated

Probab=97.92  E-value=9.4e-05  Score=71.31  Aligned_cols=152  Identities=16%  Similarity=0.138  Sum_probs=96.6

Q ss_pred             CceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChH----------------------HHHH
Q 038234           75 SEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDF----------------------RVAK  132 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~----------------------~~~~  132 (406)
                      .+++|.+...+.|.+.+...     .-.+.+.++|+.|+||+++|..+.+..-.                      ...+
T Consensus        19 ~~iiGq~~~~~~L~~~~~~~-----rl~HA~Lf~Gp~G~GK~~lA~~~A~~Llc~~~~~~~~~~~~~~~l~~~~~c~~c~   93 (365)
T PRK07471         19 TALFGHAAAEAALLDAYRSG-----RLHHAWLIGGPQGIGKATLAYRMARFLLATPPPGGDGAVPPPTSLAIDPDHPVAR   93 (365)
T ss_pred             hhccChHHHHHHHHHHHHcC-----CCCceEEEECCCCCCHHHHHHHHHHHHhCCCCCCCCccccccccccCCCCChHHH
Confidence            56899999999999988753     33557899999999999999766543210                      1111


Q ss_pred             HHHHHhcCC-------CCC-------CCCHHHHHHHHHhhc-----cCcceeEEeeCCCCcCccCcchhhhccCCCCCCc
Q 038234          133 AIIAALGCE-------TSN-------LGSLQSLVRCISESI-----EGKKYLVVLDDVWTDDYTKWEPFQRCSANGQCGN  193 (406)
Q Consensus       133 ~i~~~l~~~-------~~~-------~~~~~~~~~~l~~~l-----~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs  193 (406)
                      .+......+       ..+       ...++++. .+.+.+     .+++-++|+|++...+....+.+...+..-..++
T Consensus        94 ~i~~~~HPDl~~i~~~~~~~~~~~~~~I~VdqiR-~l~~~~~~~~~~~~~kVviIDead~m~~~aanaLLK~LEepp~~~  172 (365)
T PRK07471         94 RIAAGAHGGLLTLERSWNEKGKRLRTVITVDEVR-ELISFFGLTAAEGGWRVVIVDTADEMNANAANALLKVLEEPPARS  172 (365)
T ss_pred             HHHccCCCCeEEEecccccccccccccccHHHHH-HHHHHhCcCcccCCCEEEEEechHhcCHHHHHHHHHHHhcCCCCe
Confidence            111111000       000       01233322 233332     2566799999998887777777877776655566


Q ss_pred             EEEEecCCh-HHHHHh-ccCCccccCCCChHHHHHhhhhhc
Q 038234          194 NILVTTHKK-TVARMM-ESTNFISIKELSTQECWSLFKQES  232 (406)
Q Consensus       194 ~IivTtR~~-~v~~~~-~~~~~~~l~~L~~~~a~~Lf~~~~  232 (406)
                      .+|++|.+. .+...+ .....+.+.+++.++..+++.+..
T Consensus       173 ~~IL~t~~~~~llpti~SRc~~i~l~~l~~~~i~~~L~~~~  213 (365)
T PRK07471        173 LFLLVSHAPARLLPTIRSRCRKLRLRPLAPEDVIDALAAAG  213 (365)
T ss_pred             EEEEEECCchhchHHhhccceEEECCCCCHHHHHHHHHHhc
Confidence            777777664 333332 336789999999999999887753

>PRK14952 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.91  E-value=1.7e-05  Score=80.60  Aligned_cols=153  Identities=12%  Similarity=0.129  Sum_probs=95.3

Q ss_pred             CceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChH------------HHHHHHHHHhcCC-
Q 038234           75 SEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDF------------RVAKAIIAALGCE-  141 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~------------~~~~~i~~~l~~~-  141 (406)
                      .+++|.+..++.|.+++...     .-.+.+.++|+.|+||||+|+.+++....            .....+...-... 
T Consensus        13 ~eivGq~~i~~~L~~~i~~~-----r~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pCg~C~~C~~i~~~~~~~~   87 (584)
T PRK14952         13 AEVVGQEHVTEPLSSALDAG-----RINHAYLFSGPRGCGKTSSARILARSLNCAQGPTATPCGVCESCVALAPNGPGSI   87 (584)
T ss_pred             HHhcCcHHHHHHHHHHHHcC-----CCCeEEEEECCCCCCHHHHHHHHHHHhccccCCCCCcccccHHHHHhhcccCCCc
Confidence            46899999999999998743     33556789999999999999888765321            1111111100000 


Q ss_pred             ------CCCCCCHHHH---HHHHHhh-ccCcceeEEeeCCCCcCccCcchhhhccCCCCCCcEEEE-ecCChHHHHHh-c
Q 038234          142 ------TSNLGSLQSL---VRCISES-IEGKKYLVVLDDVWTDDYTKWEPFQRCSANGQCGNNILV-TTHKKTVARMM-E  209 (406)
Q Consensus       142 ------~~~~~~~~~~---~~~l~~~-l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~Iiv-TtR~~~v~~~~-~  209 (406)
                            .......+++   ...+... ..+++-++|+|+++..+....+.|...+........+|+ ||....+...+ .
T Consensus        88 dvieidaas~~gvd~iRel~~~~~~~P~~~~~KVvIIDEah~Lt~~A~NALLK~LEEpp~~~~fIL~tte~~kll~TI~S  167 (584)
T PRK14952         88 DVVELDAASHGGVDDTRELRDRAFYAPAQSRYRIFIVDEAHMVTTAGFNALLKIVEEPPEHLIFIFATTEPEKVLPTIRS  167 (584)
T ss_pred             eEEEeccccccCHHHHHHHHHHHHhhhhcCCceEEEEECCCcCCHHHHHHHHHHHhcCCCCeEEEEEeCChHhhHHHHHH
Confidence                  0111123333   2222221 235666899999977776677777777766555666554 54445555433 3


Q ss_pred             cCCccccCCCChHHHHHhhhhhc
Q 038234          210 STNFISIKELSTQECWSLFKQES  232 (406)
Q Consensus       210 ~~~~~~l~~L~~~~a~~Lf~~~~  232 (406)
                      ....+++.+++.++....+.+.+
T Consensus       168 Rc~~~~F~~l~~~~i~~~L~~i~  190 (584)
T PRK14952        168 RTHHYPFRLLPPRTMRALIARIC  190 (584)
T ss_pred             hceEEEeeCCCHHHHHHHHHHHH
Confidence            36789999999999887776644

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

Probab=97.91  E-value=2.8e-05  Score=81.51  Aligned_cols=150  Identities=14%  Similarity=0.147  Sum_probs=81.4

Q ss_pred             CceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChH----------HHHHHHHHHhcCCCCC
Q 038234           75 SEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDF----------RVAKAIIAALGCETSN  144 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~----------~~~~~i~~~l~~~~~~  144 (406)
                      +.++||+.++.++++.|....      ..-+.++|++|+|||++|+.+++....          .+...-...+.....-
T Consensus       186 ~~liGR~~ei~~~i~iL~r~~------~~n~LLvGppGvGKT~lae~la~~i~~~~vP~~l~~~~~~~l~~~~llaG~~~  259 (758)
T PRK11034        186 DPLIGREKELERAIQVLCRRR------KNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSLLAGTKY  259 (758)
T ss_pred             CcCcCCCHHHHHHHHHHhccC------CCCeEEECCCCCCHHHHHHHHHHHHHhcCCCchhcCCeEEeccHHHHhcccch
Confidence            468999999999999888632      233468999999999999988754211          0000000111100000


Q ss_pred             CCCHHHHHHHH-HhhccCcceeEEeeCCCCc------CccCcc--h-hhhccCCCCCCcEEEEecCChHHHHH-------
Q 038234          145 LGSLQSLVRCI-SESIEGKKYLVVLDDVWTD------DYTKWE--P-FQRCSANGQCGNNILVTTHKKTVARM-------  207 (406)
Q Consensus       145 ~~~~~~~~~~l-~~~l~~kr~LlVlDdvw~~------~~~~~~--~-l~~~l~~~~~gs~IivTtR~~~v~~~-------  207 (406)
                      ..+.+...+.+ ...-+.++.+|++|+++.-      .....+  . +...+. .+ .-++|-+|..++....       
T Consensus       260 ~Ge~e~rl~~l~~~l~~~~~~ILfIDEIh~L~g~g~~~~g~~d~~nlLkp~L~-~g-~i~vIgATt~~E~~~~~~~D~AL  337 (758)
T PRK11034        260 RGDFEKRFKALLKQLEQDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLS-SG-KIRVIGSTTYQEFSNIFEKDRAL  337 (758)
T ss_pred             hhhHHHHHHHHHHHHHhcCCCEEEeccHHHHhccCCCCCcHHHHHHHHHHHHh-CC-CeEEEecCChHHHHHHhhccHHH
Confidence            11222222222 2222356789999999531      001111  1 222222 21 2345555544443221       


Q ss_pred             hccCCccccCCCChHHHHHhhhhhc
Q 038234          208 MESTNFISIKELSTQECWSLFKQES  232 (406)
Q Consensus       208 ~~~~~~~~l~~L~~~~a~~Lf~~~~  232 (406)
                      ...-..+.+.+++.++...++....
T Consensus       338 ~rRFq~I~v~ePs~~~~~~IL~~~~  362 (758)
T PRK11034        338 ARRFQKIDITEPSIEETVQIINGLK  362 (758)
T ss_pred             HhhCcEEEeCCCCHHHHHHHHHHHH
Confidence            1234678999999999999988643

>PRK14959 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.90  E-value=4.8e-05  Score=77.34  Aligned_cols=152  Identities=11%  Similarity=0.199  Sum_probs=91.8

Q ss_pred             CceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChH------------HHHHHHHHHhcCCC
Q 038234           75 SEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDF------------RVAKAIIAALGCET  142 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~------------~~~~~i~~~l~~~~  142 (406)
                      .+++|-+..++.|.+.+...     .-...+.++|+.|+||||+|+.+.+....            ...+.+......+.
T Consensus        16 ~dIiGQe~v~~~L~~ai~~~-----ri~ha~Lf~GPpG~GKTtiArilAk~L~C~~~~~~~pCg~C~sC~~i~~g~hpDv   90 (624)
T PRK14959         16 AEVAGQETVKAILSRAAQEN-----RVAPAYLFSGTRGVGKTTIARIFAKALNCETAPTGEPCNTCEQCRKVTQGMHVDV   90 (624)
T ss_pred             HHhcCCHHHHHHHHHHHHcC-----CCCceEEEECCCCCCHHHHHHHHHHhccccCCCCCCCCcccHHHHHHhcCCCCce
Confidence            35789888888888877642     22567889999999999999888765431            11111211111100


Q ss_pred             -----CCCCCHHHHHHHHHhh-----ccCcceeEEeeCCCCcCccCcchhhhccCCCCCCcEEEEecCC-hHHHHHh-cc
Q 038234          143 -----SNLGSLQSLVRCISES-----IEGKKYLVVLDDVWTDDYTKWEPFQRCSANGQCGNNILVTTHK-KTVARMM-ES  210 (406)
Q Consensus       143 -----~~~~~~~~~~~~l~~~-----l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTtR~-~~v~~~~-~~  210 (406)
                           ......+++. .+.+.     ..+++-++|+|++...+....+.|...+........+|++|.+ ..+...+ ..
T Consensus        91 ~eId~a~~~~Id~iR-~L~~~~~~~p~~g~~kVIIIDEad~Lt~~a~naLLk~LEEP~~~~ifILaTt~~~kll~TI~SR  169 (624)
T PRK14959         91 VEIDGASNRGIDDAK-RLKEAIGYAPMEGRYKVFIIDEAHMLTREAFNALLKTLEEPPARVTFVLATTEPHKFPVTIVSR  169 (624)
T ss_pred             EEEecccccCHHHHH-HHHHHHHhhhhcCCceEEEEEChHhCCHHHHHHHHHHhhccCCCEEEEEecCChhhhhHHHHhh
Confidence                 0011222222 22222     2456679999999766655666777776544445556655544 4444332 33


Q ss_pred             CCccccCCCChHHHHHhhhhhc
Q 038234          211 TNFISIKELSTQECWSLFKQES  232 (406)
Q Consensus       211 ~~~~~l~~L~~~~a~~Lf~~~~  232 (406)
                      ...+++.+++.++....+.+.+
T Consensus       170 cq~i~F~pLs~~eL~~~L~~il  191 (624)
T PRK14959        170 CQHFTFTRLSEAGLEAHLTKVL  191 (624)
T ss_pred             hhccccCCCCHHHHHHHHHHHH
Confidence            5688999999999888777643

>PRK08903 DnaA regulatory inactivator Hda; Validated

Probab=97.89  E-value=5.9e-05  Score=68.05  Aligned_cols=117  Identities=18%  Similarity=0.146  Sum_probs=60.5

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCChHHHHHHHHHHhcCCCCCCCCHHHHHHHHHhhccCcceeEEeeCCCCcCccCcch
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDKDFRVAKAIIAALGCETSNLGSLQSLVRCISESIEGKKYLVVLDDVWTDDYTKWEP  181 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdvw~~~~~~~~~  181 (406)
                      ...+.|+|.+|+|||+||+.+++....         -+... ...+.......+ .. ..+.-+||+||+...+...-..
T Consensus        42 ~~~~~l~G~~G~GKT~La~ai~~~~~~---------~~~~~-~~i~~~~~~~~~-~~-~~~~~~liiDdi~~l~~~~~~~  109 (227)
T PRK08903         42 DRFFYLWGEAGSGRSHLLQALVADASY---------GGRNA-RYLDAASPLLAF-DF-DPEAELYAVDDVERLDDAQQIA  109 (227)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHh---------CCCcE-EEEehHHhHHHH-hh-cccCCEEEEeChhhcCchHHHH
Confidence            457889999999999999998875311         00000 000001111111 11 1234479999995433222222


Q ss_pred             hhhccCC-CCCCc-EEEEecCChHHHH--------HhccCCccccCCCChHHHHHhhhh
Q 038234          182 FQRCSAN-GQCGN-NILVTTHKKTVAR--------MMESTNFISIKELSTQECWSLFKQ  230 (406)
Q Consensus       182 l~~~l~~-~~~gs-~IivTtR~~~v~~--------~~~~~~~~~l~~L~~~~a~~Lf~~  230 (406)
                      +...+.. ...+. .+|+|++......        .+.....+++.+++.++-..++.+
T Consensus       110 L~~~~~~~~~~~~~~vl~~~~~~~~~~~l~~~L~sr~~~~~~i~l~pl~~~~~~~~l~~  168 (227)
T PRK08903        110 LFNLFNRVRAHGQGALLVAGPAAPLALPLREDLRTRLGWGLVYELKPLSDADKIAALKA  168 (227)
T ss_pred             HHHHHHHHHHcCCcEEEEeCCCCHHhCCCCHHHHHHHhcCeEEEecCCCHHHHHHHHHH
Confidence            3333322 12233 4667766533211        222246788999998765555544

>PRK14950 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.89  E-value=5.3e-05  Score=77.89  Aligned_cols=153  Identities=10%  Similarity=0.172  Sum_probs=91.6

Q ss_pred             CceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChH-------------HHHHHHHHHhcCC
Q 038234           75 SEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDF-------------RVAKAIIAALGCE  141 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~-------------~~~~~i~~~l~~~  141 (406)
                      .+++|.+..++.|.+++...     .-.+.+.++|..|+||||+|+.+++....             ...+.+......+
T Consensus        16 ~eiiGq~~~~~~L~~~i~~~-----~i~~a~Lf~Gp~G~GKTtlA~~lA~~l~c~~~~~~~~~c~~c~~c~~i~~~~~~d   90 (585)
T PRK14950         16 AELVGQEHVVQTLRNAIAEG-----RVAHAYLFTGPRGVGKTSTARILAKAVNCTTNDPKGRPCGTCEMCRAIAEGSAVD   90 (585)
T ss_pred             HHhcCCHHHHHHHHHHHHhC-----CCceEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCccCHHHHHHhcCCCCe
Confidence            46899999999998888743     23456789999999999999888754311             2222222211111


Q ss_pred             C-----CCCCCHHHH---HHHHHhh-ccCcceeEEeeCCCCcCccCcchhhhccCCCCCCcEEEEecCC-hHHHHHh-cc
Q 038234          142 T-----SNLGSLQSL---VRCISES-IEGKKYLVVLDDVWTDDYTKWEPFQRCSANGQCGNNILVTTHK-KTVARMM-ES  210 (406)
Q Consensus       142 ~-----~~~~~~~~~---~~~l~~~-l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTtR~-~~v~~~~-~~  210 (406)
                      .     ......+++   +..+... ..+++-++|+|++...+....+.|...+......+.+|+++.+ ..+...+ ..
T Consensus        91 ~~~i~~~~~~~vd~ir~ii~~~~~~p~~~~~kVvIIDEa~~L~~~a~naLLk~LEepp~~tv~Il~t~~~~kll~tI~SR  170 (585)
T PRK14950         91 VIEMDAASHTSVDDAREIIERVQFRPALARYKVYIIDEVHMLSTAAFNALLKTLEEPPPHAIFILATTEVHKVPATILSR  170 (585)
T ss_pred             EEEEeccccCCHHHHHHHHHHHhhCcccCCeEEEEEeChHhCCHHHHHHHHHHHhcCCCCeEEEEEeCChhhhhHHHHhc
Confidence            0     011223333   2222211 2356678999999655544566666666554455666655543 3443332 23


Q ss_pred             CCccccCCCChHHHHHhhhhhc
Q 038234          211 TNFISIKELSTQECWSLFKQES  232 (406)
Q Consensus       211 ~~~~~l~~L~~~~a~~Lf~~~~  232 (406)
                      ...+.+.+++.++....+.+.+
T Consensus       171 ~~~i~f~~l~~~el~~~L~~~a  192 (585)
T PRK14950        171 CQRFDFHRHSVADMAAHLRKIA  192 (585)
T ss_pred             cceeeCCCCCHHHHHHHHHHHH
Confidence            5678888999988877776654

>TIGR02881 spore_V_K stage V sporulation protein K

Probab=97.87  E-value=9.4e-05  Score=68.25  Aligned_cols=149  Identities=10%  Similarity=0.098  Sum_probs=74.6

Q ss_pred             ceecchhhHHHHH---HHHhc------CCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChH-------HH----HHHHH
Q 038234           76 EICGRDYKKNELL---SKLLS------DSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDF-------RV----AKAII  135 (406)
Q Consensus        76 ~~vGR~~~~~~l~---~~L~~------~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~-------~~----~~~i~  135 (406)
                      .++|.+..++++.   .++..      ..-...+....+.++|++|+||||+|+.+++....       .+    ..++.
T Consensus         7 ~~~Gl~~vk~~i~~~~~~~~~~~~~~~~g~~~~~~~~~vll~GppGtGKTtlA~~ia~~l~~~~~~~~~~~v~~~~~~l~   86 (261)
T TIGR02881         7 RMVGLDEVKALIKEIYAWIQINEKRKEEGLKTSKQVLHMIFKGNPGTGKTTVARILGKLFKEMNVLSKGHLIEVERADLV   86 (261)
T ss_pred             HhcChHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCcceEEEEcCCCCCHHHHHHHHHHHHHhcCcccCCceEEecHHHhh
Confidence            4788777665554   33211      10001334567889999999999999998764211       00    00000


Q ss_pred             HHhcCCCCCCCCHHHHHHHHHhhccCcceeEEeeCCCCcCc--------cCcchhhhccCCCCCCcEEEEecCChHHHH-
Q 038234          136 AALGCETSNLGSLQSLVRCISESIEGKKYLVVLDDVWTDDY--------TKWEPFQRCSANGQCGNNILVTTHKKTVAR-  206 (406)
Q Consensus       136 ~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdvw~~~~--------~~~~~l~~~l~~~~~gs~IivTtR~~~v~~-  206 (406)
                      ....     ......+...+...   ..-+|++|++..-..        ...+.+...+........+|+++....... 
T Consensus        87 ~~~~-----g~~~~~~~~~~~~a---~~~VL~IDE~~~L~~~~~~~~~~~~i~~Ll~~~e~~~~~~~vila~~~~~~~~~  158 (261)
T TIGR02881        87 GEYI-----GHTAQKTREVIKKA---LGGVLFIDEAYSLARGGEKDFGKEAIDTLVKGMEDNRNEFVLILAGYSDEMDYF  158 (261)
T ss_pred             hhhc-----cchHHHHHHHHHhc---cCCEEEEechhhhccCCccchHHHHHHHHHHHHhccCCCEEEEecCCcchhHHH
Confidence            0000     00112222233322   234899999954211        112223333333333345555554433211 


Q ss_pred             ------Hhcc-CCccccCCCChHHHHHhhhhhc
Q 038234          207 ------MMES-TNFISIKELSTQECWSLFKQES  232 (406)
Q Consensus       207 ------~~~~-~~~~~l~~L~~~~a~~Lf~~~~  232 (406)
                            .... ...+.+++++.++-.+++.+.+
T Consensus       159 ~~~~p~L~sRf~~~i~f~~~~~~el~~Il~~~~  191 (261)
T TIGR02881       159 LSLNPGLRSRFPISIDFPDYTVEELMEIAERMV  191 (261)
T ss_pred             HhcChHHHhccceEEEECCCCHHHHHHHHHHHH
Confidence                  1111 3467899999999888887654

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.

>TIGR00678 holB DNA polymerase III, delta' subunit

Probab=97.83  E-value=2.1e-05  Score=68.82  Aligned_cols=130  Identities=12%  Similarity=0.099  Sum_probs=74.8

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCChH------------HHHHHHHHHhcCC------CCCCCCHHHHH---HHHHhh-c
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDKDF------------RVAKAIIAALGCE------TSNLGSLQSLV---RCISES-I  159 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~~~------------~~~~~i~~~l~~~------~~~~~~~~~~~---~~l~~~-l  159 (406)
                      .+.+.++|+.|+|||++|+.+.+....            .....+...-..+      .......+.+.   +.+... .
T Consensus        14 ~~~~L~~G~~G~gkt~~a~~~~~~l~~~~~~~~~~c~~~~~c~~~~~~~~~d~~~~~~~~~~~~~~~i~~i~~~~~~~~~   93 (188)
T TIGR00678        14 AHAYLFAGPEGVGKELLALALAKALLCEQPGGGEPCGECPSCRLIEAGNHPDLHRLEPEGQSIKVDQVRELVEFLSRTPQ   93 (188)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHHcCCCCcEEEeccccCcCCHHHHHHHHHHHccCcc
Confidence            467899999999999999877554211            0000000000000      00112233443   322221 2


Q ss_pred             cCcceeEEeeCCCCcCccCcchhhhccCCCCCCcEEEEecCCh-HHHHHh-ccCCccccCCCChHHHHHhhhhh
Q 038234          160 EGKKYLVVLDDVWTDDYTKWEPFQRCSANGQCGNNILVTTHKK-TVARMM-ESTNFISIKELSTQECWSLFKQE  231 (406)
Q Consensus       160 ~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTtR~~-~v~~~~-~~~~~~~l~~L~~~~a~~Lf~~~  231 (406)
                      .+.+-++|+||+...+....+.+...+......+.+|++|++. .+...+ .....+.+.+++.++....+.+.
T Consensus        94 ~~~~kviiide~~~l~~~~~~~Ll~~le~~~~~~~~il~~~~~~~l~~~i~sr~~~~~~~~~~~~~~~~~l~~~  167 (188)
T TIGR00678        94 ESGRRVVIIEDAERMNEAAANALLKTLEEPPPNTLFILITPSPEKLLPTIRSRCQVLPFPPLSEEALLQWLIRQ  167 (188)
T ss_pred             cCCeEEEEEechhhhCHHHHHHHHHHhcCCCCCeEEEEEECChHhChHHHHhhcEEeeCCCCCHHHHHHHHHHc
Confidence            3567789999996665555666777776655566777766653 332222 23568899999988887776653

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.

>PRK10865 protein disaggregation chaperone; Provisional

Probab=97.80  E-value=4e-05  Score=81.96  Aligned_cols=46  Identities=17%  Similarity=0.261  Sum_probs=37.8

Q ss_pred             CceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234           75 SEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      ..++||+.++.++++.|....      ..-+.++|.+|+|||+||+.+....
T Consensus       178 ~~vigr~~ei~~~i~iL~r~~------~~n~lL~G~pGvGKT~l~~~la~~i  223 (857)
T PRK10865        178 DPVIGRDEEIRRTIQVLQRRT------KNNPVLIGEPGVGKTAIVEGLAQRI  223 (857)
T ss_pred             CcCCCCHHHHHHHHHHHhcCC------cCceEEECCCCCCHHHHHHHHHHHh
Confidence            468999999999999997542      3346699999999999998887654

>PRK07133 DNA polymerase III subunits gamma and tau; Validated

Probab=97.79  E-value=4.5e-05  Score=78.70  Aligned_cols=153  Identities=14%  Similarity=0.176  Sum_probs=93.3

Q ss_pred             CceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChHH-------HHHHHHHHhcCCCC----
Q 038234           75 SEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDFR-------VAKAIIAALGCETS----  143 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~-------~~~~i~~~l~~~~~----  143 (406)
                      .+++|.+..++.|..++...     .-.+.+.++|+.|+||||+|+.+++..-..       .........+....    
T Consensus        18 ~dIiGQe~~v~~L~~aI~~~-----rl~HAYLF~GP~GtGKTt~AriLAk~LnC~~~~~~~~pC~~C~~~~~~~~Dviei   92 (725)
T PRK07133         18 DDIVGQDHIVQTLKNIIKSN-----KISHAYLFSGPRGTGKTSVAKIFANALNCSHKTDLLEPCQECIENVNNSLDIIEM   92 (725)
T ss_pred             HHhcCcHHHHHHHHHHHHcC-----CCCeEEEEECCCCCcHHHHHHHHHHHhcccccCCCCCchhHHHHhhcCCCcEEEE
Confidence            45889999999999999753     335677899999999999998886542110       00000011111100    


Q ss_pred             ---CCCCH---HHHHHHHHhh-ccCcceeEEeeCCCCcCccCcchhhhccCCCCCCcEEE-EecCChHHHHH-hccCCcc
Q 038234          144 ---NLGSL---QSLVRCISES-IEGKKYLVVLDDVWTDDYTKWEPFQRCSANGQCGNNIL-VTTHKKTVARM-MESTNFI  214 (406)
Q Consensus       144 ---~~~~~---~~~~~~l~~~-l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~Ii-vTtR~~~v~~~-~~~~~~~  214 (406)
                         .....   +++...+... ..+++-++|+|++.......++.+...+-.....+.+| +|+....+... ......+
T Consensus        93 daasn~~vd~IReLie~~~~~P~~g~~KV~IIDEa~~LT~~A~NALLKtLEEPP~~tifILaTte~~KLl~TI~SRcq~i  172 (725)
T PRK07133         93 DAASNNGVDEIRELIENVKNLPTQSKYKIYIIDEVHMLSKSAFNALLKTLEEPPKHVIFILATTEVHKIPLTILSRVQRF  172 (725)
T ss_pred             eccccCCHHHHHHHHHHHHhchhcCCCEEEEEEChhhCCHHHHHHHHHHhhcCCCceEEEEEcCChhhhhHHHHhhceeE
Confidence               01122   2333333222 23666799999997666556777777665544455544 55555555433 3345789


Q ss_pred             ccCCCChHHHHHhhhhhc
Q 038234          215 SIKELSTQECWSLFKQES  232 (406)
Q Consensus       215 ~l~~L~~~~a~~Lf~~~~  232 (406)
                      .+.+++.++....+...+
T Consensus       173 eF~~L~~eeI~~~L~~il  190 (725)
T PRK07133        173 NFRRISEDEIVSRLEFIL  190 (725)
T ss_pred             EccCCCHHHHHHHHHHHH
Confidence            999999999888777643

>PRK14087 dnaA chromosomal replication initiation protein; Provisional

Probab=97.78  E-value=9.9e-05  Score=73.28  Aligned_cols=123  Identities=20%  Similarity=0.241  Sum_probs=73.3

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCChH-------------HHHHHHHHHhcCCCCCCCCHHHHHHHHHhhccCcceeEEe
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDKDF-------------RVAKAIIAALGCETSNLGSLQSLVRCISESIEGKKYLVVL  168 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~~~-------------~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVl  168 (406)
                      ..-+.|+|..|+|||+|++++.+....             .+...+...+....       .....+.+.+. +.-+|||
T Consensus       141 ~npl~i~G~~G~GKTHLl~Ai~~~l~~~~~~~~v~yv~~~~f~~~~~~~l~~~~-------~~~~~~~~~~~-~~dvLiI  212 (450)
T PRK14087        141 YNPLFIYGESGMGKTHLLKAAKNYIESNFSDLKVSYMSGDEFARKAVDILQKTH-------KEIEQFKNEIC-QNDVLII  212 (450)
T ss_pred             cCceEEECCCCCcHHHHHHHHHHHHHHhCCCCeEEEEEHHHHHHHHHHHHHHhh-------hHHHHHHHHhc-cCCEEEE
Confidence            456889999999999999998873211             45555555443210       11122222222 3448999


Q ss_pred             eCCCCcCcc-Cc-chhhhccCC-CCCCcEEEEecCCh---------HHHHHhccCCccccCCCChHHHHHhhhhhc
Q 038234          169 DDVWTDDYT-KW-EPFQRCSAN-GQCGNNILVTTHKK---------TVARMMESTNFISIKELSTQECWSLFKQES  232 (406)
Q Consensus       169 Ddvw~~~~~-~~-~~l~~~l~~-~~~gs~IivTtR~~---------~v~~~~~~~~~~~l~~L~~~~a~~Lf~~~~  232 (406)
                      ||+...... .+ +.+...+.. ...|..||+|+...         .+...+...-++.+++++.++-.+++.+.+
T Consensus       213 DDiq~l~~k~~~~e~lf~l~N~~~~~~k~iIltsd~~P~~l~~l~~rL~SR~~~Gl~~~L~~pd~e~r~~iL~~~~  288 (450)
T PRK14087        213 DDVQFLSYKEKTNEIFFTIFNNFIENDKQLFFSSDKSPELLNGFDNRLITRFNMGLSIAIQKLDNKTATAIIKKEI  288 (450)
T ss_pred             eccccccCCHHHHHHHHHHHHHHHHcCCcEEEECCCCHHHHhhccHHHHHHHhCCceeccCCcCHHHHHHHHHHHH
Confidence            999643211 12 223333321 12345788887643         233334456788899999999999998765

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=97.78  E-value=2.8e-05  Score=83.39  Aligned_cols=151  Identities=13%  Similarity=0.129  Sum_probs=80.1

Q ss_pred             CceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChHH----HHHH--H----HHHhcCCCCC
Q 038234           75 SEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDFR----VAKA--I----IAALGCETSN  144 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~----~~~~--i----~~~l~~~~~~  144 (406)
                      ..++||+.++.+++..|....      ...+.++|.+|+|||++|+.+.......    .+..  +    +..+......
T Consensus       173 ~~~igr~~ei~~~~~~l~r~~------~~n~lL~G~pGvGKT~l~~~la~~i~~~~~p~~l~~~~~~~l~~~~l~a~~~~  246 (852)
T TIGR03346       173 DPVIGRDEEIRRTIQVLSRRT------KNNPVLIGEPGVGKTAIVEGLAQRIVNGDVPESLKNKRLLALDMGALIAGAKY  246 (852)
T ss_pred             CcCCCcHHHHHHHHHHHhcCC------CCceEEEcCCCCCHHHHHHHHHHHHhccCCchhhcCCeEEEeeHHHHhhcchh
Confidence            458999999999999997532      3345689999999999998877653210    0000  0    0011000001


Q ss_pred             CCCHH-HHHHHHHhhcc-CcceeEEeeCCCCcCc-----cCcchhhhccCCCCCC-cEEEEecCChHHHHH-------hc
Q 038234          145 LGSLQ-SLVRCISESIE-GKKYLVVLDDVWTDDY-----TKWEPFQRCSANGQCG-NNILVTTHKKTVARM-------ME  209 (406)
Q Consensus       145 ~~~~~-~~~~~l~~~l~-~kr~LlVlDdvw~~~~-----~~~~~l~~~l~~~~~g-s~IivTtR~~~v~~~-------~~  209 (406)
                      ..+.+ .+...+...-. +++.+|++|+++.-..     ..-+......|....| -.+|-+|.....-..       ..
T Consensus       247 ~g~~e~~l~~~l~~~~~~~~~~ILfIDEih~l~~~g~~~~~~d~~~~Lk~~l~~g~i~~IgaTt~~e~r~~~~~d~al~r  326 (852)
T TIGR03346       247 RGEFEERLKAVLNEVTKSEGQIILFIDELHTLVGAGKAEGAMDAGNMLKPALARGELHCIGATTLDEYRKYIEKDAALER  326 (852)
T ss_pred             hhhHHHHHHHHHHHHHhcCCCeEEEeccHHHhhcCCCCcchhHHHHHhchhhhcCceEEEEeCcHHHHHHHhhcCHHHHh
Confidence            11222 22233332222 4689999999953210     0011111111212223 345545544433221       12


Q ss_pred             cCCccccCCCChHHHHHhhhhh
Q 038234          210 STNFISIKELSTQECWSLFKQE  231 (406)
Q Consensus       210 ~~~~~~l~~L~~~~a~~Lf~~~  231 (406)
                      ....+.+...+.++...++...
T Consensus       327 Rf~~i~v~~p~~~~~~~iL~~~  348 (852)
T TIGR03346       327 RFQPVFVDEPTVEDTISILRGL  348 (852)
T ss_pred             cCCEEEeCCCCHHHHHHHHHHH
Confidence            2456789999999998888754

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.

>CHL00181 cbbX CbbX; Provisional

Probab=97.77  E-value=0.00025  Score=66.19  Aligned_cols=123  Identities=12%  Similarity=0.111  Sum_probs=66.6

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCChH-------HH----HHHHHHHhcCCCCCCCCHHHHHHHHHhhccCcceeEEeeC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDKDF-------RV----AKAIIAALGCETSNLGSLQSLVRCISESIEGKKYLVVLDD  170 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~~~-------~~----~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDd  170 (406)
                      ...+.++|.+|+|||++|+.+++....       .+    ...+.....+..     .......+.+.   ..-+|+||+
T Consensus        59 ~~~ill~G~pGtGKT~lAr~la~~~~~~g~~~~~~~~~v~~~~l~~~~~g~~-----~~~~~~~l~~a---~ggVLfIDE  130 (287)
T CHL00181         59 GLHMSFTGSPGTGKTTVALKMADILYKLGYIKKGHLLTVTRDDLVGQYIGHT-----APKTKEVLKKA---MGGVLFIDE  130 (287)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHHHHcCCCCCCceEEecHHHHHHHHhccc-----hHHHHHHHHHc---cCCEEEEEc
Confidence            345889999999999999999654211       00    011111111111     11122223322   234999999


Q ss_pred             CCCcC----ccCc-----chhhhccCCCCCCcEEEEecCChHHHHHh--------ccCCccccCCCChHHHHHhhhhhc
Q 038234          171 VWTDD----YTKW-----EPFQRCSANGQCGNNILVTTHKKTVARMM--------ESTNFISIKELSTQECWSLFKQES  232 (406)
Q Consensus       171 vw~~~----~~~~-----~~l~~~l~~~~~gs~IivTtR~~~v~~~~--------~~~~~~~l~~L~~~~a~~Lf~~~~  232 (406)
                      +..-.    ...+     +.+...+.....+..||+++....+....        .-...+.+.+++.++..+++...+
T Consensus       131 ~~~l~~~~~~~~~~~e~~~~L~~~me~~~~~~~vI~ag~~~~~~~~~~~np~L~sR~~~~i~F~~~t~~el~~I~~~~l  209 (287)
T CHL00181        131 AYYLYKPDNERDYGSEAIEILLQVMENQRDDLVVIFAGYKDRMDKFYESNPGLSSRIANHVDFPDYTPEELLQIAKIML  209 (287)
T ss_pred             cchhccCCCccchHHHHHHHHHHHHhcCCCCEEEEEeCCcHHHHHHHhcCHHHHHhCCceEEcCCcCHHHHHHHHHHHH
Confidence            95320    0112     22333344444456777777654432221        115678999999999988887754

>PRK06647 DNA polymerase III subunits gamma and tau; Validated

Probab=97.76  E-value=0.00027  Score=71.99  Aligned_cols=153  Identities=13%  Similarity=0.161  Sum_probs=95.3

Q ss_pred             CceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChH------------HHHHHHHHHhcCC-
Q 038234           75 SEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDF------------RVAKAIIAALGCE-  141 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~------------~~~~~i~~~l~~~-  141 (406)
                      .+++|-+..+..|..++...     .-.+.+.++|+.|+||||+|+.+++....            ...+.+...-... 
T Consensus        16 ~diiGqe~iv~~L~~~i~~~-----~i~hayLf~Gp~G~GKTt~Ar~lAk~L~c~~~~~~~pC~~C~~C~~i~~~~~~dv   90 (563)
T PRK06647         16 NSLEGQDFVVETLKHSIESN-----KIANAYIFSGPRGVGKTSSARAFARCLNCVNGPTPMPCGECSSCKSIDNDNSLDV   90 (563)
T ss_pred             HHccCcHHHHHHHHHHHHcC-----CCCeEEEEECCCCCCHHHHHHHHHHhhccccCCCCCCCccchHHHHHHcCCCCCe
Confidence            46899999999999999753     33567899999999999999988775421            0111111110000 


Q ss_pred             ----CCCCCCHHHHHHHH---Hh-hccCcceeEEeeCCCCcCccCcchhhhccCCCCCCcEEEEecCC-hHHHHHh-ccC
Q 038234          142 ----TSNLGSLQSLVRCI---SE-SIEGKKYLVVLDDVWTDDYTKWEPFQRCSANGQCGNNILVTTHK-KTVARMM-EST  211 (406)
Q Consensus       142 ----~~~~~~~~~~~~~l---~~-~l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTtR~-~~v~~~~-~~~  211 (406)
                          .......+++....   .. -..+++-++|+|++...+...++.+...+......+.+|++|.. ..+...+ ...
T Consensus        91 ~~idgas~~~vddIr~l~e~~~~~p~~~~~KVvIIDEa~~Ls~~a~naLLK~LEepp~~~vfI~~tte~~kL~~tI~SRc  170 (563)
T PRK06647         91 IEIDGASNTSVQDVRQIKEEIMFPPASSRYRVYIIDEVHMLSNSAFNALLKTIEEPPPYIVFIFATTEVHKLPATIKSRC  170 (563)
T ss_pred             EEecCcccCCHHHHHHHHHHHHhchhcCCCEEEEEEChhhcCHHHHHHHHHhhccCCCCEEEEEecCChHHhHHHHHHhc
Confidence                00112334443322   21 13466678999999766655667777777655556666665543 4444332 335


Q ss_pred             CccccCCCChHHHHHhhhhhc
Q 038234          212 NFISIKELSTQECWSLFKQES  232 (406)
Q Consensus       212 ~~~~l~~L~~~~a~~Lf~~~~  232 (406)
                      ..+++.+++.++....+.+.+
T Consensus       171 ~~~~f~~l~~~el~~~L~~i~  191 (563)
T PRK06647        171 QHFNFRLLSLEKIYNMLKKVC  191 (563)
T ss_pred             eEEEecCCCHHHHHHHHHHHH
Confidence            678999999999887777654

>PRK14965 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.74  E-value=4.1e-05  Score=78.38  Aligned_cols=152  Identities=11%  Similarity=0.154  Sum_probs=91.4

Q ss_pred             CceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChH------------HHHHHHHHHhcCC-
Q 038234           75 SEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDF------------RVAKAIIAALGCE-  141 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~------------~~~~~i~~~l~~~-  141 (406)
                      .+++|.+..+..|.+.+...     .-.+.+.++|+.|+||||+|+.+.+....            .....+...-..+ 
T Consensus        16 ~~iiGq~~v~~~L~~~i~~~-----~~~hayLf~Gp~G~GKtt~A~~lak~l~c~~~~~~~~c~~c~~c~~i~~g~~~d~   90 (576)
T PRK14965         16 SDLTGQEHVSRTLQNAIDTG-----RVAHAFLFTGARGVGKTSTARILAKALNCEQGLTAEPCNVCPPCVEITEGRSVDV   90 (576)
T ss_pred             HHccCcHHHHHHHHHHHHcC-----CCCeEEEEECCCCCCHHHHHHHHHHhhcCCCCCCCCCCCccHHHHHHhcCCCCCe
Confidence            46899999999999988743     23567789999999999999887665321            1111111100000 


Q ss_pred             ----CCCCCCHH---HHHHHHHhh-ccCcceeEEeeCCCCcCccCcchhhhccCCCCCCcEEEE-ecCChHHHHHh-ccC
Q 038234          142 ----TSNLGSLQ---SLVRCISES-IEGKKYLVVLDDVWTDDYTKWEPFQRCSANGQCGNNILV-TTHKKTVARMM-EST  211 (406)
Q Consensus       142 ----~~~~~~~~---~~~~~l~~~-l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~Iiv-TtR~~~v~~~~-~~~  211 (406)
                          .......+   ++...+... ..+++-++|+|+++..+....+.|...+......+.+|+ ||....+...+ ...
T Consensus        91 ~eid~~s~~~v~~ir~l~~~~~~~p~~~~~KVvIIdev~~Lt~~a~naLLk~LEepp~~~~fIl~t~~~~kl~~tI~SRc  170 (576)
T PRK14965         91 FEIDGASNTGVDDIRELRENVKYLPSRSRYKIFIIDEVHMLSTNAFNALLKTLEEPPPHVKFIFATTEPHKVPITILSRC  170 (576)
T ss_pred             eeeeccCccCHHHHHHHHHHHHhccccCCceEEEEEChhhCCHHHHHHHHHHHHcCCCCeEEEEEeCChhhhhHHHHHhh
Confidence                00111222   333322211 235556899999976665566677777765445556654 55545555443 336


Q ss_pred             CccccCCCChHHHHHhhhhh
Q 038234          212 NFISIKELSTQECWSLFKQE  231 (406)
Q Consensus       212 ~~~~l~~L~~~~a~~Lf~~~  231 (406)
                      ..+++.+++.++....+...
T Consensus       171 ~~~~f~~l~~~~i~~~L~~i  190 (576)
T PRK14965        171 QRFDFRRIPLQKIVDRLRYI  190 (576)
T ss_pred             hhhhcCCCCHHHHHHHHHHH
Confidence            77889999998877666543

>PRK14953 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.74  E-value=0.00028  Score=70.64  Aligned_cols=152  Identities=12%  Similarity=0.152  Sum_probs=90.1

Q ss_pred             CceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChH----H-----HHHHHHHHh-cCCC--
Q 038234           75 SEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDF----R-----VAKAIIAAL-GCET--  142 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~----~-----~~~~i~~~l-~~~~--  142 (406)
                      .+++|.+..+..|.+++...     .-.+.+.++|+.|+||||+|+.++.....    .     .... ...+ .+..  
T Consensus        16 ~diiGq~~i~~~L~~~i~~~-----~i~hayLf~Gp~G~GKTtlAr~lAk~L~c~~~~~~~pc~~c~n-c~~i~~g~~~d   89 (486)
T PRK14953         16 KEVIGQEIVVRILKNAVKLQ-----RVSHAYIFAGPRGTGKTTIARILAKVLNCLNPQEGEPCGKCEN-CVEIDKGSFPD   89 (486)
T ss_pred             HHccChHHHHHHHHHHHHcC-----CCCeEEEEECCCCCCHHHHHHHHHHHhcCcCCCCCCCCCccHH-HHHHhcCCCCc
Confidence            35889999999999999753     23556788999999999999887664321    0     0000 0001 0000  


Q ss_pred             ------CCCCCHH---HHHHHHHhh-ccCcceeEEeeCCCCcCccCcchhhhccCCCCCCcEEEE-ecCChHHHHHh-cc
Q 038234          143 ------SNLGSLQ---SLVRCISES-IEGKKYLVVLDDVWTDDYTKWEPFQRCSANGQCGNNILV-TTHKKTVARMM-ES  210 (406)
Q Consensus       143 ------~~~~~~~---~~~~~l~~~-l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~Iiv-TtR~~~v~~~~-~~  210 (406)
                            ......+   .+...+... ..+++-++|+|+++.......+.+...+........+|+ ||+...+...+ ..
T Consensus        90 ~~eidaas~~gvd~ir~I~~~~~~~P~~~~~KVvIIDEad~Lt~~a~naLLk~LEepp~~~v~Il~tt~~~kl~~tI~SR  169 (486)
T PRK14953         90 LIEIDAASNRGIDDIRALRDAVSYTPIKGKYKVYIIDEAHMLTKEAFNALLKTLEEPPPRTIFILCTTEYDKIPPTILSR  169 (486)
T ss_pred             EEEEeCccCCCHHHHHHHHHHHHhCcccCCeeEEEEEChhhcCHHHHHHHHHHHhcCCCCeEEEEEECCHHHHHHHHHHh
Confidence                  0111222   333222221 245677999999965554455666666655444555554 44444444332 33


Q ss_pred             CCccccCCCChHHHHHhhhhhc
Q 038234          211 TNFISIKELSTQECWSLFKQES  232 (406)
Q Consensus       211 ~~~~~l~~L~~~~a~~Lf~~~~  232 (406)
                      ...+.+.+++.++....+.+.+
T Consensus       170 c~~i~f~~ls~~el~~~L~~i~  191 (486)
T PRK14953        170 CQRFIFSKPTKEQIKEYLKRIC  191 (486)
T ss_pred             ceEEEcCCCCHHHHHHHHHHHH
Confidence            5678999999999887777654

>TIGR00362 DnaA chromosomal replication initiator protein DnaA

Probab=97.72  E-value=0.00022  Score=70.23  Aligned_cols=121  Identities=16%  Similarity=0.196  Sum_probs=67.5

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCChH-------------HHHHHHHHHhcCCCCCCCCHHHHHHHHHhhccCcceeEEe
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDKDF-------------RVAKAIIAALGCETSNLGSLQSLVRCISESIEGKKYLVVL  168 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~~~-------------~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVl  168 (406)
                      ...+.|+|.+|+|||+|++++++....             .+...+...+...     ..+.....+    . +.-+|||
T Consensus       136 ~n~l~l~G~~G~GKThL~~ai~~~l~~~~~~~~v~yi~~~~~~~~~~~~~~~~-----~~~~~~~~~----~-~~dlLii  205 (405)
T TIGR00362       136 YNPLFIYGGVGLGKTHLLHAIGNEILENNPNAKVVYVSSEKFTNDFVNALRNN-----KMEEFKEKY----R-SVDLLLI  205 (405)
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHHHHHhCCCCcEEEEEHHHHHHHHHHHHHcC-----CHHHHHHHH----H-hCCEEEE
Confidence            456889999999999999998865321             3333333333211     122222222    2 1348999


Q ss_pred             eCCCCcCccCc--chhhhccCC-CCCCcEEEEecCCh-H--------HHHHhccCCccccCCCChHHHHHhhhhhc
Q 038234          169 DDVWTDDYTKW--EPFQRCSAN-GQCGNNILVTTHKK-T--------VARMMESTNFISIKELSTQECWSLFKQES  232 (406)
Q Consensus       169 Ddvw~~~~~~~--~~l~~~l~~-~~~gs~IivTtR~~-~--------v~~~~~~~~~~~l~~L~~~~a~~Lf~~~~  232 (406)
                      ||++......+  ..+...+.. ...|..+|+|+... .        +...+.....+.+.+.+.++-..++.+.+
T Consensus       206 DDi~~l~~~~~~~~~l~~~~n~~~~~~~~iiits~~~p~~l~~l~~~l~SRl~~g~~v~i~~pd~~~r~~il~~~~  281 (405)
T TIGR00362       206 DDIQFLAGKERTQEEFFHTFNALHENGKQIVLTSDRPPKELPGLEERLRSRFEWGLVVDIEPPDLETRLAILQKKA  281 (405)
T ss_pred             ehhhhhcCCHHHHHHHHHHHHHHHHCCCCEEEecCCCHHHHhhhhhhhhhhccCCeEEEeCCCCHHHHHHHHHHHH
Confidence            99964321111  123222221 12345677777642 2        11222234578899999999888888765

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).

>PRK06305 DNA polymerase III subunits gamma and tau; Validated

Probab=97.70  E-value=3.4e-05  Score=76.60  Aligned_cols=153  Identities=13%  Similarity=0.180  Sum_probs=89.7

Q ss_pred             CceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChH-------------HHHHHHHHHhc--
Q 038234           75 SEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDF-------------RVAKAIIAALG--  139 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~-------------~~~~~i~~~l~--  139 (406)
                      .+++|.+..+..+.+++...     .-.+.+.++|+.|+||||+|+.+.+....             .....+...-.  
T Consensus        17 ~diiGq~~~v~~L~~~i~~~-----~i~ha~Lf~Gp~G~GKtt~A~~lAk~l~c~~~~~~~~~c~~c~~C~~i~~~~~~d   91 (451)
T PRK06305         17 SEILGQDAVVAVLKNALRFN-----RAAHAYLFSGIRGTGKTTLARIFAKALNCQNPTEDQEPCNQCASCKEISSGTSLD   91 (451)
T ss_pred             HHhcCcHHHHHHHHHHHHcC-----CCceEEEEEcCCCCCHHHHHHHHHHHhcCCCcccCCCCCcccHHHHHHhcCCCCc
Confidence            46899999999999998743     23467889999999999999887654211             00000000000  


Q ss_pred             ---CCCCCCCCHHHHHH---HHHhh-ccCcceeEEeeCCCCcCccCcchhhhccCCCCCCcEEEEec-CChHHHHHh-cc
Q 038234          140 ---CETSNLGSLQSLVR---CISES-IEGKKYLVVLDDVWTDDYTKWEPFQRCSANGQCGNNILVTT-HKKTVARMM-ES  210 (406)
Q Consensus       140 ---~~~~~~~~~~~~~~---~l~~~-l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTt-R~~~v~~~~-~~  210 (406)
                         .........+++..   .+... ..+++-++|+|++........+.+...+.+...++.+|++| +...+...+ ..
T Consensus        92 ~~~i~g~~~~gid~ir~i~~~l~~~~~~~~~kvvIIdead~lt~~~~n~LLk~lEep~~~~~~Il~t~~~~kl~~tI~sR  171 (451)
T PRK06305         92 VLEIDGASHRGIEDIRQINETVLFTPSKSRYKIYIIDEVHMLTKEAFNSLLKTLEEPPQHVKFFLATTEIHKIPGTILSR  171 (451)
T ss_pred             eEEeeccccCCHHHHHHHHHHHHhhhhcCCCEEEEEecHHhhCHHHHHHHHHHhhcCCCCceEEEEeCChHhcchHHHHh
Confidence               00001112233322   22111 23567789999996554444555666665544466666555 333333332 33


Q ss_pred             CCccccCCCChHHHHHhhhhhc
Q 038234          211 TNFISIKELSTQECWSLFKQES  232 (406)
Q Consensus       211 ~~~~~l~~L~~~~a~~Lf~~~~  232 (406)
                      ...+++.+++.++....+.+.+
T Consensus       172 c~~v~f~~l~~~el~~~L~~~~  193 (451)
T PRK06305        172 CQKMHLKRIPEETIIDKLALIA  193 (451)
T ss_pred             ceEEeCCCCCHHHHHHHHHHHH
Confidence            6788999999999887776643

>PRK14971 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.69  E-value=0.0002  Score=73.67  Aligned_cols=153  Identities=13%  Similarity=0.199  Sum_probs=95.6

Q ss_pred             CceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChH-------------HHHHHHHHHhcC-
Q 038234           75 SEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDF-------------RVAKAIIAALGC-  140 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~-------------~~~~~i~~~l~~-  140 (406)
                      .+++|.+..++.|..++...     .-.+.+.++|+.|+||||+|+.+.+....             ..-..+-..-.. 
T Consensus        17 ~~viGq~~~~~~L~~~i~~~-----~l~hayLf~Gp~G~GKtt~A~~lAk~l~c~~~~~~~~~Cg~C~sC~~~~~~~~~n   91 (614)
T PRK14971         17 ESVVGQEALTTTLKNAIATN-----KLAHAYLFCGPRGVGKTTCARIFAKTINCQNLTADGEACNECESCVAFNEQRSYN   91 (614)
T ss_pred             HHhcCcHHHHHHHHHHHHcC-----CCCeeEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCCCcchHHHHHhcCCCCc
Confidence            46899999999999998753     33567899999999999999877654210             000001000000 


Q ss_pred             ----CCCCCCCHHHHHHHHHhh----ccCcceeEEeeCCCCcCccCcchhhhccCCCCCCcEEEE-ecCChHHHHHh-cc
Q 038234          141 ----ETSNLGSLQSLVRCISES----IEGKKYLVVLDDVWTDDYTKWEPFQRCSANGQCGNNILV-TTHKKTVARMM-ES  210 (406)
Q Consensus       141 ----~~~~~~~~~~~~~~l~~~----l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~Iiv-TtR~~~v~~~~-~~  210 (406)
                          ........+++...+...    ..+++-++|+|++...+...++.|...+..-..++.+|+ |+....+...+ ..
T Consensus        92 ~~~ld~~~~~~vd~Ir~li~~~~~~P~~~~~KVvIIdea~~Ls~~a~naLLK~LEepp~~tifIL~tt~~~kIl~tI~SR  171 (614)
T PRK14971         92 IHELDAASNNSVDDIRNLIEQVRIPPQIGKYKIYIIDEVHMLSQAAFNAFLKTLEEPPSYAIFILATTEKHKILPTILSR  171 (614)
T ss_pred             eEEecccccCCHHHHHHHHHHHhhCcccCCcEEEEEECcccCCHHHHHHHHHHHhCCCCCeEEEEEeCCchhchHHHHhh
Confidence                001112234444433221    335666899999976665667777777766555666555 54545555443 33


Q ss_pred             CCccccCCCChHHHHHhhhhhc
Q 038234          211 TNFISIKELSTQECWSLFKQES  232 (406)
Q Consensus       211 ~~~~~l~~L~~~~a~~Lf~~~~  232 (406)
                      ..++++.+++.++....+.+.+
T Consensus       172 c~iv~f~~ls~~ei~~~L~~ia  193 (614)
T PRK14971        172 CQIFDFNRIQVADIVNHLQYVA  193 (614)
T ss_pred             hheeecCCCCHHHHHHHHHHHH
Confidence            6789999999999888887644

>PRK14948 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.68  E-value=0.00019  Score=73.83  Aligned_cols=153  Identities=12%  Similarity=0.191  Sum_probs=91.7

Q ss_pred             CceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChH--------------HHHHHHHHHhcC
Q 038234           75 SEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDF--------------RVAKAIIAALGC  140 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~--------------~~~~~i~~~l~~  140 (406)
                      .+++|.+..+..|..++...     .-.+.+.++|..|+||||+|+.+++....              ...+.+......
T Consensus        16 ~~liGq~~i~~~L~~~l~~~-----rl~~a~Lf~Gp~G~GKttlA~~lAk~L~c~~~~~~~~~~Cg~C~~C~~i~~g~h~   90 (620)
T PRK14948         16 DELVGQEAIATTLKNALISN-----RIAPAYLFTGPRGTGKTSSARILAKSLNCLNSDKPTPEPCGKCELCRAIAAGNAL   90 (620)
T ss_pred             hhccChHHHHHHHHHHHHcC-----CCCceEEEECCCCCChHHHHHHHHHHhcCCCcCCCCCCCCcccHHHHHHhcCCCc
Confidence            45889999999999988753     22456789999999999999988765321              111222111111


Q ss_pred             C-----CCCCCCHHHHHHHHHhh----ccCcceeEEeeCCCCcCccCcchhhhccCCCCCCcEEEEecCC-hHHHHHh-c
Q 038234          141 E-----TSNLGSLQSLVRCISES----IEGKKYLVVLDDVWTDDYTKWEPFQRCSANGQCGNNILVTTHK-KTVARMM-E  209 (406)
Q Consensus       141 ~-----~~~~~~~~~~~~~l~~~----l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTtR~-~~v~~~~-~  209 (406)
                      +     .......+.+...+...    ..+++-++|+|++...+...++.|...+..-...+.+|++|.+ ..+...+ .
T Consensus        91 D~~ei~~~~~~~vd~IReii~~a~~~p~~~~~KViIIDEad~Lt~~a~naLLK~LEePp~~tvfIL~t~~~~~llpTIrS  170 (620)
T PRK14948         91 DVIEIDAASNTGVDNIRELIERAQFAPVQARWKVYVIDECHMLSTAAFNALLKTLEEPPPRVVFVLATTDPQRVLPTIIS  170 (620)
T ss_pred             cEEEEeccccCCHHHHHHHHHHHhhChhcCCceEEEEECccccCHHHHHHHHHHHhcCCcCeEEEEEeCChhhhhHHHHh
Confidence            1     01112233333332221    2355668999999766655666777777654445555555544 3333332 3


Q ss_pred             cCCccccCCCChHHHHHhhhhhc
Q 038234          210 STNFISIKELSTQECWSLFKQES  232 (406)
Q Consensus       210 ~~~~~~l~~L~~~~a~~Lf~~~~  232 (406)
                      ....+.+..++.++....+.+.+
T Consensus       171 Rc~~~~f~~l~~~ei~~~L~~ia  193 (620)
T PRK14948        171 RCQRFDFRRIPLEAMVQHLSEIA  193 (620)
T ss_pred             heeEEEecCCCHHHHHHHHHHHH
Confidence            35678888999888777666543

>PRK12422 chromosomal replication initiation protein; Provisional

Probab=97.68  E-value=0.00036  Score=69.13  Aligned_cols=121  Identities=16%  Similarity=0.181  Sum_probs=69.3

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCChH-----------HHHHHHHHHhcCCCCCCCCHHHHHHHHHhhccCcceeEEeeC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDKDF-----------RVAKAIIAALGCETSNLGSLQSLVRCISESIEGKKYLVVLDD  170 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~~~-----------~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDd  170 (406)
                      ..-+.|+|+.|+|||+|++++++....           .+...+...+..     ...    ..++..+. +.-+|++||
T Consensus       141 ~npl~L~G~~G~GKTHLl~Ai~~~l~~~~~~v~yi~~~~f~~~~~~~l~~-----~~~----~~f~~~~~-~~dvLiIDD  210 (445)
T PRK12422        141 FNPIYLFGPEGSGKTHLMQAAVHALRESGGKILYVRSELFTEHLVSAIRS-----GEM----QRFRQFYR-NVDALFIED  210 (445)
T ss_pred             CceEEEEcCCCCCHHHHHHHHHHHHHHcCCCEEEeeHHHHHHHHHHHHhc-----chH----HHHHHHcc-cCCEEEEcc
Confidence            456889999999999999998875421           233333333321     011    12222222 345889999


Q ss_pred             CCCcCccCc--chhhhccCC-CCCCcEEEEecCCh-H--------HHHHhccCCccccCCCChHHHHHhhhhhc
Q 038234          171 VWTDDYTKW--EPFQRCSAN-GQCGNNILVTTHKK-T--------VARMMESTNFISIKELSTQECWSLFKQES  232 (406)
Q Consensus       171 vw~~~~~~~--~~l~~~l~~-~~~gs~IivTtR~~-~--------v~~~~~~~~~~~l~~L~~~~a~~Lf~~~~  232 (406)
                      +.......+  +.+...+.. ...|..||+||... .        +...+.....+.+.+++.++-..++.+.+
T Consensus       211 iq~l~~k~~~qeelf~l~N~l~~~~k~IIlts~~~p~~l~~l~~rL~SR~~~Gl~~~l~~pd~e~r~~iL~~k~  284 (445)
T PRK12422        211 IEVFSGKGATQEEFFHTFNSLHTEGKLIVISSTCAPQDLKAMEERLISRFEWGIAIPLHPLTKEGLRSFLERKA  284 (445)
T ss_pred             hhhhcCChhhHHHHHHHHHHHHHCCCcEEEecCCCHHHHhhhHHHHHhhhcCCeEEecCCCCHHHHHHHHHHHH
Confidence            965322122  122222211 11345788888552 1        22223335788999999999998888765

>COG3903 Predicted ATPase [General function prediction only]

Probab=97.67  E-value=1.4e-05  Score=75.82  Aligned_cols=253  Identities=17%  Similarity=0.085  Sum_probs=147.2

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHhcCChH------------------HHHHHHHHHhcCCCCCCCCHHHHHHHHHhhccCc
Q 038234          101 PIKMISIVGMGGIGKITLAQMAYNDKDF------------------RVAKAIIAALGCETSNLGSLQSLVRCISESIEGK  162 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~------------------~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~k  162 (406)
                      ..+.+.++|.|||||||++-++.. ...                  .+.-.++..++....   +-+..+..+.....++
T Consensus        13 ~~RlvtL~g~ggvgkttl~~~~a~-~~~~~~~~v~~vdl~pitD~~~v~~~~ag~~gl~~~---~g~~~~~~~~~~~~~r   88 (414)
T COG3903          13 ALRLVTLTGAGGVGKTTLALQAAH-AASEYADGVAFVDLAPITDPALVFPTLAGALGLHVQ---PGDSAVDTLVRRIGDR   88 (414)
T ss_pred             hhheeeeeccCccceehhhhhhHh-HhhhcccceeeeeccccCchhHhHHHHHhhcccccc---cchHHHHHHHHHHhhh
Confidence            367899999999999999987776 211                  222222332332221   1133445566677789


Q ss_pred             ceeEEeeCCCCcCccCcchhhhccCCCCCCcEEEEecCChHHHHHhccCCccccCCCChH-HHHHhhhhhc---------
Q 038234          163 KYLVVLDDVWTDDYTKWEPFQRCSANGQCGNNILVTTHKKTVARMMESTNFISIKELSTQ-ECWSLFKQES---------  232 (406)
Q Consensus       163 r~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTtR~~~v~~~~~~~~~~~l~~L~~~-~a~~Lf~~~~---------  232 (406)
                      |.++|+||.-+- .+.-..+...+..+...-.|+.|+|..-..   .......+.+|+.. ++.++|...+         
T Consensus        89 r~llvldncehl-~~~~a~~i~all~~~~~~~~~atsre~~l~---~ge~~~~~~~L~~~d~a~~lf~~ra~~~~~~f~l  164 (414)
T COG3903          89 RALLVLDNCEHL-LDACAALIVALLGACPRLAILATSREAILV---AGEVHRRVPSLSLFDEAIELFVCRAVLVALSFWL  164 (414)
T ss_pred             hHHHHhcCcHHH-HHHHHHHHHHHHccchhhhhHHHhHhhhcc---cccccccCCccccCCchhHHHHHHHHHhccceee
Confidence            999999998211 011112233333444455788888864332   33566777888766 6888887766         


Q ss_pred             -------cccch------hHHHHHHhhhhcchhhH-------HhhhhhccchhhhhhhhhhhHHHHHHhccccCChhhhh
Q 038234          233 -------SAKPC------LLLQKLLGVSCALKELE-------MSGKNSLDSELWQLQELEKDLFSLLLLNYYDLPYRIKQ  292 (406)
Q Consensus       233 -------i~~~c------PLai~~~g~~L~~~~~~-------~~w~~~~~~~~~~~~~~~~~~~~~l~~sy~~L~~~~k~  292 (406)
                             +...|      |++|...++..+.-...       +.|...-.. ............+.+.+||.-|..-.+-
T Consensus       165 ~~~~~a~v~~icr~ldg~~laielaaarv~sl~~~~i~~~L~drf~ll~~~-~r~a~~~~qtl~asl~ws~~lLtgwe~~  243 (414)
T COG3903         165 TDDNAAAVAEICRRLDGIPLAIELAAARVRSLSPDEIAAGLRDRFRLLTGG-ARLAVLRQQTLRASLDWSYALLTGWERA  243 (414)
T ss_pred             cCCchHHHHHHHHHhhcchHHHHHHHHHHHhcCHHHHHHHHhhHHHHHhcc-cccchhHHHhccchhhhhhHhhhhHHHH
Confidence                   22233      99999888776554311       112221111 1112234567899999999999999999


Q ss_pred             HHhhhcccCCCCccCHHHHHHHHHHCCCcccccCCCHHHHHHHHHHHHHhcCCcceeecCCCCcccEEEECHHHHHHHHH
Q 038234          293 CFRYCFISPKDSCIWKEDLIKLWIAQSFIEAKENKEMEIIDEEYFDYLTARSFFQEFHKGSDDIITECKMHDIVHDFAQF  372 (406)
Q Consensus       293 cfl~la~Fp~~~~i~~~~Li~~W~aeg~i~~~~~~~~e~~~~~~l~~L~~~sll~~~~~~~~~~~~~~~mHdlv~~~~~~  372 (406)
                      .|.-++.|...|....    ..|.+-|-.-.    .+.-..-.-+..|++.+++..-...   ....|+.-+-++.|+..
T Consensus       244 ~~~rLa~~~g~f~~~l----~~~~a~g~~~~----~~~y~~~~a~~ll~~kslv~a~~~~---~~a~~Rl~eT~r~Yala  312 (414)
T COG3903         244 LFGRLAVFVGGFDLGL----ALAVAAGADVD----VPRYLVLLALTLLVDKSLVVALDLL---GRARYRLLETGRRYALA  312 (414)
T ss_pred             HhcchhhhhhhhcccH----HHHHhcCCccc----cchHHHHHHHHHHhhccchhhhhhh---hHHHHHHHHHHHHHHHH
Confidence            9999999999865542    33444332110    0111222335677788887532221   11335555556666544


Q ss_pred             h
Q 038234          373 L  373 (406)
Q Consensus       373 ~  373 (406)
                      +
T Consensus       313 e  313 (414)
T COG3903         313 E  313 (414)
T ss_pred             H
Confidence            3

>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX

Probab=97.67  E-value=0.00015  Score=67.72  Aligned_cols=122  Identities=13%  Similarity=0.108  Sum_probs=65.8

Q ss_pred             EEEEEeeeCCCcHHHHHHHHhcCChH----------HH-HHHHHHHhcCCCCCCCCHHHHHHHHHhhccCcceeEEeeCC
Q 038234          103 KMISIVGMGGIGKITLAQMAYNDKDF----------RV-AKAIIAALGCETSNLGSLQSLVRCISESIEGKKYLVVLDDV  171 (406)
Q Consensus       103 ~vi~I~G~gGiGKTtLA~~v~~~~~~----------~~-~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv  171 (406)
                      .-+.++|++|+|||++|+.+++....          .+ ..++...+.+..     .......+.+.   ..-+|+||++
T Consensus        59 ~~vll~G~pGTGKT~lA~~ia~~l~~~g~~~~~~~v~v~~~~l~~~~~g~~-----~~~~~~~~~~a---~~gvL~iDEi  130 (284)
T TIGR02880        59 LHMSFTGNPGTGKTTVALRMAQILHRLGYVRKGHLVSVTRDDLVGQYIGHT-----APKTKEILKRA---MGGVLFIDEA  130 (284)
T ss_pred             ceEEEEcCCCCCHHHHHHHHHHHHHHcCCcccceEEEecHHHHhHhhcccc-----hHHHHHHHHHc---cCcEEEEech
Confidence            35889999999999999666543211          00 011222221111     11222223332   2358999999


Q ss_pred             CCc----C-----ccCcchhhhccCCCCCCcEEEEecCChHHHHHhc--------cCCccccCCCChHHHHHhhhhhc
Q 038234          172 WTD----D-----YTKWEPFQRCSANGQCGNNILVTTHKKTVARMME--------STNFISIKELSTQECWSLFKQES  232 (406)
Q Consensus       172 w~~----~-----~~~~~~l~~~l~~~~~gs~IivTtR~~~v~~~~~--------~~~~~~l~~L~~~~a~~Lf~~~~  232 (406)
                      ..-    +     ....+.+...+.....+.+||+++.....-....        -...+++.+++.+|-..++....
T Consensus       131 ~~L~~~~~~~~~~~~~~~~Ll~~le~~~~~~~vI~a~~~~~~~~~~~~np~L~sR~~~~i~fp~l~~edl~~I~~~~l  208 (284)
T TIGR02880       131 YYLYRPDNERDYGQEAIEILLQVMENQRDDLVVILAGYKDRMDSFFESNPGFSSRVAHHVDFPDYSEAELLVIAGLML  208 (284)
T ss_pred             hhhccCCCccchHHHHHHHHHHHHhcCCCCEEEEEeCCcHHHHHHHhhCHHHHhhCCcEEEeCCcCHHHHHHHHHHHH
Confidence            522    0     1112334444444444556777765443222211        14568999999999998887754

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.

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

Probab=97.66  E-value=0.00017  Score=63.58  Aligned_cols=123  Identities=19%  Similarity=0.300  Sum_probs=74.1

Q ss_pred             ccCCCceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChHHHHHHHHHHhcCCCCCCCCHHH
Q 038234           71 FIDESEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDFRVAKAIIAALGCETSNLGSLQS  150 (406)
Q Consensus        71 ~~~~~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~~~i~~~l~~~~~~~~~~~~  150 (406)
                      .++-..++|.+...+.|++--..-..  ..+..-|.+||.-|+||++|++++.+....+-+.    -+.....+..++-.
T Consensus        56 ~i~L~~l~Gvd~qk~~L~~NT~~F~~--G~pANnVLLwGaRGtGKSSLVKA~~~e~~~~glr----LVEV~k~dl~~Lp~  129 (287)
T COG2607          56 PIDLADLVGVDRQKEALVRNTEQFAE--GLPANNVLLWGARGTGKSSLVKALLNEYADEGLR----LVEVDKEDLATLPD  129 (287)
T ss_pred             CcCHHHHhCchHHHHHHHHHHHHHHc--CCcccceEEecCCCCChHHHHHHHHHHHHhcCCe----EEEEcHHHHhhHHH
Confidence            34445788988888888765433221  3446678999999999999999988775432111    01111112233344


Q ss_pred             HHHHHHhhccCcceeEEeeCCCCc-CccCcchhhhccCCC---CCCcEEEEecCC
Q 038234          151 LVRCISESIEGKKYLVVLDDVWTD-DYTKWEPFQRCSANG---QCGNNILVTTHK  201 (406)
Q Consensus       151 ~~~~l~~~l~~kr~LlVlDdvw~~-~~~~~~~l~~~l~~~---~~gs~IivTtR~  201 (406)
                      ++..|+.  ..+||.|..||+--+ +...+..++..+..+   .+...++..|.+
T Consensus       130 l~~~Lr~--~~~kFIlFcDDLSFe~gd~~yK~LKs~LeG~ve~rP~NVl~YATSN  182 (287)
T COG2607         130 LVELLRA--RPEKFILFCDDLSFEEGDDAYKALKSALEGGVEGRPANVLFYATSN  182 (287)
T ss_pred             HHHHHhc--CCceEEEEecCCCCCCCchHHHHHHHHhcCCcccCCCeEEEEEecC
Confidence            4444444  478999999999533 334566677777532   233345544444

>PRK08451 DNA polymerase III subunits gamma and tau; Validated

Probab=97.66  E-value=0.00052  Score=69.00  Aligned_cols=153  Identities=11%  Similarity=0.152  Sum_probs=94.3

Q ss_pred             CceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChH------------HHHHHHHHHhcCC-
Q 038234           75 SEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDF------------RVAKAIIAALGCE-  141 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~------------~~~~~i~~~l~~~-  141 (406)
                      .+++|-+..++.|...+...     .-.++..++|+.|+||||+|+.+.+..-.            .....+....... 
T Consensus        14 deiiGqe~v~~~L~~~I~~g-----rl~hayLf~Gp~G~GKTt~Ar~LAk~L~c~~~~~~~pC~~C~~C~~~~~~~h~dv   88 (535)
T PRK08451         14 DELIGQESVSKTLSLALDNN-----RLAHAYLFSGLRGSGKTSSARIFARALVCEQGPSSTPCDTCIQCQSALENRHIDI   88 (535)
T ss_pred             HHccCcHHHHHHHHHHHHcC-----CCCeeEEEECCCCCcHHHHHHHHHHHhcCCCCCCCCCCcccHHHHHHhhcCCCeE
Confidence            46899988889999988643     33567789999999999999877654210            1111111111110 


Q ss_pred             ----CCCCCCHHHHHHHHHhh----ccCcceeEEeeCCCCcCccCcchhhhccCCCCCCcEEEEecCCh-HHHHH-hccC
Q 038234          142 ----TSNLGSLQSLVRCISES----IEGKKYLVVLDDVWTDDYTKWEPFQRCSANGQCGNNILVTTHKK-TVARM-MEST  211 (406)
Q Consensus       142 ----~~~~~~~~~~~~~l~~~----l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTtR~~-~v~~~-~~~~  211 (406)
                          .......+++...+...    ..+++-++|+|++...+....+.+...+-.....+.+|++|.+. .+... ....
T Consensus        89 ~eldaas~~gId~IRelie~~~~~P~~~~~KVvIIDEad~Lt~~A~NALLK~LEEpp~~t~FIL~ttd~~kL~~tI~SRc  168 (535)
T PRK08451         89 IEMDAASNRGIDDIRELIEQTKYKPSMARFKIFIIDEVHMLTKEAFNALLKTLEEPPSYVKFILATTDPLKLPATILSRT  168 (535)
T ss_pred             EEeccccccCHHHHHHHHHHHhhCcccCCeEEEEEECcccCCHHHHHHHHHHHhhcCCceEEEEEECChhhCchHHHhhc
Confidence                01111244444444321    22556689999997776666677777776555567777666553 22222 2236


Q ss_pred             CccccCCCChHHHHHhhhhhc
Q 038234          212 NFISIKELSTQECWSLFKQES  232 (406)
Q Consensus       212 ~~~~l~~L~~~~a~~Lf~~~~  232 (406)
                      ..+++.+++.++....+.+.+
T Consensus       169 ~~~~F~~Ls~~ei~~~L~~Il  189 (535)
T PRK08451        169 QHFRFKQIPQNSIISHLKTIL  189 (535)
T ss_pred             eeEEcCCCCHHHHHHHHHHHH
Confidence            788999999999887776544

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

Probab=97.64  E-value=0.00024  Score=62.42  Aligned_cols=94  Identities=16%  Similarity=0.138  Sum_probs=57.4

Q ss_pred             CceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChHHHHHHHHHHhcCCCCCCCCHHHHHHH
Q 038234           75 SEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDFRVAKAIIAALGCETSNLGSLQSLVRC  154 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~  154 (406)
                      .++||-++.++.+.-...      +.+..-+.|.||+|+||||-+..+++..-..-.++-.-.+..+..  -..+-+...
T Consensus        27 ~dIVGNe~tv~rl~via~------~gnmP~liisGpPG~GKTTsi~~LAr~LLG~~~ke~vLELNASde--RGIDvVRn~   98 (333)
T KOG0991|consen   27 QDIVGNEDTVERLSVIAK------EGNMPNLIISGPPGTGKTTSILCLARELLGDSYKEAVLELNASDE--RGIDVVRNK   98 (333)
T ss_pred             HHhhCCHHHHHHHHHHHH------cCCCCceEeeCCCCCchhhHHHHHHHHHhChhhhhHhhhccCccc--cccHHHHHH
Confidence            468999888887765554      345777899999999999977766655433333333334433322  222333333


Q ss_pred             HHhhc-------cCcceeEEeeCCCCcCc
Q 038234          155 ISESI-------EGKKYLVVLDDVWTDDY  176 (406)
Q Consensus       155 l~~~l-------~~kr~LlVlDdvw~~~~  176 (406)
                      ++.+-       .++.-.+|||...++..
T Consensus        99 IK~FAQ~kv~lp~grhKIiILDEADSMT~  127 (333)
T KOG0991|consen   99 IKMFAQKKVTLPPGRHKIIILDEADSMTA  127 (333)
T ss_pred             HHHHHHhhccCCCCceeEEEeeccchhhh
Confidence            33222       25556899999977653

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

Probab=97.63  E-value=0.00073  Score=65.29  Aligned_cols=121  Identities=17%  Similarity=0.185  Sum_probs=75.3

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHhcCChH-------------HHHHHHHHHhcCCCCCCCCHHHHHHHHHhhccCcceeEE
Q 038234          101 PIKMISIVGMGGIGKITLAQMAYNDKDF-------------RVAKAIIAALGCETSNLGSLQSLVRCISESIEGKKYLVV  167 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~-------------~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlV  167 (406)
                      ....+-|+|..|.|||.|++++.+....             .+...+...+..         .-...+++..  .-=+++
T Consensus       112 ~~nplfi~G~~GlGKTHLl~Aign~~~~~~~~a~v~y~~se~f~~~~v~a~~~---------~~~~~Fk~~y--~~dlll  180 (408)
T COG0593         112 AYNPLFIYGGVGLGKTHLLQAIGNEALANGPNARVVYLTSEDFTNDFVKALRD---------NEMEKFKEKY--SLDLLL  180 (408)
T ss_pred             cCCcEEEECCCCCCHHHHHHHHHHHHHhhCCCceEEeccHHHHHHHHHHHHHh---------hhHHHHHHhh--ccCeee
Confidence            5778999999999999999998876432             333333333221         1122333333  334899


Q ss_pred             eeCCCCcCc-cCcch-hhhccCC-CCCCcEEEEecCCh---------HHHHHhccCCccccCCCChHHHHHhhhhhc
Q 038234          168 LDDVWTDDY-TKWEP-FQRCSAN-GQCGNNILVTTHKK---------TVARMMESTNFISIKELSTQECWSLFKQES  232 (406)
Q Consensus       168 lDdvw~~~~-~~~~~-l~~~l~~-~~~gs~IivTtR~~---------~v~~~~~~~~~~~l~~L~~~~a~~Lf~~~~  232 (406)
                      +||++.-.. +.|.. +...+.. ...|..||+|++..         .+.......-++++.+++.+....++.+.+
T Consensus       181 IDDiq~l~gk~~~qeefFh~FN~l~~~~kqIvltsdr~P~~l~~~~~rL~SR~~~Gl~~~I~~Pd~e~r~aiL~kka  257 (408)
T COG0593         181 IDDIQFLAGKERTQEEFFHTFNALLENGKQIVLTSDRPPKELNGLEDRLRSRLEWGLVVEIEPPDDETRLAILRKKA  257 (408)
T ss_pred             echHhHhcCChhHHHHHHHHHHHHHhcCCEEEEEcCCCchhhccccHHHHHHHhceeEEeeCCCCHHHHHHHHHHHH
Confidence            999965221 12222 2222221 12244899998652         455555668899999999999999998866

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

Probab=97.62  E-value=0.0002  Score=66.08  Aligned_cols=100  Identities=17%  Similarity=0.181  Sum_probs=70.5

Q ss_pred             ccCCCceecchh---hHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChH-------------------
Q 038234           71 FIDESEICGRDY---KKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDF-------------------  128 (406)
Q Consensus        71 ~~~~~~~vGR~~---~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~-------------------  128 (406)
                      ++..+.+||-..   .++.|.++|....   .....-+.|+|.+|+|||++++.+.+....                   
T Consensus        30 ~i~~~rWIgY~~A~~~L~~L~~Ll~~P~---~~Rmp~lLivG~snnGKT~Ii~rF~~~hp~~~d~~~~~~PVv~vq~P~~  106 (302)
T PF05621_consen   30 YIRADRWIGYPRAKEALDRLEELLEYPK---RHRMPNLLIVGDSNNGKTMIIERFRRLHPPQSDEDAERIPVVYVQMPPE  106 (302)
T ss_pred             HHhcCCeecCHHHHHHHHHHHHHHhCCc---ccCCCceEEecCCCCcHHHHHHHHHHHCCCCCCCCCccccEEEEecCCC
Confidence            455677777543   3555555555433   456677999999999999999999865322                   


Q ss_pred             ----HHHHHHHHHhcCCCCCCCCHHHHHHHHHhhccC-cceeEEeeCCCC
Q 038234          129 ----RVAKAIIAALGCETSNLGSLQSLVRCISESIEG-KKYLVVLDDVWT  173 (406)
Q Consensus       129 ----~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~-kr~LlVlDdvw~  173 (406)
                          ++...|+..++...........+.......++. +--+||+|.+++
T Consensus       107 p~~~~~Y~~IL~~lgaP~~~~~~~~~~~~~~~~llr~~~vrmLIIDE~H~  156 (302)
T PF05621_consen  107 PDERRFYSAILEALGAPYRPRDRVAKLEQQVLRLLRRLGVRMLIIDEFHN  156 (302)
T ss_pred             CChHHHHHHHHHHhCcccCCCCCHHHHHHHHHHHHHHcCCcEEEeechHH
Confidence                888999999988876666666655555555543 445899999944

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

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

Probab=97.62  E-value=0.00015  Score=70.72  Aligned_cols=132  Identities=18%  Similarity=0.232  Sum_probs=77.1

Q ss_pred             CCCcEEEEEeeeCCCcHHHHHHHHhcCChHHHHHHHHHHhcCCCCCCCCHHHHHHHHHhhccCcceeEEeeCCCCcCccC
Q 038234           99 QKPIKMISIVGMGGIGKITLAQMAYNDKDFRVAKAIIAALGCETSNLGSLQSLVRCISESIEGKKYLVVLDDVWTDDYTK  178 (406)
Q Consensus        99 ~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdvw~~~~~~  178 (406)
                      ..+...+.+.|++|+|||+||..++....+-+.+-+.-.-.....+......+.+.....-+..--.||+||+  +..-+
T Consensus       535 ~s~lvSvLl~Gp~~sGKTaLAA~iA~~S~FPFvKiiSpe~miG~sEsaKc~~i~k~F~DAYkS~lsiivvDdi--ErLiD  612 (744)
T KOG0741|consen  535 RSPLVSVLLEGPPGSGKTALAAKIALSSDFPFVKIISPEDMIGLSESAKCAHIKKIFEDAYKSPLSIIVVDDI--ERLLD  612 (744)
T ss_pred             cCcceEEEEecCCCCChHHHHHHHHhhcCCCeEEEeChHHccCccHHHHHHHHHHHHHHhhcCcceEEEEcch--hhhhc
Confidence            3457778899999999999999998776542211110000000001111223334444555566679999999  44445


Q ss_pred             cchhhhcc---------------CCCCCCcEEEEecCChHHHHHhcc----CCccccCCCCh-HHHHHhhhhhc
Q 038234          179 WEPFQRCS---------------ANGQCGNNILVTTHKKTVARMMES----TNFISIKELST-QECWSLFKQES  232 (406)
Q Consensus       179 ~~~l~~~l---------------~~~~~gs~IivTtR~~~v~~~~~~----~~~~~l~~L~~-~~a~~Lf~~~~  232 (406)
                      |..+...+               |..++.--|+-||....+.+.|+.    ...|.+..++. ++..+.+....
T Consensus       613 ~vpIGPRfSN~vlQaL~VllK~~ppkg~kLli~~TTS~~~vL~~m~i~~~F~~~i~Vpnl~~~~~~~~vl~~~n  686 (744)
T KOG0741|consen  613 YVPIGPRFSNLVLQALLVLLKKQPPKGRKLLIFGTTSRREVLQEMGILDCFSSTIHVPNLTTGEQLLEVLEELN  686 (744)
T ss_pred             ccccCchhhHHHHHHHHHHhccCCCCCceEEEEecccHHHHHHHcCHHHhhhheeecCccCchHHHHHHHHHcc
Confidence            54433322               233334445668888889888865    56677887776 56666655533

>PRK08116 hypothetical protein; Validated

Probab=97.61  E-value=9.6e-05  Score=68.28  Aligned_cols=93  Identities=20%  Similarity=0.220  Sum_probs=52.3

Q ss_pred             EEEEEeeeCCCcHHHHHHHHhcCChH-----------HHHHHHHHHhcCCCCCCCCHHHHHHHHHhhccCcceeEEeeCC
Q 038234          103 KMISIVGMGGIGKITLAQMAYNDKDF-----------RVAKAIIAALGCETSNLGSLQSLVRCISESIEGKKYLVVLDDV  171 (406)
Q Consensus       103 ~vi~I~G~gGiGKTtLA~~v~~~~~~-----------~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv  171 (406)
                      ..+.++|.+|+|||+||.++++....           .+...+.......  .......+...    +.+- =||||||+
T Consensus       115 ~gl~l~G~~GtGKThLa~aia~~l~~~~~~v~~~~~~~ll~~i~~~~~~~--~~~~~~~~~~~----l~~~-dlLviDDl  187 (268)
T PRK08116        115 VGLLLWGSVGTGKTYLAACIANELIEKGVPVIFVNFPQLLNRIKSTYKSS--GKEDENEIIRS----LVNA-DLLILDDL  187 (268)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEEHHHHHHHHHHHHhcc--ccccHHHHHHH----hcCC-CEEEEecc
Confidence            45889999999999999999886422           3333333332211  11122222222    2322 38999999


Q ss_pred             CCcCccCcch--hhhccCC-CCCCcEEEEecCCh
Q 038234          172 WTDDYTKWEP--FQRCSAN-GQCGNNILVTTHKK  202 (406)
Q Consensus       172 w~~~~~~~~~--l~~~l~~-~~~gs~IivTtR~~  202 (406)
                      ......+|..  +...+.. ..+|..+|+||...
T Consensus       188 g~e~~t~~~~~~l~~iin~r~~~~~~~IiTsN~~  221 (268)
T PRK08116        188 GAERDTEWAREKVYNIIDSRYRKGLPTIVTTNLS  221 (268)
T ss_pred             cCCCCCHHHHHHHHHHHHHHHHCCCCEEEECCCC
Confidence            6544445543  3333322 13456788888753

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

Probab=97.60  E-value=0.00063  Score=61.62  Aligned_cols=148  Identities=15%  Similarity=0.181  Sum_probs=83.7

Q ss_pred             CceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChHHHHHHHHHHhcCCCCCCCCHHHHHHH
Q 038234           75 SEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDFRVAKAIIAALGCETSNLGSLQSLVRC  154 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~  154 (406)
                      .+|+|.++-.++|.=.+.... ..++.+-.+.++|++|.||||||.-+++...+.+..       .+.+......++...
T Consensus        26 ~efiGQ~~vk~~L~ifI~AAk-~r~e~lDHvLl~GPPGlGKTTLA~IIA~Emgvn~k~-------tsGp~leK~gDlaai   97 (332)
T COG2255          26 DEFIGQEKVKEQLQIFIKAAK-KRGEALDHVLLFGPPGLGKTTLAHIIANELGVNLKI-------TSGPALEKPGDLAAI   97 (332)
T ss_pred             HHhcChHHHHHHHHHHHHHHH-hcCCCcCeEEeeCCCCCcHHHHHHHHHHHhcCCeEe-------cccccccChhhHHHH
Confidence            569999887777765554321 125667789999999999999999998876542210       011222223334444


Q ss_pred             HHhhccCcceeEEeeCCCCcCccCcchhhhccC--------CCCCC-----------cEEEEecCChHHHHHhcc--CCc
Q 038234          155 ISESIEGKKYLVVLDDVWTDDYTKWEPFQRCSA--------NGQCG-----------NNILVTTHKKTVARMMES--TNF  213 (406)
Q Consensus       155 l~~~l~~kr~LlVlDdvw~~~~~~~~~l~~~l~--------~~~~g-----------s~IivTtR~~~v~~~~~~--~~~  213 (406)
                      +-. |+ +.=.|++|.++.-....-+.+-....        ..+++           +-|=.|||.-.+..-+..  .-+
T Consensus        98 Lt~-Le-~~DVLFIDEIHrl~~~vEE~LYpaMEDf~lDI~IG~gp~Arsv~ldLppFTLIGATTr~G~lt~PLrdRFGi~  175 (332)
T COG2255          98 LTN-LE-EGDVLFIDEIHRLSPAVEEVLYPAMEDFRLDIIIGKGPAARSIRLDLPPFTLIGATTRAGMLTNPLRDRFGII  175 (332)
T ss_pred             Hhc-CC-cCCeEEEehhhhcChhHHHHhhhhhhheeEEEEEccCCccceEeccCCCeeEeeeccccccccchhHHhcCCe
Confidence            333 22 23356677775433211111111110        11222           334568887554433322  456


Q ss_pred             cccCCCChHHHHHhhhhhc
Q 038234          214 ISIKELSTQECWSLFKQES  232 (406)
Q Consensus       214 ~~l~~L~~~~a~~Lf~~~~  232 (406)
                      .+++--+.+|-.++..+.+
T Consensus       176 ~rlefY~~~eL~~Iv~r~a  194 (332)
T COG2255         176 QRLEFYTVEELEEIVKRSA  194 (332)
T ss_pred             eeeecCCHHHHHHHHHHHH
Confidence            6788888888888888766

>PRK05563 DNA polymerase III subunits gamma and tau; Validated

Probab=97.60  E-value=0.00028  Score=72.01  Aligned_cols=153  Identities=13%  Similarity=0.163  Sum_probs=91.3

Q ss_pred             CceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChH------------HHHHHHHHHhcCCC
Q 038234           75 SEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDF------------RVAKAIIAALGCET  142 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~------------~~~~~i~~~l~~~~  142 (406)
                      .+++|.+..++.|.+++...     .-.+.+.++|+.|+|||++|+.+.+....            .....+......+.
T Consensus        16 ~~viGq~~v~~~L~~~i~~~-----~~~hayLf~Gp~GtGKTt~Ak~lAkal~c~~~~~~~pC~~C~~C~~i~~g~~~dv   90 (559)
T PRK05563         16 EDVVGQEHITKTLKNAIKQG-----KISHAYLFSGPRGTGKTSAAKIFAKAVNCLNPPDGEPCNECEICKAITNGSLMDV   90 (559)
T ss_pred             HhccCcHHHHHHHHHHHHcC-----CCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCccHHHHHHhcCCCCCe
Confidence            46899999999999998753     23567788999999999999887654211            11111111111110


Q ss_pred             -----CCCCCHHH---HHHHHHhh-ccCcceeEEeeCCCCcCccCcchhhhccCCCCCCcEEEE-ecCChHHHHHh-ccC
Q 038234          143 -----SNLGSLQS---LVRCISES-IEGKKYLVVLDDVWTDDYTKWEPFQRCSANGQCGNNILV-TTHKKTVARMM-EST  211 (406)
Q Consensus       143 -----~~~~~~~~---~~~~l~~~-l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~Iiv-TtR~~~v~~~~-~~~  211 (406)
                           ......++   +...+... ..++.-++|+|++.......++.|...+........+|+ ||....+...+ ...
T Consensus        91 ~eidaas~~~vd~ir~i~~~v~~~p~~~~~kViIIDE~~~Lt~~a~naLLKtLEepp~~~ifIlatt~~~ki~~tI~SRc  170 (559)
T PRK05563         91 IEIDAASNNGVDEIRDIRDKVKYAPSEAKYKVYIIDEVHMLSTGAFNALLKTLEEPPAHVIFILATTEPHKIPATILSRC  170 (559)
T ss_pred             EEeeccccCCHHHHHHHHHHHhhCcccCCeEEEEEECcccCCHHHHHHHHHHhcCCCCCeEEEEEeCChhhCcHHHHhHh
Confidence                 01122232   22222211 245667889999976655566677776655444555554 44444443332 335


Q ss_pred             CccccCCCChHHHHHhhhhhc
Q 038234          212 NFISIKELSTQECWSLFKQES  232 (406)
Q Consensus       212 ~~~~l~~L~~~~a~~Lf~~~~  232 (406)
                      ..+++.+++.++....+...+
T Consensus       171 ~~~~f~~~~~~ei~~~L~~i~  191 (559)
T PRK05563        171 QRFDFKRISVEDIVERLKYIL  191 (559)
T ss_pred             eEEecCCCCHHHHHHHHHHHH
Confidence            678889999988877776644

>PHA00729 NTP-binding motif containing protein

Probab=97.58  E-value=0.00032  Score=62.38  Aligned_cols=71  Identities=23%  Similarity=0.233  Sum_probs=41.1

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHhcCChHHH---HHHHHHHhcCCCCCCCCHHHHHHHHHhhccCc-c-eeEEeeCC
Q 038234          101 PIKMISIVGMGGIGKITLAQMAYNDKDFRV---AKAIIAALGCETSNLGSLQSLVRCISESIEGK-K-YLVVLDDV  171 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~---~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~k-r-~LlVlDdv  171 (406)
                      ....|.|+|.+|+||||||..+.+.....+   .............-.-+.+++...++....+. + =|||+||+
T Consensus        16 ~f~nIlItG~pGvGKT~LA~aLa~~l~~~l~~l~~~~~~~d~~~~~~fid~~~Ll~~L~~a~~~~~~~dlLIIDd~   91 (226)
T PHA00729         16 GFVSAVIFGKQGSGKTTYALKVARDVFWKLNNLSTKDDAWQYVQNSYFFELPDALEKIQDAIDNDYRIPLIIFDDA   91 (226)
T ss_pred             CeEEEEEECCCCCCHHHHHHHHHHHHHhhcccccchhhHHhcCCcEEEEEHHHHHHHHHHHHhcCCCCCEEEEeCC
Confidence            356789999999999999999877532111   00000000011112245566666666655432 2 38999995

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

Probab=97.58  E-value=0.00012  Score=71.32  Aligned_cols=150  Identities=13%  Similarity=0.112  Sum_probs=81.5

Q ss_pred             ceecchhhHHHHHHHHhcCCC-------CCCCCcEEEEEeeeCCCcHHHHHHHHhcCChHHHH----HHHHHHhcCCCCC
Q 038234           76 EICGRDYKKNELLSKLLSDSS-------DQQKPIKMISIVGMGGIGKITLAQMAYNDKDFRVA----KAIIAALGCETSN  144 (406)
Q Consensus        76 ~~vGR~~~~~~l~~~L~~~~~-------~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~----~~i~~~l~~~~~~  144 (406)
                      ++.|.+..++++.+.+...-.       -+-...+-+.++|++|+|||+||+++++.....+.    ..+.....+    
T Consensus       146 digGl~~~k~~l~~~v~~pl~~~~~~~~~Gl~~pkgvLL~GppGTGKT~LAkalA~~l~~~fi~i~~s~l~~k~~g----  221 (398)
T PTZ00454        146 DIGGLDIQKQEIREAVELPLTCPELYEQIGIDPPRGVLLYGPPGTGKTMLAKAVAHHTTATFIRVVGSEFVQKYLG----  221 (398)
T ss_pred             HcCCHHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhcCCCEEEEehHHHHHHhcc----
Confidence            467888888887776532100       01245677899999999999999999886543111    111111100    


Q ss_pred             CCCHHHHHHHHHhhccCcceeEEeeCCCCcC------ccC--------cchhhhccCC--CCCCcEEEEecCChHHHHH-
Q 038234          145 LGSLQSLVRCISESIEGKKYLVVLDDVWTDD------YTK--------WEPFQRCSAN--GQCGNNILVTTHKKTVARM-  207 (406)
Q Consensus       145 ~~~~~~~~~~l~~~l~~kr~LlVlDdvw~~~------~~~--------~~~l~~~l~~--~~~gs~IivTtR~~~v~~~-  207 (406)
                       .....+...+.......+.+|+||++...-      ...        +..+...+..  ...+..||+||...+.... 
T Consensus       222 -e~~~~lr~lf~~A~~~~P~ILfIDEID~i~~~r~~~~~~~d~~~~r~l~~LL~~ld~~~~~~~v~VI~aTN~~d~LDpA  300 (398)
T PTZ00454        222 -EGPRMVRDVFRLARENAPSIIFIDEVDSIATKRFDAQTGADREVQRILLELLNQMDGFDQTTNVKVIMATNRADTLDPA  300 (398)
T ss_pred             -hhHHHHHHHHHHHHhcCCeEEEEECHhhhccccccccCCccHHHHHHHHHHHHHhhccCCCCCEEEEEecCCchhCCHH
Confidence             112223333334445678999999974310      000        1112222221  1235567777776443221 


Q ss_pred             -hc---cCCccccCCCChHHHHHhhhh
Q 038234          208 -ME---STNFISIKELSTQECWSLFKQ  230 (406)
Q Consensus       208 -~~---~~~~~~l~~L~~~~a~~Lf~~  230 (406)
                       ..   -...+.+...+.++...+|..
T Consensus       301 llR~GRfd~~I~~~~P~~~~R~~Il~~  327 (398)
T PTZ00454        301 LLRPGRLDRKIEFPLPDRRQKRLIFQT  327 (398)
T ss_pred             HcCCCcccEEEEeCCcCHHHHHHHHHH
Confidence             11   145577887787777666664

>PRK14088 dnaA chromosomal replication initiation protein; Provisional

Probab=97.56  E-value=0.00047  Score=68.38  Aligned_cols=122  Identities=14%  Similarity=0.101  Sum_probs=70.0

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCChH-------------HHHHHHHHHhcCCCCCCCCHHHHHHHHHhhccCcceeEEe
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDKDF-------------RVAKAIIAALGCETSNLGSLQSLVRCISESIEGKKYLVVL  168 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~~~-------------~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVl  168 (406)
                      ..-+.|+|.+|+|||+|++++++....             ++...+...+...     ..+.    +.+.+..+.-+|+|
T Consensus       130 ~n~l~lyG~~G~GKTHLl~ai~~~l~~~~~~~~v~yi~~~~f~~~~~~~~~~~-----~~~~----f~~~~~~~~dvLlI  200 (440)
T PRK14088        130 YNPLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYITSEKFLNDLVDSMKEG-----KLNE----FREKYRKKVDVLLI  200 (440)
T ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHHhCCCCeEEEEEHHHHHHHHHHHHhcc-----cHHH----HHHHHHhcCCEEEE
Confidence            445999999999999999988875321             3444444443211     1222    22222234568999


Q ss_pred             eCCCCcC-ccCc-chhhhccCC-CCCCcEEEEecC-ChHHH--------HHhccCCccccCCCChHHHHHhhhhhc
Q 038234          169 DDVWTDD-YTKW-EPFQRCSAN-GQCGNNILVTTH-KKTVA--------RMMESTNFISIKELSTQECWSLFKQES  232 (406)
Q Consensus       169 Ddvw~~~-~~~~-~~l~~~l~~-~~~gs~IivTtR-~~~v~--------~~~~~~~~~~l~~L~~~~a~~Lf~~~~  232 (406)
                      ||++.-. ...+ ..+...+.. ...|..||+||. .+.-.        ..+....++.+++.+.+.-..++++.+
T Consensus       201 DDi~~l~~~~~~q~elf~~~n~l~~~~k~iIitsd~~p~~l~~l~~rL~SR~~~gl~v~i~~pd~e~r~~IL~~~~  276 (440)
T PRK14088        201 DDVQFLIGKTGVQTELFHTFNELHDSGKQIVICSDREPQKLSEFQDRLVSRFQMGLVAKLEPPDEETRKKIARKML  276 (440)
T ss_pred             echhhhcCcHHHHHHHHHHHHHHHHcCCeEEEECCCCHHHHHHHHHHHhhHHhcCceEeeCCCCHHHHHHHHHHHH
Confidence            9996321 1111 123222221 122446888875 33221        122335678899999999999888765

>PRK14086 dnaA chromosomal replication initiation protein; Provisional

Probab=97.52  E-value=0.0006  Score=69.24  Aligned_cols=121  Identities=12%  Similarity=0.172  Sum_probs=71.1

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCChH-------------HHHHHHHHHhcCCCCCCCCHHHHHHHHHhhccCcceeEEe
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDKDF-------------RVAKAIIAALGCETSNLGSLQSLVRCISESIEGKKYLVVL  168 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~~~-------------~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVl  168 (406)
                      ...+.|+|..|+|||.|++++++....             .+...+...+..     ...+.    +++.+. +-=+|||
T Consensus       314 ~NpL~LyG~sGsGKTHLL~AIa~~a~~~~~g~~V~Yitaeef~~el~~al~~-----~~~~~----f~~~y~-~~DLLlI  383 (617)
T PRK14086        314 YNPLFIYGESGLGKTHLLHAIGHYARRLYPGTRVRYVSSEEFTNEFINSIRD-----GKGDS----FRRRYR-EMDILLV  383 (617)
T ss_pred             CCcEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEeeHHHHHHHHHHHHHh-----ccHHH----HHHHhh-cCCEEEE
Confidence            345899999999999999988875321             333333333221     11111    222222 1348999


Q ss_pred             eCCCCcCcc-Ccc-hhhhccCC-CCCCcEEEEecCCh---------HHHHHhccCCccccCCCChHHHHHhhhhhc
Q 038234          169 DDVWTDDYT-KWE-PFQRCSAN-GQCGNNILVTTHKK---------TVARMMESTNFISIKELSTQECWSLFKQES  232 (406)
Q Consensus       169 Ddvw~~~~~-~~~-~l~~~l~~-~~~gs~IivTtR~~---------~v~~~~~~~~~~~l~~L~~~~a~~Lf~~~~  232 (406)
                      ||+...... .|. .|...+.. ...|..|||||...         .+...+....++++.+.+.+.-..++.+.+
T Consensus       384 DDIq~l~gke~tqeeLF~l~N~l~e~gk~IIITSd~~P~eL~~l~~rL~SRf~~GLvv~I~~PD~EtR~aIL~kka  459 (617)
T PRK14086        384 DDIQFLEDKESTQEEFFHTFNTLHNANKQIVLSSDRPPKQLVTLEDRLRNRFEWGLITDVQPPELETRIAILRKKA  459 (617)
T ss_pred             ehhccccCCHHHHHHHHHHHHHHHhcCCCEEEecCCChHhhhhccHHHHhhhhcCceEEcCCCCHHHHHHHHHHHH
Confidence            999643221 222 23333321 12355688888762         233444557888999999999999998876

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

Probab=97.51  E-value=0.00013  Score=72.26  Aligned_cols=96  Identities=16%  Similarity=0.175  Sum_probs=66.5

Q ss_pred             ceecchhhHHHHHHHHhcCCCC------CCCCcEEEEEeeeCCCcHHHHHHHHhcCChHHHHHHHHHHhcCCCCCCCCHH
Q 038234           76 EICGRDYKKNELLSKLLSDSSD------QQKPIKMISIVGMGGIGKITLAQMAYNDKDFRVAKAIIAALGCETSNLGSLQ  149 (406)
Q Consensus        76 ~~vGR~~~~~~l~~~L~~~~~~------~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~~~i~~~l~~~~~~~~~~~  149 (406)
                      ++=|.++.+++|.+++..-.++      +-.+.+-|.++|++|.|||.||+++++...+-++.--.-.+-... .-.+.+
T Consensus       191 diGG~d~~~~el~~li~~i~~Pe~~~~lGv~PprGvLlHGPPGCGKT~lA~AiAgel~vPf~~isApeivSGv-SGESEk  269 (802)
T KOG0733|consen  191 DIGGLDKTLAELCELIIHIKHPEVFSSLGVRPPRGVLLHGPPGCGKTSLANAIAGELGVPFLSISAPEIVSGV-SGESEK  269 (802)
T ss_pred             hccChHHHHHHHHHHHHHhcCchhHhhcCCCCCCceeeeCCCCccHHHHHHHHhhhcCCceEeecchhhhccc-CcccHH
Confidence            4668999999998887654322      245577899999999999999999999987744322221221111 123445


Q ss_pred             HHHHHHHhhccCcceeEEeeCCC
Q 038234          150 SLVRCISESIEGKKYLVVLDDVW  172 (406)
Q Consensus       150 ~~~~~l~~~l~~kr~LlVlDdvw  172 (406)
                      .+.....+....-++++++|++.
T Consensus       270 kiRelF~~A~~~aPcivFiDeID  292 (802)
T KOG0733|consen  270 KIRELFDQAKSNAPCIVFIDEID  292 (802)
T ss_pred             HHHHHHHHHhccCCeEEEeeccc
Confidence            55666666677889999999984

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

Probab=97.51  E-value=0.00051  Score=72.66  Aligned_cols=113  Identities=15%  Similarity=0.243  Sum_probs=64.2

Q ss_pred             CceecchhhHHHHHHHHhcCCC---CCCCCcEEEEEeeeCCCcHHHHHHHHhcCChH--------HHHH-HHHHHhcCCC
Q 038234           75 SEICGRDYKKNELLSKLLSDSS---DQQKPIKMISIVGMGGIGKITLAQMAYNDKDF--------RVAK-AIIAALGCET  142 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~---~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~--------~~~~-~i~~~l~~~~  142 (406)
                      ..++|.+..++.+.+.+.....   ..+.+..++.++|++|+|||.||+.+++....        .+.. .....+.+..
T Consensus       454 ~~v~GQ~~ai~~l~~~i~~~~~g~~~~~~p~~~~lf~Gp~GvGKT~lA~~la~~l~~~~~~~d~se~~~~~~~~~lig~~  533 (731)
T TIGR02639       454 AKIFGQDEAIDSLVSSIKRSRAGLGNPNKPVGSFLFTGPTGVGKTELAKQLAEALGVHLERFDMSEYMEKHTVSRLIGAP  533 (731)
T ss_pred             cceeCcHHHHHHHHHHHHHHhcCCCCCCCCceeEEEECCCCccHHHHHHHHHHHhcCCeEEEeCchhhhcccHHHHhcCC
Confidence            4578888888888887763210   01234567899999999999999998775432        1111 0111111111


Q ss_pred             CCCCCHHHHHHHHHhhccCcc-eeEEeeCCCCcCccCcchhhhccCC
Q 038234          143 SNLGSLQSLVRCISESIEGKK-YLVVLDDVWTDDYTKWEPFQRCSAN  188 (406)
Q Consensus       143 ~~~~~~~~~~~~l~~~l~~kr-~LlVlDdvw~~~~~~~~~l~~~l~~  188 (406)
                      +.....+. ...+.+.++.++ .+++||++...+.+.++.|...+..
T Consensus       534 ~gyvg~~~-~~~l~~~~~~~p~~VvllDEieka~~~~~~~Ll~~ld~  579 (731)
T TIGR02639       534 PGYVGFEQ-GGLLTEAVRKHPHCVLLLDEIEKAHPDIYNILLQVMDY  579 (731)
T ss_pred             CCCcccch-hhHHHHHHHhCCCeEEEEechhhcCHHHHHHHHHhhcc
Confidence            11111110 112223333333 5999999987777666667666643

>TIGR00602 rad24 checkpoint protein rad24

Probab=97.50  E-value=0.0005  Score=70.54  Aligned_cols=55  Identities=22%  Similarity=0.311  Sum_probs=43.3

Q ss_pred             CceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChHHH
Q 038234           75 SEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDFRV  130 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~  130 (406)
                      .+++|-++.++++..++...... ....+++.|+|++|+||||+++.+++.....+
T Consensus        84 del~~~~~ki~~l~~~l~~~~~~-~~~~~illL~GP~GsGKTTl~~~la~~l~~~~  138 (637)
T TIGR00602        84 HELAVHKKKIEEVETWLKAQVLE-NAPKRILLITGPSGCGKSTTIKILSKELGIQV  138 (637)
T ss_pred             HHhcCcHHHHHHHHHHHHhcccc-cCCCcEEEEECCCCCCHHHHHHHHHHHhhhHH
Confidence            57899999999999998754321 23356899999999999999999998766544

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

>TIGR03689 pup_AAA proteasome ATPase

Probab=97.49  E-value=0.00027  Score=70.68  Aligned_cols=158  Identities=13%  Similarity=0.134  Sum_probs=83.9

Q ss_pred             CceecchhhHHHHHHHHhcCCC-------CCCCCcEEEEEeeeCCCcHHHHHHHHhcCChHHHHH-----HHHHHhcCCC
Q 038234           75 SEICGRDYKKNELLSKLLSDSS-------DQQKPIKMISIVGMGGIGKITLAQMAYNDKDFRVAK-----AIIAALGCET  142 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~-------~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~~-----~i~~~l~~~~  142 (406)
                      .++.|.+..++++.+.+...-.       -+-...+-+.++|++|+|||++|+++++.....+..     ..+..+....
T Consensus       182 ~dIgGl~~~i~~i~~~v~lp~~~~~l~~~~gl~~p~GILLyGPPGTGKT~LAKAlA~eL~~~i~~~~~~~~~fl~v~~~e  261 (512)
T TIGR03689       182 ADIGGLDSQIEQIRDAVELPFLHPELYREYDLKPPKGVLLYGPPGCGKTLIAKAVANSLAQRIGAETGDKSYFLNIKGPE  261 (512)
T ss_pred             HHcCChHHHHHHHHHHHHHHhhCHHHHHhccCCCCcceEEECCCCCcHHHHHHHHHHhhccccccccCCceeEEeccchh
Confidence            4567899998888887642100       012345678999999999999999999875322110     0000000000


Q ss_pred             ---CCCCCHH----HHHHHHHhh-ccCcceeEEeeCCCCcC-------ccC-----cchhhhccCCC--CCCcEEEEecC
Q 038234          143 ---SNLGSLQ----SLVRCISES-IEGKKYLVVLDDVWTDD-------YTK-----WEPFQRCSANG--QCGNNILVTTH  200 (406)
Q Consensus       143 ---~~~~~~~----~~~~~l~~~-l~~kr~LlVlDdvw~~~-------~~~-----~~~l~~~l~~~--~~gs~IivTtR  200 (406)
                         .-.....    .+....++. ..+++++|+||+++.--       ..+     ...+...+...  ..+..||.||.
T Consensus       262 Ll~kyvGete~~ir~iF~~Ar~~a~~g~p~IIfIDEiD~L~~~R~~~~s~d~e~~il~~LL~~LDgl~~~~~ViVI~ATN  341 (512)
T TIGR03689       262 LLNKYVGETERQIRLIFQRAREKASDGRPVIVFFDEMDSIFRTRGSGVSSDVETTVVPQLLSELDGVESLDNVIVIGASN  341 (512)
T ss_pred             hcccccchHHHHHHHHHHHHHHHhhcCCCceEEEehhhhhhcccCCCccchHHHHHHHHHHHHhcccccCCceEEEeccC
Confidence               0001111    122222221 23578999999995321       001     11233333321  13444555665


Q ss_pred             ChHHHH-Hh-c---cCCccccCCCChHHHHHhhhhhc
Q 038234          201 KKTVAR-MM-E---STNFISIKELSTQECWSLFKQES  232 (406)
Q Consensus       201 ~~~v~~-~~-~---~~~~~~l~~L~~~~a~~Lf~~~~  232 (406)
                      ...... .+ .   -...+++...+.++..++|.+..
T Consensus       342 ~~d~LDpALlRpGRfD~~I~~~~Pd~e~r~~Il~~~l  378 (512)
T TIGR03689       342 REDMIDPAILRPGRLDVKIRIERPDAEAAADIFSKYL  378 (512)
T ss_pred             ChhhCCHhhcCccccceEEEeCCCCHHHHHHHHHHHh
Confidence            443221 11 1   14568999999999999998753

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.

>PRK00149 dnaA chromosomal replication initiation protein; Reviewed

Probab=97.49  E-value=0.00066  Score=67.77  Aligned_cols=121  Identities=17%  Similarity=0.196  Sum_probs=69.3

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCChH-------------HHHHHHHHHhcCCCCCCCCHHHHHHHHHhhccCcceeEEe
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDKDF-------------RVAKAIIAALGCETSNLGSLQSLVRCISESIEGKKYLVVL  168 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~~~-------------~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVl  168 (406)
                      ...+.|+|.+|+|||+|++++.+....             .+...+...+..     ...+..    .+.+. +.-+|||
T Consensus       148 ~~~l~l~G~~G~GKThL~~ai~~~~~~~~~~~~v~yi~~~~~~~~~~~~~~~-----~~~~~~----~~~~~-~~dlLii  217 (450)
T PRK00149        148 YNPLFIYGGVGLGKTHLLHAIGNYILEKNPNAKVVYVTSEKFTNDFVNALRN-----NTMEEF----KEKYR-SVDVLLI  217 (450)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEEEHHHHHHHHHHHHHc-----CcHHHH----HHHHh-cCCEEEE
Confidence            456899999999999999998875321             233333333321     111222    22222 3448999


Q ss_pred             eCCCCcCccC-c-chhhhccCC-CCCCcEEEEecCChH---------HHHHhccCCccccCCCChHHHHHhhhhhc
Q 038234          169 DDVWTDDYTK-W-EPFQRCSAN-GQCGNNILVTTHKKT---------VARMMESTNFISIKELSTQECWSLFKQES  232 (406)
Q Consensus       169 Ddvw~~~~~~-~-~~l~~~l~~-~~~gs~IivTtR~~~---------v~~~~~~~~~~~l~~L~~~~a~~Lf~~~~  232 (406)
                      ||++.-.... + ..+...+.. ...|..||+||....         +...+....++++++.+.++-..++.+.+
T Consensus       218 DDi~~l~~~~~~~~~l~~~~n~l~~~~~~iiits~~~p~~l~~l~~~l~SRl~~gl~v~i~~pd~~~r~~il~~~~  293 (450)
T PRK00149        218 DDIQFLAGKERTQEEFFHTFNALHEAGKQIVLTSDRPPKELPGLEERLRSRFEWGLTVDIEPPDLETRIAILKKKA  293 (450)
T ss_pred             ehhhhhcCCHHHHHHHHHHHHHHHHCCCcEEEECCCCHHHHHHHHHHHHhHhcCCeeEEecCCCHHHHHHHHHHHH
Confidence            9995432111 1 123222211 122445777776531         12233335678999999999999988866

>CHL00176 ftsH cell division protein; Validated

Probab=97.44  E-value=0.00017  Score=74.28  Aligned_cols=157  Identities=14%  Similarity=0.117  Sum_probs=82.8

Q ss_pred             CceecchhhHHHHHHH---HhcCCC---CCCCCcEEEEEeeeCCCcHHHHHHHHhcCChHHHHHHHHHHhcCCCCCCCCH
Q 038234           75 SEICGRDYKKNELLSK---LLSDSS---DQQKPIKMISIVGMGGIGKITLAQMAYNDKDFRVAKAIIAALGCETSNLGSL  148 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~---L~~~~~---~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~~~i~~~l~~~~~~~~~~  148 (406)
                      .++.|.++..+++.+.   +.....   -+....+-+.++|++|+|||+||++++......+...-...+..... ....
T Consensus       183 ~dv~G~~~~k~~l~eiv~~lk~~~~~~~~g~~~p~gVLL~GPpGTGKT~LAralA~e~~~p~i~is~s~f~~~~~-g~~~  261 (638)
T CHL00176        183 RDIAGIEEAKEEFEEVVSFLKKPERFTAVGAKIPKGVLLVGPPGTGKTLLAKAIAGEAEVPFFSISGSEFVEMFV-GVGA  261 (638)
T ss_pred             HhccChHHHHHHHHHHHHHHhCHHHHhhccCCCCceEEEECCCCCCHHHHHHHHHHHhCCCeeeccHHHHHHHhh-hhhH
Confidence            4577877655555444   332210   01233556899999999999999999876433111000000000000 0112


Q ss_pred             HHHHHHHHhhccCcceeEEeeCCCCcC----------ccC----cchhhhccCC--CCCCcEEEEecCChHHHH-Hh-c-
Q 038234          149 QSLVRCISESIEGKKYLVVLDDVWTDD----------YTK----WEPFQRCSAN--GQCGNNILVTTHKKTVAR-MM-E-  209 (406)
Q Consensus       149 ~~~~~~l~~~l~~kr~LlVlDdvw~~~----------~~~----~~~l~~~l~~--~~~gs~IivTtR~~~v~~-~~-~-  209 (406)
                      ..+...+.....+.+++|+|||+..-.          ...    +..+...+..  ...+-.||.||...+... .+ . 
T Consensus       262 ~~vr~lF~~A~~~~P~ILfIDEID~l~~~r~~~~~~~~~e~~~~L~~LL~~~dg~~~~~~ViVIaaTN~~~~LD~ALlRp  341 (638)
T CHL00176        262 ARVRDLFKKAKENSPCIVFIDEIDAVGRQRGAGIGGGNDEREQTLNQLLTEMDGFKGNKGVIVIAATNRVDILDAALLRP  341 (638)
T ss_pred             HHHHHHHHHHhcCCCcEEEEecchhhhhcccCCCCCCcHHHHHHHHHHHhhhccccCCCCeeEEEecCchHhhhhhhhcc
Confidence            233444555556788999999994321          011    1122222221  223555666666543322 11 1 


Q ss_pred             --cCCccccCCCChHHHHHhhhhhc
Q 038234          210 --STNFISIKELSTQECWSLFKQES  232 (406)
Q Consensus       210 --~~~~~~l~~L~~~~a~~Lf~~~~  232 (406)
                        -...+.+...+.++-.++|+..+
T Consensus       342 GRFd~~I~v~lPd~~~R~~IL~~~l  366 (638)
T CHL00176        342 GRFDRQITVSLPDREGRLDILKVHA  366 (638)
T ss_pred             ccCceEEEECCCCHHHHHHHHHHHH
Confidence              24677888888888888887654

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

Probab=97.43  E-value=0.00027  Score=73.23  Aligned_cols=126  Identities=17%  Similarity=0.251  Sum_probs=80.8

Q ss_pred             CceecchhhHHHHHHHHhcCC---CCCCCCcEEEEEeeeCCCcHHHHHHHHhcCCh----H-------HH-HHHHHHHhc
Q 038234           75 SEICGRDYKKNELLSKLLSDS---SDQQKPIKMISIVGMGGIGKITLAQMAYNDKD----F-------RV-AKAIIAALG  139 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~---~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~----~-------~~-~~~i~~~l~  139 (406)
                      ..++|-+..+..+.+.+....   .+.+.+..+...+|+.|||||-||++++...-    .       ++ .+.-...+.
T Consensus       491 ~rViGQd~AV~avs~aIrraRaGL~dp~rPigsFlF~GPTGVGKTELAkaLA~~Lfg~e~aliR~DMSEy~EkHsVSrLI  570 (786)
T COG0542         491 KRVIGQDEAVEAVSDAIRRARAGLGDPNRPIGSFLFLGPTGVGKTELAKALAEALFGDEQALIRIDMSEYMEKHSVSRLI  570 (786)
T ss_pred             cceeChHHHHHHHHHHHHHHhcCCCCCCCCceEEEeeCCCcccHHHHHHHHHHHhcCCCccceeechHHHHHHHHHHHHh
Confidence            568999999999988875332   11256677888999999999999887765432    1       11 112233344


Q ss_pred             CCCCCCCCHHHHHHHHHhhccCcce-eEEeeCCCCcCccCcchhhhccCCC----CC-------CcEEEEecCC
Q 038234          140 CETSNLGSLQSLVRCISESIEGKKY-LVVLDDVWTDDYTKWEPFQRCSANG----QC-------GNNILVTTHK  201 (406)
Q Consensus       140 ~~~~~~~~~~~~~~~l~~~l~~kr~-LlVlDdvw~~~~~~~~~l~~~l~~~----~~-------gs~IivTtR~  201 (406)
                      +.++.--..++ -..|-+..+.++| +|.||.+...+++-.+.|...|.++    +.       .+-||+||--
T Consensus       571 GaPPGYVGyee-GG~LTEaVRr~PySViLlDEIEKAHpdV~nilLQVlDdGrLTD~~Gr~VdFrNtiIImTSN~  643 (786)
T COG0542         571 GAPPGYVGYEE-GGQLTEAVRRKPYSVILLDEIEKAHPDVFNLLLQVLDDGRLTDGQGRTVDFRNTIIIMTSNA  643 (786)
T ss_pred             CCCCCCceecc-ccchhHhhhcCCCeEEEechhhhcCHHHHHHHHHHhcCCeeecCCCCEEecceeEEEEeccc
Confidence            44443322222 2345556667888 8889999877877788888877653    22       3456666653

>PRK07399 DNA polymerase III subunit delta'; Validated

Probab=97.41  E-value=0.0013  Score=62.11  Aligned_cols=151  Identities=14%  Similarity=0.172  Sum_probs=91.9

Q ss_pred             CceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChH------HHHHHHHHHhcC-C------
Q 038234           75 SEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDF------RVAKAIIAALGC-E------  141 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~------~~~~~i~~~l~~-~------  141 (406)
                      .+++|.+..++.+.+.+...     .-.+...++|+.|+||+++|..+.+..-.      .....+ ..... +      
T Consensus         4 ~~iiGq~~~~~~L~~~i~~~-----rl~ha~Lf~G~~G~Gk~~~A~~~a~~llc~~~c~~c~~~~~-~~~~hPDl~~i~p   77 (314)
T PRK07399          4 ANLIGQPLAIELLTAAIKQN-----RIAPAYLFAGPEGVGRKLAALCFIEGLLSQGSPSKNIRRRL-EEGNHPDLLWVEP   77 (314)
T ss_pred             HHhCCHHHHHHHHHHHHHhC-----CCCceEEEECCCCCCHHHHHHHHHHHHcCCCCCCCcHhccc-ccCCCCCEEEEec
Confidence            35789999999999988743     23578999999999999999766543210      000000 00000 0      


Q ss_pred             ----------------------CCCCCCHHHHHHHHHhh-----ccCcceeEEeeCCCCcCccCcchhhhccCCCCCCcE
Q 038234          142 ----------------------TSNLGSLQSLVRCISES-----IEGKKYLVVLDDVWTDDYTKWEPFQRCSANGQCGNN  194 (406)
Q Consensus       142 ----------------------~~~~~~~~~~~~~l~~~-----l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~  194 (406)
                                            .......+++ +.+.+.     ..+++-++|+|++...+....+.+...+-.-++..-
T Consensus        78 ~~~~~g~~~~~~~~~~~~~~~~~~~~I~id~i-r~i~~~l~~~p~~~~~kVvII~~ae~m~~~aaNaLLK~LEEPp~~~f  156 (314)
T PRK07399         78 TYQHQGKLITASEAEEAGLKRKAPPQIRLEQI-REIKRFLSRPPLEAPRKVVVIEDAETMNEAAANALLKTLEEPGNGTL  156 (314)
T ss_pred             cccccccccchhhhhhccccccccccCcHHHH-HHHHHHHccCcccCCceEEEEEchhhcCHHHHHHHHHHHhCCCCCeE
Confidence                                  0000111222 223332     346677999999977766667777777754443333


Q ss_pred             EEEecCChHHHHHh-ccCCccccCCCChHHHHHhhhhhc
Q 038234          195 ILVTTHKKTVARMM-ESTNFISIKELSTQECWSLFKQES  232 (406)
Q Consensus       195 IivTtR~~~v~~~~-~~~~~~~l~~L~~~~a~~Lf~~~~  232 (406)
                      |++|+....+...+ +....+.+.+++.++..+.+.+..
T Consensus       157 ILi~~~~~~Ll~TI~SRcq~i~f~~l~~~~~~~~L~~~~  195 (314)
T PRK07399        157 ILIAPSPESLLPTIVSRCQIIPFYRLSDEQLEQVLKRLG  195 (314)
T ss_pred             EEEECChHhCcHHHHhhceEEecCCCCHHHHHHHHHHhh
Confidence            44454444444443 347889999999999999888764

>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH

Probab=97.40  E-value=0.00021  Score=72.24  Aligned_cols=153  Identities=14%  Similarity=0.137  Sum_probs=81.0

Q ss_pred             CceecchhhHHHHHHHHh---cCC---CCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChHHHH----HHHHHHhcCCCCC
Q 038234           75 SEICGRDYKKNELLSKLL---SDS---SDQQKPIKMISIVGMGGIGKITLAQMAYNDKDFRVA----KAIIAALGCETSN  144 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~---~~~---~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~----~~i~~~l~~~~~~  144 (406)
                      .+++|.+...+++.+.+.   ...   ..+....+-+.++|++|+|||+||+.+++.....+.    ..+.....     
T Consensus        55 ~di~g~~~~k~~l~~~~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~la~alA~~~~~~~~~i~~~~~~~~~~-----  129 (495)
T TIGR01241        55 KDVAGIDEAKEELMEIVDFLKNPSKFTKLGAKIPKGVLLVGPPGTGKTLLAKAVAGEAGVPFFSISGSDFVEMFV-----  129 (495)
T ss_pred             HHhCCHHHHHHHHHHHHHHHHCHHHHHhcCCCCCCcEEEECCCCCCHHHHHHHHHHHcCCCeeeccHHHHHHHHh-----
Confidence            467888776665554432   110   001233456889999999999999999876543111    01111110     


Q ss_pred             CCCHHHHHHHHHhhccCcceeEEeeCCCCcCc----------cCcc----hhhhccCC--CCCCcEEEEecCChHHHH-H
Q 038234          145 LGSLQSLVRCISESIEGKKYLVVLDDVWTDDY----------TKWE----PFQRCSAN--GQCGNNILVTTHKKTVAR-M  207 (406)
Q Consensus       145 ~~~~~~~~~~l~~~l~~kr~LlVlDdvw~~~~----------~~~~----~l~~~l~~--~~~gs~IivTtR~~~v~~-~  207 (406)
                      ......+...+.......+.+|+||++..-..          ..+.    .+...+..  ...+-.||.||....... .
T Consensus       130 g~~~~~l~~~f~~a~~~~p~Il~iDEid~l~~~r~~~~~~~~~~~~~~~~~lL~~~d~~~~~~~v~vI~aTn~~~~ld~a  209 (495)
T TIGR01241       130 GVGASRVRDLFEQAKKNAPCIIFIDEIDAVGRQRGAGLGGGNDEREQTLNQLLVEMDGFGTNTGVIVIAATNRPDVLDPA  209 (495)
T ss_pred             cccHHHHHHHHHHHHhcCCCEEEEechhhhhhccccCcCCccHHHHHHHHHHHhhhccccCCCCeEEEEecCChhhcCHH
Confidence            01223344444444556789999999943110          0111    11111211  122445566665543111 1


Q ss_pred             h----ccCCccccCCCChHHHHHhhhhhc
Q 038234          208 M----ESTNFISIKELSTQECWSLFKQES  232 (406)
Q Consensus       208 ~----~~~~~~~l~~L~~~~a~~Lf~~~~  232 (406)
                      +    .-...+.+...+.++-.++|....
T Consensus       210 l~r~gRfd~~i~i~~Pd~~~R~~il~~~l  238 (495)
T TIGR01241       210 LLRPGRFDRQVVVDLPDIKGREEILKVHA  238 (495)
T ss_pred             HhcCCcceEEEEcCCCCHHHHHHHHHHHH
Confidence            1    125678888888888778777644

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.

>PRK08181 transposase; Validated

Probab=97.39  E-value=0.00027  Score=65.07  Aligned_cols=94  Identities=19%  Similarity=0.117  Sum_probs=47.6

Q ss_pred             EEEEEeeeCCCcHHHHHHHHhcCCh-----H--HHHHHHHHHhcCCCCCCCCHHHHHHHHHhhccCcceeEEeeCCCCcC
Q 038234          103 KMISIVGMGGIGKITLAQMAYNDKD-----F--RVAKAIIAALGCETSNLGSLQSLVRCISESIEGKKYLVVLDDVWTDD  175 (406)
Q Consensus       103 ~vi~I~G~gGiGKTtLA~~v~~~~~-----~--~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdvw~~~  175 (406)
                      .-+.++|++|+|||.||.++.+...     +  --..+++..+.... ...........+     .+.=||||||+....
T Consensus       107 ~nlll~Gp~GtGKTHLa~Aia~~a~~~g~~v~f~~~~~L~~~l~~a~-~~~~~~~~l~~l-----~~~dLLIIDDlg~~~  180 (269)
T PRK08181        107 ANLLLFGPPGGGKSHLAAAIGLALIENGWRVLFTRTTDLVQKLQVAR-RELQLESAIAKL-----DKFDLLILDDLAYVT  180 (269)
T ss_pred             ceEEEEecCCCcHHHHHHHHHHHHHHcCCceeeeeHHHHHHHHHHHH-hCCcHHHHHHHH-----hcCCEEEEecccccc
Confidence            3589999999999999988865321     1  00111222221110 111222222222     234599999995443


Q ss_pred             ccCcc--hhhhccCCCCCCcEEEEecCCh
Q 038234          176 YTKWE--PFQRCSANGQCGNNILVTTHKK  202 (406)
Q Consensus       176 ~~~~~--~l~~~l~~~~~gs~IivTtR~~  202 (406)
                      ...|.  .+...+...-.+..+||||...
T Consensus       181 ~~~~~~~~Lf~lin~R~~~~s~IiTSN~~  209 (269)
T PRK08181        181 KDQAETSVLFELISARYERRSILITANQP  209 (269)
T ss_pred             CCHHHHHHHHHHHHHHHhCCCEEEEcCCC
Confidence            33332  2333333211123688888764

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

Probab=97.39  E-value=0.00015  Score=71.27  Aligned_cols=155  Identities=13%  Similarity=0.102  Sum_probs=82.3

Q ss_pred             ceecchhhHHHHHHHHhcCCCC-------CCCCcEEEEEeeeCCCcHHHHHHHHhcCChHHHHHHHHHHhcCCCCCCCCH
Q 038234           76 EICGRDYKKNELLSKLLSDSSD-------QQKPIKMISIVGMGGIGKITLAQMAYNDKDFRVAKAIIAALGCETSNLGSL  148 (406)
Q Consensus        76 ~~vGR~~~~~~l~~~L~~~~~~-------~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~~~i~~~l~~~~~~~~~~  148 (406)
                      ++.|.+..++++.+.+...-..       +-...+.+.++|++|+|||+||+++++.....+..-....+..... ....
T Consensus       184 DIgGl~~qi~~l~e~v~lpl~~p~~~~~~gi~~p~gVLL~GPPGTGKT~LAraIA~el~~~fi~V~~seL~~k~~-Ge~~  262 (438)
T PTZ00361        184 DIGGLEQQIQEIKEAVELPLTHPELYDDIGIKPPKGVILYGPPGTGKTLLAKAVANETSATFLRVVGSELIQKYL-GDGP  262 (438)
T ss_pred             HhcCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHhhCCCEEEEecchhhhhhc-chHH
Confidence            4568888888887776421100       1234567889999999999999999986543111000000000000 0111


Q ss_pred             HHHHHHHHhhccCcceeEEeeCCCCcC------ccC--------cchhhhccCC--CCCCcEEEEecCChHHHHH-h---
Q 038234          149 QSLVRCISESIEGKKYLVVLDDVWTDD------YTK--------WEPFQRCSAN--GQCGNNILVTTHKKTVARM-M---  208 (406)
Q Consensus       149 ~~~~~~l~~~l~~kr~LlVlDdvw~~~------~~~--------~~~l~~~l~~--~~~gs~IivTtR~~~v~~~-~---  208 (406)
                      ..+...+.....+.+.+|+||++..--      ...        ...+...+..  ...+..||+||...+.... +   
T Consensus       263 ~~vr~lF~~A~~~~P~ILfIDEID~l~~kR~~~~sgg~~e~qr~ll~LL~~Ldg~~~~~~V~VI~ATNr~d~LDpaLlRp  342 (438)
T PTZ00361        263 KLVRELFRVAEENAPSIVFIDEIDAIGTKRYDATSGGEKEIQRTMLELLNQLDGFDSRGDVKVIMATNRIESLDPALIRP  342 (438)
T ss_pred             HHHHHHHHHHHhCCCcEEeHHHHHHHhccCCCCCCcccHHHHHHHHHHHHHHhhhcccCCeEEEEecCChHHhhHHhccC
Confidence            222233333345678899999974210      000        0111111111  1235577777776543332 1   


Q ss_pred             -ccCCccccCCCChHHHHHhhhhh
Q 038234          209 -ESTNFISIKELSTQECWSLFKQE  231 (406)
Q Consensus       209 -~~~~~~~l~~L~~~~a~~Lf~~~  231 (406)
                       .-...+.+...+.++..++|...
T Consensus       343 GRfd~~I~~~~Pd~~~R~~Il~~~  366 (438)
T PTZ00361        343 GRIDRKIEFPNPDEKTKRRIFEIH  366 (438)
T ss_pred             CeeEEEEEeCCCCHHHHHHHHHHH
Confidence             11557788888888888887753

>PRK07952 DNA replication protein DnaC; Validated

Probab=97.38  E-value=0.0011  Score=60.30  Aligned_cols=92  Identities=17%  Similarity=0.221  Sum_probs=50.4

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCChH-----------HHHHHHHHHhcCCCCCCCCHHHHHHHHHhhccCcceeEEeeC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDKDF-----------RVAKAIIAALGCETSNLGSLQSLVRCISESIEGKKYLVVLDD  170 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~~~-----------~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDd  170 (406)
                      ...+.++|.+|+|||+||.++++....           ++...+-....   ....+...+...    +. +.=||||||
T Consensus        99 ~~~~~l~G~~GtGKThLa~aia~~l~~~g~~v~~it~~~l~~~l~~~~~---~~~~~~~~~l~~----l~-~~dlLvIDD  170 (244)
T PRK07952         99 IASFIFSGKPGTGKNHLAAAICNELLLRGKSVLIITVADIMSAMKDTFS---NSETSEEQLLND----LS-NVDLLVIDE  170 (244)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEEHHHHHHHHHHHHh---hccccHHHHHHH----hc-cCCEEEEeC
Confidence            357899999999999999988876432           22222222211   111122223222    33 345899999


Q ss_pred             CCCcCccCcch--hhhccCC-CCCCcEEEEecCC
Q 038234          171 VWTDDYTKWEP--FQRCSAN-GQCGNNILVTTHK  201 (406)
Q Consensus       171 vw~~~~~~~~~--l~~~l~~-~~~gs~IivTtR~  201 (406)
                      +.......|..  +...+.. ....-.+||||-.
T Consensus       171 ig~~~~s~~~~~~l~~Ii~~Ry~~~~~tiitSNl  204 (244)
T PRK07952        171 IGVQTESRYEKVIINQIVDRRSSSKRPTGMLTNS  204 (244)
T ss_pred             CCCCCCCHHHHHHHHHHHHHHHhCCCCEEEeCCC
Confidence            97655455553  3333321 1223457777764

>PRK08058 DNA polymerase III subunit delta'; Validated

Probab=97.38  E-value=0.00089  Score=63.90  Aligned_cols=150  Identities=11%  Similarity=0.082  Sum_probs=90.7

Q ss_pred             eec-chhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChH------------HHHHHHHHHhcCCC-
Q 038234           77 ICG-RDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDF------------RVAKAIIAALGCET-  142 (406)
Q Consensus        77 ~vG-R~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~------------~~~~~i~~~l~~~~-  142 (406)
                      ++| -+.-++.+.+.+..     +.-.+...++|+.|+|||++|..+.+..-.            .....+...-..+. 
T Consensus         7 i~~~q~~~~~~L~~~~~~-----~~l~ha~Lf~G~~G~gk~~~a~~la~~l~c~~~~~~~~cg~C~~c~~~~~~~hpD~~   81 (329)
T PRK08058          7 LTALQPVVVKMLQNSIAK-----NRLSHAYLFEGAKGTGKKATALWLAKSLFCLERNGVEPCGTCTNCKRIDSGNHPDVH   81 (329)
T ss_pred             HHhhHHHHHHHHHHHHHc-----CCCCceEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCcCHHHHHHhcCCCCCEE
Confidence            556 55566777777754     234667799999999999999877543210            11111111000000 


Q ss_pred             -----CCCCCHHHHHHHHHhh----ccCcceeEEeeCCCCcCccCcchhhhccCCCCCCcEEEEecCCh-HHHHHh-ccC
Q 038234          143 -----SNLGSLQSLVRCISES----IEGKKYLVVLDDVWTDDYTKWEPFQRCSANGQCGNNILVTTHKK-TVARMM-EST  211 (406)
Q Consensus       143 -----~~~~~~~~~~~~l~~~----l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTtR~~-~v~~~~-~~~  211 (406)
                           ......+++...+...    ..+++-++|+|++...+....+.+...+..-..++.+|++|.+. .+...+ +..
T Consensus        82 ~i~~~~~~i~id~ir~l~~~~~~~~~~~~~kvviI~~a~~~~~~a~NaLLK~LEEPp~~~~~Il~t~~~~~ll~TIrSRc  161 (329)
T PRK08058         82 LVAPDGQSIKKDQIRYLKEEFSKSGVESNKKVYIIEHADKMTASAANSLLKFLEEPSGGTTAILLTENKHQILPTILSRC  161 (329)
T ss_pred             EeccccccCCHHHHHHHHHHHhhCCcccCceEEEeehHhhhCHHHHHHHHHHhcCCCCCceEEEEeCChHhCcHHHHhhc
Confidence                 0112233443333221    34566689999997766666677777787666677777777653 333333 347


Q ss_pred             CccccCCCChHHHHHhhhhh
Q 038234          212 NFISIKELSTQECWSLFKQE  231 (406)
Q Consensus       212 ~~~~l~~L~~~~a~~Lf~~~  231 (406)
                      ..+++.+++.++....+.+.
T Consensus       162 ~~i~~~~~~~~~~~~~L~~~  181 (329)
T PRK08058        162 QVVEFRPLPPESLIQRLQEE  181 (329)
T ss_pred             eeeeCCCCCHHHHHHHHHHc
Confidence            88999999999998888764

>smart00763 AAA_PrkA PrkA AAA domain

Probab=97.38  E-value=0.00016  Score=68.69  Aligned_cols=51  Identities=14%  Similarity=0.215  Sum_probs=41.8

Q ss_pred             ceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234           76 EICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus        76 ~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      +++|.++.++++++++.....+.....+++.++|++|+||||||..+.+..
T Consensus        52 ~~~G~~~~i~~lv~~l~~~a~g~~~~r~il~L~GPPGsGKStla~~La~~l  102 (361)
T smart00763       52 DFFGMEEAIERFVNYFKSAAQGLEERKQILYLLGPVGGGKSSLVECLKRGL  102 (361)
T ss_pred             hccCcHHHHHHHHHHHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            699999999999999976543223456889999999999999999887654

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

>PRK10865 protein disaggregation chaperone; Provisional

Probab=97.38  E-value=0.00085  Score=71.98  Aligned_cols=126  Identities=14%  Similarity=0.205  Sum_probs=70.0

Q ss_pred             CceecchhhHHHHHHHHhcCC---CCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChH-----------HHHHH-HHHHhc
Q 038234           75 SEICGRDYKKNELLSKLLSDS---SDQQKPIKMISIVGMGGIGKITLAQMAYNDKDF-----------RVAKA-IIAALG  139 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~---~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~-----------~~~~~-i~~~l~  139 (406)
                      ..++|.+..++.+...+....   ...+.+..++.++|+.|+|||+||+.+++....           .+... ....+.
T Consensus       568 ~~viGQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~Lf~Gp~G~GKT~lA~aLa~~l~~~~~~~i~id~se~~~~~~~~~Li  647 (857)
T PRK10865        568 HRVIGQNEAVEAVSNAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELCKALANFMFDSDDAMVRIDMSEFMEKHSVSRLV  647 (857)
T ss_pred             CeEeCCHHHHHHHHHHHHHHHhcccCCCCCCceEEEECCCCCCHHHHHHHHHHHhhcCCCcEEEEEhHHhhhhhhHHHHh
Confidence            368899999888888876321   001233457889999999999999988764310           11111 112222


Q ss_pred             CCCCCCCCHHHHHHHHHhhccCc-ceeEEeeCCCCcCccCcchhhhccCCC-----------CCCcEEEEecCC
Q 038234          140 CETSNLGSLQSLVRCISESIEGK-KYLVVLDDVWTDDYTKWEPFQRCSANG-----------QCGNNILVTTHK  201 (406)
Q Consensus       140 ~~~~~~~~~~~~~~~l~~~l~~k-r~LlVlDdvw~~~~~~~~~l~~~l~~~-----------~~gs~IivTtR~  201 (406)
                      +..+.....+. ...+.+.+..+ .-+|+||++...+...++.+...+..+           -..+.||+||..
T Consensus       648 G~~pgy~g~~~-~g~l~~~v~~~p~~vLllDEieka~~~v~~~Ll~ile~g~l~d~~gr~vd~rn~iiI~TSN~  720 (857)
T PRK10865        648 GAPPGYVGYEE-GGYLTEAVRRRPYSVILLDEVEKAHPDVFNILLQVLDDGRLTDGQGRTVDFRNTVVIMTSNL  720 (857)
T ss_pred             CCCCcccccch-hHHHHHHHHhCCCCeEEEeehhhCCHHHHHHHHHHHhhCceecCCceEEeecccEEEEeCCc
Confidence            22221111111 01122222222 359999999766666666666665432           122347778775

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=97.36  E-value=0.00039  Score=74.34  Aligned_cols=124  Identities=19%  Similarity=0.220  Sum_probs=72.1

Q ss_pred             CceecchhhHHHHHHHHhcC---CCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCCh----H-------HHHH-HHHHHhc
Q 038234           75 SEICGRDYKKNELLSKLLSD---SSDQQKPIKMISIVGMGGIGKITLAQMAYNDKD----F-------RVAK-AIIAALG  139 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~---~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~----~-------~~~~-~i~~~l~  139 (406)
                      ..++|.+..++.+.+.+...   ....+.+..++.++|++|+|||.||+.+.+...    .       .+.. .-...+.
T Consensus       566 ~~v~GQ~~Av~~v~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKT~lA~~La~~l~~~~~~~~~~dmse~~~~~~~~~l~  645 (852)
T TIGR03345       566 ERVIGQDHALEAIAERIRTARAGLEDPRKPLGVFLLVGPSGVGKTETALALAELLYGGEQNLITINMSEFQEAHTVSRLK  645 (852)
T ss_pred             CeEcChHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCCCHHHHHHHHHHHHhCCCcceEEEeHHHhhhhhhhcccc
Confidence            46889999999998887532   111134566889999999999999976654321    1       1110 0111121


Q ss_pred             CCCCCCC---CHHHHHHHHHhhccCcceeEEeeCCCCcCccCcchhhhccCCCC-----------CCcEEEEecCC
Q 038234          140 CETSNLG---SLQSLVRCISESIEGKKYLVVLDDVWTDDYTKWEPFQRCSANGQ-----------CGNNILVTTHK  201 (406)
Q Consensus       140 ~~~~~~~---~~~~~~~~l~~~l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~-----------~gs~IivTtR~  201 (406)
                      +..+...   ....+...+++   ....+|+||++...+...++.|...+..+.           ..+.||+||..
T Consensus       646 g~~~gyvg~~~~g~L~~~v~~---~p~svvllDEieka~~~v~~~Llq~ld~g~l~d~~Gr~vd~~n~iiI~TSNl  718 (852)
T TIGR03345       646 GSPPGYVGYGEGGVLTEAVRR---KPYSVVLLDEVEKAHPDVLELFYQVFDKGVMEDGEGREIDFKNTVILLTSNA  718 (852)
T ss_pred             CCCCCcccccccchHHHHHHh---CCCcEEEEechhhcCHHHHHHHHHHhhcceeecCCCcEEeccccEEEEeCCC
Confidence            1211111   11123333332   345699999997767666777766665432           35667777765

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.

>PRK05707 DNA polymerase III subunit delta'; Validated

Probab=97.34  E-value=0.00094  Score=63.51  Aligned_cols=132  Identities=11%  Similarity=0.105  Sum_probs=79.5

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhcCChH------------HHHHHHHHHhcCCC----C----CCCCHHHHHHH---HH
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYNDKDF------------RVAKAIIAALGCET----S----NLGSLQSLVRC---IS  156 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~------------~~~~~i~~~l~~~~----~----~~~~~~~~~~~---l~  156 (406)
                      .-.+.+.++|+.|+|||++|..+++..-.            ..-+.+...-.++.    +    .....+++...   +.
T Consensus        20 r~~ha~Lf~G~~G~GK~~~A~~~A~~llC~~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~~~~~~~~i~id~iR~l~~~~~   99 (328)
T PRK05707         20 RHPHAYLLHGPAGIGKRALAERLAAALLCEAPQGGGACGSCKGCQLLRAGSHPDNFVLEPEEADKTIKVDQVRELVSFVV   99 (328)
T ss_pred             CcceeeeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHhcCCCCCEEEEeccCCCCCCCHHHHHHHHHHHh
Confidence            34667889999999999999877654211            11111111111000    0    11223333332   22


Q ss_pred             hh-ccCcceeEEeeCCCCcCccCcchhhhccCCCCCCcEEEEecCCh-HHHHHh-ccCCccccCCCChHHHHHhhhhh
Q 038234          157 ES-IEGKKYLVVLDDVWTDDYTKWEPFQRCSANGQCGNNILVTTHKK-TVARMM-ESTNFISIKELSTQECWSLFKQE  231 (406)
Q Consensus       157 ~~-l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTtR~~-~v~~~~-~~~~~~~l~~L~~~~a~~Lf~~~  231 (406)
                      .. ..+++-++|+|++...+....+.+...+-.-..++.+|++|.+. .+...+ +....+.+.+++.+++.+.+.+.
T Consensus       100 ~~~~~~~~kv~iI~~a~~m~~~aaNaLLK~LEEPp~~~~fiL~t~~~~~ll~TI~SRc~~~~~~~~~~~~~~~~L~~~  177 (328)
T PRK05707        100 QTAQLGGRKVVLIEPAEAMNRNAANALLKSLEEPSGDTVLLLISHQPSRLLPTIKSRCQQQACPLPSNEESLQWLQQA  177 (328)
T ss_pred             hccccCCCeEEEECChhhCCHHHHHHHHHHHhCCCCCeEEEEEECChhhCcHHHHhhceeeeCCCcCHHHHHHHHHHh
Confidence            11 23445566789998888777888888876655677777777764 344332 34677999999999998888764

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

Probab=97.33  E-value=0.0004  Score=67.96  Aligned_cols=118  Identities=20%  Similarity=0.203  Sum_probs=71.3

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcCChHHHHHHHHHHhcCCCCCCCCHHHHHHHHHhhccCcceeEEeeCCCCcCccCcchhh
Q 038234          104 MISIVGMGGIGKITLAQMAYNDKDFRVAKAIIAALGCETSNLGSLQSLVRCISESIEGKKYLVVLDDVWTDDYTKWEPFQ  183 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdvw~~~~~~~~~l~  183 (406)
                      ++.|.|+-++||||+++.+.......   .+.-.............+....+...-..++.+|+||.|+..  ..|....
T Consensus        39 i~~i~GpR~~GKTtll~~l~~~~~~~---~iy~~~~d~~~~~~~l~d~~~~~~~~~~~~~~yifLDEIq~v--~~W~~~l  113 (398)
T COG1373          39 IILILGPRQVGKTTLLKLLIKGLLEE---IIYINFDDLRLDRIELLDLLRAYIELKEREKSYIFLDEIQNV--PDWERAL  113 (398)
T ss_pred             EEEEECCccccHHHHHHHHHhhCCcc---eEEEEecchhcchhhHHHHHHHHHHhhccCCceEEEecccCc--hhHHHHH
Confidence            99999999999999996655443221   000000000000111122222222222237789999999554  5788877


Q ss_pred             hccCCCCCCcEEEEecCChHHHHH------hccCCccccCCCChHHHHHh
Q 038234          184 RCSANGQCGNNILVTTHKKTVARM------MESTNFISIKELSTQECWSL  227 (406)
Q Consensus       184 ~~l~~~~~gs~IivTtR~~~v~~~------~~~~~~~~l~~L~~~~a~~L  227 (406)
                      ..+.+.++. +|++|+-+..+...      .+....+++.||+..|-..+
T Consensus       114 k~l~d~~~~-~v~itgsss~ll~~~~~~~L~GR~~~~~l~PlSF~Efl~~  162 (398)
T COG1373         114 KYLYDRGNL-DVLITGSSSSLLSKEISESLAGRGKDLELYPLSFREFLKL  162 (398)
T ss_pred             HHHHccccc-eEEEECCchhhhccchhhhcCCCceeEEECCCCHHHHHhh
Confidence            777776655 88888887644332      13367889999999987653

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=97.33  E-value=0.0008  Score=54.80  Aligned_cols=25  Identities=40%  Similarity=0.481  Sum_probs=21.7

Q ss_pred             EEEEEeeeCCCcHHHHHHHHhcCCh
Q 038234          103 KMISIVGMGGIGKITLAQMAYNDKD  127 (406)
Q Consensus       103 ~vi~I~G~gGiGKTtLA~~v~~~~~  127 (406)
                      ..+.|+|++|+||||+++.++....
T Consensus         3 ~~~~l~G~~G~GKTtl~~~l~~~~~   27 (148)
T smart00382        3 EVILIVGPPGSGKTTLARALARELG   27 (148)
T ss_pred             CEEEEECCCCCcHHHHHHHHHhccC
Confidence            4789999999999999998887643

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.

>PRK08939 primosomal protein DnaI; Reviewed

Probab=97.32  E-value=0.00067  Score=63.85  Aligned_cols=111  Identities=16%  Similarity=0.170  Sum_probs=62.8

Q ss_pred             cchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChH-----------HHHHHHHHHhcCCCCCCCC
Q 038234           79 GRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDF-----------RVAKAIIAALGCETSNLGS  147 (406)
Q Consensus        79 GR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~-----------~~~~~i~~~l~~~~~~~~~  147 (406)
                      ++........+++..-..  .+..+-+.|+|..|+|||.||.++++....           .+...+......     .+
T Consensus       135 ~~~~~~~~~~~fi~~~~~--~~~~~gl~L~G~~G~GKThLa~Aia~~l~~~g~~v~~~~~~~l~~~lk~~~~~-----~~  207 (306)
T PRK08939        135 DRLDALMAALDFLEAYPP--GEKVKGLYLYGDFGVGKSYLLAAIANELAKKGVSSTLLHFPEFIRELKNSISD-----GS  207 (306)
T ss_pred             HHHHHHHHHHHHHHHhhc--cCCCCeEEEECCCCCCHHHHHHHHHHHHHHcCCCEEEEEHHHHHHHHHHHHhc-----Cc
Confidence            344444445555553221  123467899999999999999998876432           333333333221     12


Q ss_pred             HHHHHHHHHhhccCcceeEEeeCCCCcCccCcch--hhhcc-CCC-CCCcEEEEecCC
Q 038234          148 LQSLVRCISESIEGKKYLVVLDDVWTDDYTKWEP--FQRCS-ANG-QCGNNILVTTHK  201 (406)
Q Consensus       148 ~~~~~~~l~~~l~~kr~LlVlDdvw~~~~~~~~~--l~~~l-~~~-~~gs~IivTtR~  201 (406)
                      .....+.+     .+-=||||||+.......|..  +...+ ... ..+-.+|+||-.
T Consensus       208 ~~~~l~~l-----~~~dlLiIDDiG~e~~s~~~~~~ll~~Il~~R~~~~~~ti~TSNl  260 (306)
T PRK08939        208 VKEKIDAV-----KEAPVLMLDDIGAEQMSSWVRDEVLGVILQYRMQEELPTFFTSNF  260 (306)
T ss_pred             HHHHHHHh-----cCCCEEEEecCCCccccHHHHHHHHHHHHHHHHHCCCeEEEECCC
Confidence            22222222     245699999997666667753  33333 222 235568888875

>COG2812 DnaX DNA polymerase III, gamma/tau subunits [DNA replication, recombination, and repair]

Probab=97.32  E-value=0.00031  Score=69.87  Aligned_cols=153  Identities=12%  Similarity=0.188  Sum_probs=95.1

Q ss_pred             CceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChH------------HHHHHHHHHhcCCC
Q 038234           75 SEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDF------------RVAKAIIAALGCET  142 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~------------~~~~~i~~~l~~~~  142 (406)
                      ++++|-+.-+..|.+.+...     .-.+-....|+-|+||||+|+-+++..-.            ..-+.|...-..+.
T Consensus        16 ~evvGQe~v~~~L~nal~~~-----ri~hAYlfsG~RGvGKTt~Ari~AkalNC~~~~~~ePC~~C~~Ck~I~~g~~~Dv   90 (515)
T COG2812          16 DDVVGQEHVVKTLSNALENG-----RIAHAYLFSGPRGVGKTTIARILAKALNCENGPTAEPCGKCISCKEINEGSLIDV   90 (515)
T ss_pred             HHhcccHHHHHHHHHHHHhC-----cchhhhhhcCCCCcCchhHHHHHHHHhcCCCCCCCCcchhhhhhHhhhcCCcccc
Confidence            35799999999999988753     23455678999999999999877653211            11111111100000


Q ss_pred             -----CCCCCHHH---HHHHHHhh-ccCcceeEEeeCCCCcCccCcchhhhccCCCCCCcEEEEecCC-hHHHHH-hccC
Q 038234          143 -----SNLGSLQS---LVRCISES-IEGKKYLVVLDDVWTDDYTKWEPFQRCSANGQCGNNILVTTHK-KTVARM-MEST  211 (406)
Q Consensus       143 -----~~~~~~~~---~~~~l~~~-l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTtR~-~~v~~~-~~~~  211 (406)
                           .....+++   +.+...-. ..+|-=..|+|.|+-.....|+.+...+-.-...-..|+.|.+ ..+... .+..
T Consensus        91 iEiDaASn~gVddiR~i~e~v~y~P~~~ryKVyiIDEvHMLS~~afNALLKTLEEPP~hV~FIlATTe~~Kip~TIlSRc  170 (515)
T COG2812          91 IEIDAASNTGVDDIREIIEKVNYAPSEGRYKVYIIDEVHMLSKQAFNALLKTLEEPPSHVKFILATTEPQKIPNTILSRC  170 (515)
T ss_pred             hhhhhhhccChHHHHHHHHHhccCCccccceEEEEecHHhhhHHHHHHHhcccccCccCeEEEEecCCcCcCchhhhhcc
Confidence                 01122233   33222222 2355558999999766667888888887655555565555554 444433 3457


Q ss_pred             CccccCCCChHHHHHhhhhhc
Q 038234          212 NFISIKELSTQECWSLFKQES  232 (406)
Q Consensus       212 ~~~~l~~L~~~~a~~Lf~~~~  232 (406)
                      +.|.+..++.++-...+...+
T Consensus       171 q~f~fkri~~~~I~~~L~~i~  191 (515)
T COG2812         171 QRFDFKRLDLEEIAKHLAAIL  191 (515)
T ss_pred             ccccccCCCHHHHHHHHHHHH
Confidence            889999999999888888766

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

Probab=97.31  E-value=0.00097  Score=64.39  Aligned_cols=157  Identities=11%  Similarity=0.103  Sum_probs=95.6

Q ss_pred             CCCceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChH-------------------HHHHH
Q 038234           73 DESEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDF-------------------RVAKA  133 (406)
Q Consensus        73 ~~~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~-------------------~~~~~  133 (406)
                      .+..++||+.+++.+.+++.....  ......+-|.|-+|.|||.+...++.+...                   .++..
T Consensus       148 ~p~~l~gRe~e~~~v~~F~~~hle--~~t~gSlYVsG~PGtgkt~~l~rvl~~~~~~~~~~~~v~inc~sl~~~~aiF~k  225 (529)
T KOG2227|consen  148 PPGTLKGRELEMDIVREFFSLHLE--LNTSGSLYVSGQPGTGKTALLSRVLDSLSKSSKSPVTVYINCTSLTEASAIFKK  225 (529)
T ss_pred             CCCCccchHHHHHHHHHHHHhhhh--cccCcceEeeCCCCcchHHHHHHHHHhhhhhcccceeEEEeeccccchHHHHHH
Confidence            346789999999999999986654  455678899999999999999988877543                   55666


Q ss_pred             HHHHhcCCCCCCCCHHHHHHHHHhhccCc--ceeEEeeCCCCcCccCcchhhhcc--CCCCCCcEEEEec-CC------h
Q 038234          134 IIAALGCETSNLGSLQSLVRCISESIEGK--KYLVVLDDVWTDDYTKWEPFQRCS--ANGQCGNNILVTT-HK------K  202 (406)
Q Consensus       134 i~~~l~~~~~~~~~~~~~~~~l~~~l~~k--r~LlVlDdvw~~~~~~~~~l~~~l--~~~~~gs~IivTt-R~------~  202 (406)
                      |...+...........+....+.....+.  .+|+|||....-....-..+...+  |.. +++++|+.- =+      +
T Consensus       226 I~~~~~q~~~s~~~~~~~~~~~~~h~~q~k~~~llVlDEmD~L~tr~~~vLy~lFewp~l-p~sr~iLiGiANslDlTdR  304 (529)
T KOG2227|consen  226 IFSSLLQDLVSPGTGMQHLEKFEKHTKQSKFMLLLVLDEMDHLITRSQTVLYTLFEWPKL-PNSRIILIGIANSLDLTDR  304 (529)
T ss_pred             HHHHHHHHhcCCchhHHHHHHHHHHHhcccceEEEEechhhHHhhcccceeeeehhcccC-CcceeeeeeehhhhhHHHH
Confidence            66665222222222244555555555443  589999987432111111222222  222 244443322 11      1


Q ss_pred             HHHHHh----ccCCccccCCCChHHHHHhhhhhc
Q 038234          203 TVARMM----ESTNFISIKELSTQECWSLFKQES  232 (406)
Q Consensus       203 ~v~~~~----~~~~~~~l~~L~~~~a~~Lf~~~~  232 (406)
                      -+.+..    .....+...|-+.++..++|..+.
T Consensus       305 ~LprL~~~~~~~P~~l~F~PYTk~qI~~Il~~rl  338 (529)
T KOG2227|consen  305 FLPRLNLDLTIKPKLLVFPPYTKDQIVEILQQRL  338 (529)
T ss_pred             HhhhhhhccCCCCceeeecCCCHHHHHHHHHHHH
Confidence            111111    125677888999999999998876

>PRK06526 transposase; Provisional

Probab=97.30  E-value=0.00025  Score=64.93  Aligned_cols=24  Identities=25%  Similarity=0.169  Sum_probs=20.2

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ...+.|+|++|+|||+||.++...
T Consensus        98 ~~nlll~Gp~GtGKThLa~al~~~  121 (254)
T PRK06526         98 KENVVFLGPPGTGKTHLAIGLGIR  121 (254)
T ss_pred             CceEEEEeCCCCchHHHHHHHHHH
Confidence            446899999999999999887654

>PRK12377 putative replication protein; Provisional

Probab=97.30  E-value=0.00023  Score=64.79  Aligned_cols=25  Identities=28%  Similarity=0.205  Sum_probs=21.6

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      ...+.++|.+|+|||+||.++++..
T Consensus       101 ~~~l~l~G~~GtGKThLa~AIa~~l  125 (248)
T PRK12377        101 CTNFVFSGKPGTGKNHLAAAIGNRL  125 (248)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHH
Confidence            3578999999999999999888764

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

Probab=97.28  E-value=0.00012  Score=63.30  Aligned_cols=94  Identities=21%  Similarity=0.287  Sum_probs=46.3

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCChH-------HHHHHHHHHhcCCCCCCCCHHHHHHHHHhhccCcceeEEeeCCCCc
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDKDF-------RVAKAIIAALGCETSNLGSLQSLVRCISESIEGKKYLVVLDDVWTD  174 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~~~-------~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdvw~~  174 (406)
                      ..-+.++|.+|+|||.||.++.+....       --..+++..+..... ........+.+.     +-=||||||+-..
T Consensus        47 ~~~l~l~G~~G~GKThLa~ai~~~~~~~g~~v~f~~~~~L~~~l~~~~~-~~~~~~~~~~l~-----~~dlLilDDlG~~  120 (178)
T PF01695_consen   47 GENLILYGPPGTGKTHLAVAIANEAIRKGYSVLFITASDLLDELKQSRS-DGSYEELLKRLK-----RVDLLILDDLGYE  120 (178)
T ss_dssp             --EEEEEESTTSSHHHHHHHHHHHHHHTT--EEEEEHHHHHHHHHCCHC-CTTHCHHHHHHH-----TSSCEEEETCTSS
T ss_pred             CeEEEEEhhHhHHHHHHHHHHHHHhccCCcceeEeecCceecccccccc-ccchhhhcCccc-----cccEeccccccee
Confidence            456999999999999999887664321       001223333332211 122222333222     2358899999655


Q ss_pred             CccCcch--hhhccCCC-CCCcEEEEecCCh
Q 038234          175 DYTKWEP--FQRCSANG-QCGNNILVTTHKK  202 (406)
Q Consensus       175 ~~~~~~~--l~~~l~~~-~~gs~IivTtR~~  202 (406)
                      ....|..  +...+... .++ .+||||...
T Consensus       121 ~~~~~~~~~l~~ii~~R~~~~-~tIiTSN~~  150 (178)
T PF01695_consen  121 PLSEWEAELLFEIIDERYERK-PTIITSNLS  150 (178)
T ss_dssp             ---HHHHHCTHHHHHHHHHT--EEEEEESS-
T ss_pred             eecccccccchhhhhHhhccc-CeEeeCCCc
Confidence            4334432  22222211 223 578888753

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.

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

Probab=97.26  E-value=0.0011  Score=68.69  Aligned_cols=149  Identities=15%  Similarity=0.158  Sum_probs=83.4

Q ss_pred             CceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChH----HHH-------HHHHHHhcCCCC
Q 038234           75 SEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDF----RVA-------KAIIAALGCETS  143 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~----~~~-------~~i~~~l~~~~~  143 (406)
                      +.++||++|+.++++.|.....  +.  .  .++|.+|||||++|.-++.+.-.    ..+       -++. .+.....
T Consensus       170 DPvIGRd~EI~r~iqIL~RR~K--NN--P--vLiGEpGVGKTAIvEGLA~rIv~g~VP~~L~~~~i~sLD~g-~LvAGak  242 (786)
T COG0542         170 DPVIGRDEEIRRTIQILSRRTK--NN--P--VLVGEPGVGKTAIVEGLAQRIVNGDVPESLKDKRIYSLDLG-SLVAGAK  242 (786)
T ss_pred             CCCcChHHHHHHHHHHHhccCC--CC--C--eEecCCCCCHHHHHHHHHHHHhcCCCCHHHcCCEEEEecHH-HHhcccc
Confidence            4689999999999999986532  22  2  37899999999988666554221    110       0011 1111111


Q ss_pred             CCCCHHHH-HHHHHhhccCcceeEEeeCCCCcC---------ccCcchhhhccCCCCCCcEEEEecCChHHHHHh-----
Q 038234          144 NLGSLQSL-VRCISESIEGKKYLVVLDDVWTDD---------YTKWEPFQRCSANGQCGNNILVTTHKKTVARMM-----  208 (406)
Q Consensus       144 ~~~~~~~~-~~~l~~~l~~kr~LlVlDdvw~~~---------~~~~~~l~~~l~~~~~gs~IivTtR~~~v~~~~-----  208 (406)
                      -..+.++. ...+.+.-+.++..|++|.++.--         .+.-+.++..|..+ .--.|=.||-++ .-+.+     
T Consensus       243 yRGeFEeRlk~vl~ev~~~~~vILFIDEiHtiVGAG~~~G~a~DAaNiLKPaLARG-eL~~IGATT~~E-YRk~iEKD~A  320 (786)
T COG0542         243 YRGEFEERLKAVLKEVEKSKNVILFIDEIHTIVGAGATEGGAMDAANLLKPALARG-ELRCIGATTLDE-YRKYIEKDAA  320 (786)
T ss_pred             ccCcHHHHHHHHHHHHhcCCCeEEEEechhhhcCCCcccccccchhhhhHHHHhcC-CeEEEEeccHHH-HHHHhhhchH
Confidence            11233333 333334434558999999885310         11222233333322 122344555443 22222     


Q ss_pred             --ccCCccccCCCChHHHHHhhhhhc
Q 038234          209 --ESTNFISIKELSTQECWSLFKQES  232 (406)
Q Consensus       209 --~~~~~~~l~~L~~~~a~~Lf~~~~  232 (406)
                        ..-+.+.++..+.+++..+++-..
T Consensus       321 L~RRFQ~V~V~EPs~e~ti~ILrGlk  346 (786)
T COG0542         321 LERRFQKVLVDEPSVEDTIAILRGLK  346 (786)
T ss_pred             HHhcCceeeCCCCCHHHHHHHHHHHH
Confidence              236788999999999999986543

>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=97.26  E-value=0.0011  Score=56.50  Aligned_cols=135  Identities=16%  Similarity=0.137  Sum_probs=76.0

Q ss_pred             cchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChH-----------HHHHHHHHHhcCCC----C
Q 038234           79 GRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDF-----------RVAKAIIAALGCET----S  143 (406)
Q Consensus        79 GR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~-----------~~~~~i~~~l~~~~----~  143 (406)
                      |-+...+.|.+.+..+     .-.+.+.++|..|+||+++|..+.+..-.           ...+.+......+.    +
T Consensus         1 gq~~~~~~L~~~~~~~-----~l~ha~L~~G~~g~gk~~~a~~~a~~ll~~~~~~~~c~~c~~c~~~~~~~~~d~~~~~~   75 (162)
T PF13177_consen    1 GQEEIIELLKNLIKSG-----RLPHALLFHGPSGSGKKTLALAFARALLCSNPNEDPCGECRSCRRIEEGNHPDFIIIKP   75 (162)
T ss_dssp             S-HHHHHHHHHHHHCT-----C--SEEEEECSTTSSHHHHHHHHHHHHC-TT-CTT--SSSHHHHHHHTT-CTTEEEEET
T ss_pred             CcHHHHHHHHHHHHcC-----CcceeEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCHHHHHHHhccCcceEEEec
Confidence            4455667777777643     33557899999999999999877653211           11121111111110    0


Q ss_pred             C----CCCHHHHHHHHHhhc-----cCcceeEEeeCCCCcCccCcchhhhccCCCCCCcEEEEecCChH-HHHHh-ccCC
Q 038234          144 N----LGSLQSLVRCISESI-----EGKKYLVVLDDVWTDDYTKWEPFQRCSANGQCGNNILVTTHKKT-VARMM-ESTN  212 (406)
Q Consensus       144 ~----~~~~~~~~~~l~~~l-----~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTtR~~~-v~~~~-~~~~  212 (406)
                      .    .-..+++. .+.+.+     .++.=++|+||+...+....+.+...+-.-..++.+|++|.+.. +...+ +...
T Consensus        76 ~~~~~~i~i~~ir-~i~~~~~~~~~~~~~KviiI~~ad~l~~~a~NaLLK~LEepp~~~~fiL~t~~~~~il~TI~SRc~  154 (162)
T PF13177_consen   76 DKKKKSIKIDQIR-EIIEFLSLSPSEGKYKVIIIDEADKLTEEAQNALLKTLEEPPENTYFILITNNPSKILPTIRSRCQ  154 (162)
T ss_dssp             TTSSSSBSHHHHH-HHHHHCTSS-TTSSSEEEEEETGGGS-HHHHHHHHHHHHSTTTTEEEEEEES-GGGS-HHHHTTSE
T ss_pred             ccccchhhHHHHH-HHHHHHHHHHhcCCceEEEeehHhhhhHHHHHHHHHHhcCCCCCEEEEEEECChHHChHHHHhhce
Confidence            1    12344444 333333     24566899999988887888888888877677888888888753 33332 3344


Q ss_pred             ccccCCC
Q 038234          213 FISIKEL  219 (406)
Q Consensus       213 ~~~l~~L  219 (406)
                      .+.+.+|
T Consensus       155 ~i~~~~l  161 (162)
T PF13177_consen  155 VIRFRPL  161 (162)
T ss_dssp             EEEE---
T ss_pred             EEecCCC
Confidence            5555544

...

>PRK09183 transposase/IS protein; Provisional

Probab=97.25  E-value=0.00081  Score=61.84  Aligned_cols=24  Identities=29%  Similarity=0.375  Sum_probs=19.9

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ...+.|+|++|+|||+||..+...
T Consensus       102 ~~~v~l~Gp~GtGKThLa~al~~~  125 (259)
T PRK09183        102 NENIVLLGPSGVGKTHLAIALGYE  125 (259)
T ss_pred             CCeEEEEeCCCCCHHHHHHHHHHH
Confidence            346789999999999999988543

>PRK10536 hypothetical protein; Provisional

Probab=97.24  E-value=0.0021  Score=58.23  Aligned_cols=41  Identities=22%  Similarity=0.268  Sum_probs=33.2

Q ss_pred             ceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhc
Q 038234           76 EICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus        76 ~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      .+.++......++.+|..        ..++.+.|.+|.|||+||.++..
T Consensus        56 ~i~p~n~~Q~~~l~al~~--------~~lV~i~G~aGTGKT~La~a~a~   96 (262)
T PRK10536         56 PILARNEAQAHYLKAIES--------KQLIFATGEAGCGKTWISAAKAA   96 (262)
T ss_pred             cccCCCHHHHHHHHHHhc--------CCeEEEECCCCCCHHHHHHHHHH
Confidence            456788888888888863        23899999999999999977654

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

Probab=97.23  E-value=0.00078  Score=65.83  Aligned_cols=44  Identities=20%  Similarity=0.192  Sum_probs=36.0

Q ss_pred             CceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234           75 SEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      .++++.+..++.+...|..        .+.+.++|++|+|||++|+.+++..
T Consensus       175 ~d~~i~e~~le~l~~~L~~--------~~~iil~GppGtGKT~lA~~la~~l  218 (459)
T PRK11331        175 NDLFIPETTIETILKRLTI--------KKNIILQGPPGVGKTFVARRLAYLL  218 (459)
T ss_pred             hcccCCHHHHHHHHHHHhc--------CCCEEEECCCCCCHHHHHHHHHHHh
Confidence            4577888899999998874        2367889999999999999887654

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

Probab=97.22  E-value=0.0017  Score=61.26  Aligned_cols=96  Identities=17%  Similarity=0.226  Sum_probs=64.2

Q ss_pred             CCceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChH--------------HHHHHHHHHhc
Q 038234           74 ESEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDF--------------RVAKAIIAALG  139 (406)
Q Consensus        74 ~~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~--------------~~~~~i~~~l~  139 (406)
                      ++.+.+|+.++..+..++....   ..-+..|.|+|-.|.|||.+.+++++....              .++..|+..+.
T Consensus         5 ~~~v~~Re~qi~~L~~Llg~~~---~~~PS~~~iyG~sgTGKT~~~r~~l~~~n~~~vw~n~~ecft~~~lle~IL~~~~   81 (438)
T KOG2543|consen    5 EPNVPCRESQIRRLKSLLGNNS---CTIPSIVHIYGHSGTGKTYLVRQLLRKLNLENVWLNCVECFTYAILLEKILNKSQ   81 (438)
T ss_pred             ccCccchHHHHHHHHHHhCCCC---cccceeEEEeccCCCchhHHHHHHHhhcCCcceeeehHHhccHHHHHHHHHHHhc
Confidence            4567899999999999887653   223556699999999999999999988732              55666777764


Q ss_pred             CCCCCC-------CCHHHHHHHHHh--hcc--CcceeEEeeCCC
Q 038234          140 CETSNL-------GSLQSLVRCISE--SIE--GKKYLVVLDDVW  172 (406)
Q Consensus       140 ~~~~~~-------~~~~~~~~~l~~--~l~--~kr~LlVlDdvw  172 (406)
                      ....+.       .+..+.+..+.+  ...  ++.++||||++.
T Consensus        82 ~~d~dg~~~~~~~en~~d~i~~l~q~~~~t~~d~~~~liLDnad  125 (438)
T KOG2543|consen   82 LADKDGDKVEGDAENFSDFIYLLVQWPAATNRDQKVFLILDNAD  125 (438)
T ss_pred             cCCCchhhhhhHHHHHHHHHHHHHhhHHhhccCceEEEEEcCHH
Confidence            221111       112223333333  122  568999999994

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=97.21  E-value=0.00076  Score=72.52  Aligned_cols=124  Identities=16%  Similarity=0.179  Sum_probs=72.1

Q ss_pred             CceecchhhHHHHHHHHhcCCC---CCCCCcEEEEEeeeCCCcHHHHHHHHhcCChH-----------HHHH-HHHHHhc
Q 038234           75 SEICGRDYKKNELLSKLLSDSS---DQQKPIKMISIVGMGGIGKITLAQMAYNDKDF-----------RVAK-AIIAALG  139 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~---~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~-----------~~~~-~i~~~l~  139 (406)
                      ..++|.+..++.+.+.+.....   ..+.+..++.++|++|+|||++|+.+......           .+.. .....+.
T Consensus       565 ~~v~GQ~~av~~v~~~i~~~~~gl~~~~~p~~~~Lf~Gp~GvGKt~lA~~La~~l~~~~~~~i~~d~s~~~~~~~~~~l~  644 (852)
T TIGR03346       565 ERVVGQDEAVEAVSDAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELAKALAEFLFDDEDAMVRIDMSEYMEKHSVARLI  644 (852)
T ss_pred             cccCCChHHHHHHHHHHHHHhccCCCCCCCCeEEEEEcCCCCCHHHHHHHHHHHhcCCCCcEEEEechhhcccchHHHhc
Confidence            4688999999999888865321   01234567889999999999999988764210           1111 0111221


Q ss_pred             CCCCCCC---CHHHHHHHHHhhccCcceeEEeeCCCCcCccCcchhhhccCCC-----------CCCcEEEEecCC
Q 038234          140 CETSNLG---SLQSLVRCISESIEGKKYLVVLDDVWTDDYTKWEPFQRCSANG-----------QCGNNILVTTHK  201 (406)
Q Consensus       140 ~~~~~~~---~~~~~~~~l~~~l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~-----------~~gs~IivTtR~  201 (406)
                      +..+...   ....+...++.   ....+|+||++...+...++.|...+..+           -..+.||+||..
T Consensus       645 g~~~g~~g~~~~g~l~~~v~~---~p~~vlllDeieka~~~v~~~Ll~~l~~g~l~d~~g~~vd~rn~iiI~TSn~  717 (852)
T TIGR03346       645 GAPPGYVGYEEGGQLTEAVRR---KPYSVVLFDEVEKAHPDVFNVLLQVLDDGRLTDGQGRTVDFRNTVIIMTSNL  717 (852)
T ss_pred             CCCCCccCcccccHHHHHHHc---CCCcEEEEeccccCCHHHHHHHHHHHhcCceecCCCeEEecCCcEEEEeCCc
Confidence            2111111   11122222222   22348999999877777777777766432           123457777765

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.

>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=97.16  E-value=0.00031  Score=56.45  Aligned_cols=23  Identities=39%  Similarity=0.374  Sum_probs=20.9

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcCC
Q 038234          104 MISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      +|.|.|++|+||||+|+.+.+..
T Consensus         1 vI~I~G~~gsGKST~a~~La~~~   23 (121)
T PF13207_consen    1 VIIISGPPGSGKSTLAKELAERL   23 (121)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHHHH
Confidence            68999999999999999998863

...

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

Probab=97.14  E-value=0.00051  Score=72.67  Aligned_cols=156  Identities=14%  Similarity=0.149  Sum_probs=82.2

Q ss_pred             CceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChHHHH-------HHHHHHhcCCC--CCC
Q 038234           75 SEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDFRVA-------KAIIAALGCET--SNL  145 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~-------~~i~~~l~~~~--~~~  145 (406)
                      .+.+|.++-.+.++++|............++.++|++|+||||+|+.++......+.       .+. ..+....  ...
T Consensus       322 ~~~~g~~~vK~~i~~~l~~~~~~~~~~g~~i~l~GppG~GKTtl~~~ia~~l~~~~~~i~~~~~~d~-~~i~g~~~~~~g  400 (784)
T PRK10787        322 TDHYGLERVKDRILEYLAVQSRVNKIKGPILCLVGPPGVGKTSLGQSIAKATGRKYVRMALGGVRDE-AEIRGHRRTYIG  400 (784)
T ss_pred             hhccCHHHHHHHHHHHHHHHHhcccCCCceEEEECCCCCCHHHHHHHHHHHhCCCEEEEEcCCCCCH-HHhccchhccCC
Confidence            467899999999988776321111233558999999999999999988764322110       000 0010000  000


Q ss_pred             CCHHHHHHHHHhhccCcceeEEeeCCCCcCccC----cchhhhccCCC---------------CCCcEEEEecCChHHHH
Q 038234          146 GSLQSLVRCISESIEGKKYLVVLDDVWTDDYTK----WEPFQRCSANG---------------QCGNNILVTTHKKTVAR  206 (406)
Q Consensus       146 ~~~~~~~~~l~~~l~~kr~LlVlDdvw~~~~~~----~~~l~~~l~~~---------------~~gs~IivTtR~~~v~~  206 (406)
                      .....+.+.+...- ...-+|+||.+.......    .+.+...+...               -++.-+|.|+..-.+..
T Consensus       401 ~~~G~~~~~l~~~~-~~~~villDEidk~~~~~~g~~~~aLlevld~~~~~~~~d~~~~~~~dls~v~~i~TaN~~~i~~  479 (784)
T PRK10787        401 SMPGKLIQKMAKVG-VKNPLFLLDEIDKMSSDMRGDPASALLEVLDPEQNVAFSDHYLEVDYDLSDVMFVATSNSMNIPA  479 (784)
T ss_pred             CCCcHHHHHHHhcC-CCCCEEEEEChhhcccccCCCHHHHHHHHhccccEEEEecccccccccCCceEEEEcCCCCCCCH
Confidence            01112333333322 234578999985443221    13344433221               12333444554322211


Q ss_pred             -HhccCCccccCCCChHHHHHhhhhhc
Q 038234          207 -MMESTNFISIKELSTQECWSLFKQES  232 (406)
Q Consensus       207 -~~~~~~~~~l~~L~~~~a~~Lf~~~~  232 (406)
                       ......++.+.+++.++-.++.++..
T Consensus       480 aLl~R~~ii~~~~~t~eek~~Ia~~~L  506 (784)
T PRK10787        480 PLLDRMEVIRLSGYTEDEKLNIAKRHL  506 (784)
T ss_pred             HHhcceeeeecCCCCHHHHHHHHHHhh
Confidence             12335788999999999877766544

>TIGR00763 lon ATP-dependent protease La

Probab=97.11  E-value=0.0014  Score=69.74  Aligned_cols=155  Identities=12%  Similarity=0.137  Sum_probs=79.5

Q ss_pred             CceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChHHHH-------HHHHHHhcCCCC--CC
Q 038234           75 SEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDFRVA-------KAIIAALGCETS--NL  145 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~-------~~i~~~l~~~~~--~~  145 (406)
                      .+.+|.+.-++.+.+++......+.....++.++|++|+|||++|+.+++.....+.       ... ..+.....  ..
T Consensus       320 ~~~~G~~~~k~~i~~~~~~~~~~~~~~~~~lll~GppG~GKT~lAk~iA~~l~~~~~~i~~~~~~~~-~~i~g~~~~~~g  398 (775)
T TIGR00763       320 EDHYGLKKVKERILEYLAVQKLRGKMKGPILCLVGPPGVGKTSLGKSIAKALNRKFVRFSLGGVRDE-AEIRGHRRTYVG  398 (775)
T ss_pred             hhcCChHHHHHHHHHHHHHHHhhcCCCCceEEEECCCCCCHHHHHHHHHHHhcCCeEEEeCCCcccH-HHHcCCCCceeC
Confidence            357788888888887654221101223457999999999999999999876532110       000 11111100  01


Q ss_pred             CCHHHHHHHHHhhccCcceeEEeeCCCCcCccC----cchhhhccCC--------C-------CCCcEEEEecCChH-HH
Q 038234          146 GSLQSLVRCISESIEGKKYLVVLDDVWTDDYTK----WEPFQRCSAN--------G-------QCGNNILVTTHKKT-VA  205 (406)
Q Consensus       146 ~~~~~~~~~l~~~l~~kr~LlVlDdvw~~~~~~----~~~l~~~l~~--------~-------~~gs~IivTtR~~~-v~  205 (406)
                      .....+.+.+.... .++-+|+||.+.......    .+.+...+..        .       .++..+|.||.... +.
T Consensus       399 ~~~g~i~~~l~~~~-~~~~villDEidk~~~~~~~~~~~aLl~~ld~~~~~~f~d~~~~~~~d~s~v~~I~TtN~~~~i~  477 (775)
T TIGR00763       399 AMPGRIIQGLKKAK-TKNPLFLLDEIDKIGSSFRGDPASALLEVLDPEQNNAFSDHYLDVPFDLSKVIFIATANSIDTIP  477 (775)
T ss_pred             CCCchHHHHHHHhC-cCCCEEEEechhhcCCccCCCHHHHHHHhcCHHhcCccccccCCceeccCCEEEEEecCCchhCC
Confidence            11223333444332 233478999985543211    1222222211        0       12233344444321 11


Q ss_pred             -HHhccCCccccCCCChHHHHHhhhhh
Q 038234          206 -RMMESTNFISIKELSTQECWSLFKQE  231 (406)
Q Consensus       206 -~~~~~~~~~~l~~L~~~~a~~Lf~~~  231 (406)
                       .......++++.+++.++-..++.+.
T Consensus       478 ~~L~~R~~vi~~~~~~~~e~~~I~~~~  504 (775)
T TIGR00763       478 RPLLDRMEVIELSGYTEEEKLEIAKKY  504 (775)
T ss_pred             HHHhCCeeEEecCCCCHHHHHHHHHHH
Confidence             11233568899999998887777654

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.

>PRK06696 uridine kinase; Validated

Probab=97.10  E-value=0.00061  Score=61.26  Aligned_cols=44  Identities=23%  Similarity=0.239  Sum_probs=35.1

Q ss_pred             cchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234           79 GRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus        79 GR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      .|.+-+++|.+.+....   .+...+|+|.|.+|+||||||+.+.+.
T Consensus         2 ~~~~~~~~la~~~~~~~---~~~~~iI~I~G~sgsGKSTlA~~L~~~   45 (223)
T PRK06696          2 SRKQLIKELAEHILTLN---LTRPLRVAIDGITASGKTTFADELAEE   45 (223)
T ss_pred             cHHHHHHHHHHHHHHhC---CCCceEEEEECCCCCCHHHHHHHHHHH
Confidence            36677888888887532   456889999999999999999887654

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

Probab=97.10  E-value=0.00084  Score=61.14  Aligned_cols=27  Identities=30%  Similarity=0.055  Sum_probs=23.3

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHhcCCh
Q 038234          101 PIKMISIVGMGGIGKITLAQMAYNDKD  127 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~~~~~  127 (406)
                      ....++|+|++|+|||||++.+++...
T Consensus        15 ~Gqr~~I~G~~G~GKTTLlr~I~n~l~   41 (249)
T cd01128          15 KGQRGLIVAPPKAGKTTLLQSIANAIT   41 (249)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhccc
Confidence            356889999999999999999998653

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.

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

Probab=97.09  E-value=0.00096  Score=70.19  Aligned_cols=112  Identities=11%  Similarity=0.163  Sum_probs=64.0

Q ss_pred             CceecchhhHHHHHHHHhcCC---CCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChHH--------HHH-HHHHHhcCCC
Q 038234           75 SEICGRDYKKNELLSKLLSDS---SDQQKPIKMISIVGMGGIGKITLAQMAYNDKDFR--------VAK-AIIAALGCET  142 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~---~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~--------~~~-~i~~~l~~~~  142 (406)
                      ..++|-++.++.+.+.+....   ...+.+...+.++|++|+|||.||+.++......        +.. .....+.+..
T Consensus       458 ~~ViGQ~~ai~~l~~~i~~~~~gl~~~~kp~~~~Lf~GP~GvGKT~lAk~LA~~l~~~~i~id~se~~~~~~~~~LiG~~  537 (758)
T PRK11034        458 MLVFGQDKAIEALTEAIKMSRAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKALGIELLRFDMSEYMERHTVSRLIGAP  537 (758)
T ss_pred             ceEeCcHHHHHHHHHHHHHHhccccCCCCCcceEEEECCCCCCHHHHHHHHHHHhCCCcEEeechhhcccccHHHHcCCC
Confidence            457899999988888876321   1113445678999999999999999887754321        100 0112222221


Q ss_pred             CCCCCHHHHHHHHHhhccC-cceeEEeeCCCCcCccCcchhhhccC
Q 038234          143 SNLGSLQSLVRCISESIEG-KKYLVVLDDVWTDDYTKWEPFQRCSA  187 (406)
Q Consensus       143 ~~~~~~~~~~~~l~~~l~~-kr~LlVlDdvw~~~~~~~~~l~~~l~  187 (406)
                      +.....+ ....+.+.+.. ...+|+||++...+.+.++.+...+.
T Consensus       538 ~gyvg~~-~~g~L~~~v~~~p~sVlllDEieka~~~v~~~LLq~ld  582 (758)
T PRK11034        538 PGYVGFD-QGGLLTDAVIKHPHAVLLLDEIEKAHPDVFNLLLQVMD  582 (758)
T ss_pred             CCccccc-ccchHHHHHHhCCCcEEEeccHhhhhHHHHHHHHHHHh
Confidence            1111100 00112222332 34699999997777666666666554

>PRK08118 topology modulation protein; Reviewed

Probab=97.03  E-value=0.00082  Score=57.48  Aligned_cols=64  Identities=20%  Similarity=0.282  Sum_probs=38.0

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcCChHHH--HHHHHHHhcCCCCCCCCHHHHHHHHHhhccCcceeEEeeCCC
Q 038234          104 MISIVGMGGIGKITLAQMAYNDKDFRV--AKAIIAALGCETSNLGSLQSLVRCISESIEGKKYLVVLDDVW  172 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~~~~~~--~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdvw  172 (406)
                      .|.|+|++|+||||||+.+++.....+  +..+....+   ....+.++....+.+.+.++.|  |+|...
T Consensus         3 rI~I~G~~GsGKSTlak~L~~~l~~~~~~lD~l~~~~~---w~~~~~~~~~~~~~~~~~~~~w--VidG~~   68 (167)
T PRK08118          3 KIILIGSGGSGKSTLARQLGEKLNIPVHHLDALFWKPN---WEGVPKEEQITVQNELVKEDEW--IIDGNY   68 (167)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCCceecchhhcccC---CcCCCHHHHHHHHHHHhcCCCE--EEeCCc
Confidence            589999999999999999998754311  111111111   1112233455555555666654  778763

>COG2884 FtsE Predicted ATPase involved in cell division [Cell division and chromosome partitioning]

Probab=97.02  E-value=0.0032  Score=53.86  Aligned_cols=57  Identities=19%  Similarity=0.314  Sum_probs=37.3

Q ss_pred             HHHHhhccCcceeEEeeCCCC--cCccCcchhhhccCCCCCCcEEEEecCChHHHHHhc
Q 038234          153 RCISESIEGKKYLVVLDDVWT--DDYTKWEPFQRCSANGQCGNNILVTTHKKTVARMME  209 (406)
Q Consensus       153 ~~l~~~l~~kr~LlVlDdvw~--~~~~~~~~l~~~l~~~~~gs~IivTtR~~~v~~~~~  209 (406)
                      -.|.+.+-+++-||+=|.---  +....|+.+.-.-.-+..|+-||++|.+..+...+.
T Consensus       146 vaIARAiV~~P~vLlADEPTGNLDp~~s~~im~lfeeinr~GtTVl~ATHd~~lv~~~~  204 (223)
T COG2884         146 VAIARAIVNQPAVLLADEPTGNLDPDLSWEIMRLFEEINRLGTTVLMATHDLELVNRMR  204 (223)
T ss_pred             HHHHHHHccCCCeEeecCCCCCCChHHHHHHHHHHHHHhhcCcEEEEEeccHHHHHhcc
Confidence            356677778899999984311  122355544332223456999999999998887764

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

Probab=97.02  E-value=0.0021  Score=60.37  Aligned_cols=38  Identities=34%  Similarity=0.460  Sum_probs=28.5

Q ss_pred             cchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHH
Q 038234           79 GRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMA  122 (406)
Q Consensus        79 GR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v  122 (406)
                      +|..+-.--+++|+      ++.+..|.+.|.+|.|||-||.+.
T Consensus       228 prn~eQ~~ALdlLl------d~dI~lV~L~G~AGtGKTlLALaA  265 (436)
T COG1875         228 PRNAEQRVALDLLL------DDDIDLVSLGGKAGTGKTLLALAA  265 (436)
T ss_pred             cccHHHHHHHHHhc------CCCCCeEEeeccCCccHhHHHHHH
Confidence            35555555567776      455899999999999999998543

>PF14516 AAA_35: AAA-like domain

Probab=96.99  E-value=0.041  Score=52.57  Aligned_cols=173  Identities=13%  Similarity=0.064  Sum_probs=95.4

Q ss_pred             cCCCceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChH----------------------H
Q 038234           72 IDESEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDF----------------------R  129 (406)
Q Consensus        72 ~~~~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~----------------------~  129 (406)
                      .+.+..|.|...-+++.+.|...       ...+.|.|+-.+|||+|...+.+....                      .
T Consensus         8 ~~~~~Yi~R~~~e~~~~~~i~~~-------G~~~~I~apRq~GKTSll~~l~~~l~~~~~~~v~id~~~~~~~~~~~~~~   80 (331)
T PF14516_consen    8 LDSPFYIERPPAEQECYQEIVQP-------GSYIRIKAPRQMGKTSLLLRLLERLQQQGYRCVYIDLQQLGSAIFSDLEQ   80 (331)
T ss_pred             CCCCcccCchHHHHHHHHHHhcC-------CCEEEEECcccCCHHHHHHHHHHHHHHCCCEEEEEEeecCCCcccCCHHH
Confidence            34456788987777777777542       458899999999999999777654432                      3


Q ss_pred             HHHHHH----HHhcCCCC-------CCCCHHHHHHHHHhhc---cCcceeEEeeCCCCcCc--cCcchhhhccC----CC
Q 038234          130 VAKAII----AALGCETS-------NLGSLQSLVRCISESI---EGKKYLVVLDDVWTDDY--TKWEPFQRCSA----NG  189 (406)
Q Consensus       130 ~~~~i~----~~l~~~~~-------~~~~~~~~~~~l~~~l---~~kr~LlVlDdvw~~~~--~~~~~l~~~l~----~~  189 (406)
                      +++.+.    .++.....       ...........+.+.+   .+++.+|+||++..--.  ...+.+...+.    ..
T Consensus        81 f~~~~~~~i~~~L~l~~~l~~~w~~~~~~~~~~~~~~~~~ll~~~~~~lVL~iDEiD~l~~~~~~~~dF~~~LR~~~~~~  160 (331)
T PF14516_consen   81 FLRWFCEEISRQLKLDEKLDEYWDEEIGSKISCTEYFEEYLLKQIDKPLVLFIDEIDRLFEYPQIADDFFGLLRSWYEQR  160 (331)
T ss_pred             HHHHHHHHHHHHcCCChhHHHHHHHhcCChhhHHHHHHHHHHhcCCCCEEEEEechhhhccCcchHHHHHHHHHHHHHhc
Confidence            333333    33332211       0112223333343332   26899999999843211  11112222221    10


Q ss_pred             C----CCc--EEEEecCChHHHHHh-----ccCCccccCCCChHHHHHhhhhhc-------------cccchhHHHHHHh
Q 038234          190 Q----CGN--NILVTTHKKTVARMM-----ESTNFISIKELSTQECWSLFKQES-------------SAKPCLLLQKLLG  245 (406)
Q Consensus       190 ~----~gs--~IivTtR~~~v~~~~-----~~~~~~~l~~L~~~~a~~Lf~~~~-------------i~~~cPLai~~~g  245 (406)
                      .    ...  -|++.+.........     .....+.|.+++.+|...|+.+.-             ...+.|..+..++
T Consensus       161 ~~~~~~~~L~li~~~~t~~~~~~~~~~SPFNIg~~i~L~~Ft~~ev~~L~~~~~~~~~~~~~~~l~~~tgGhP~Lv~~~~  240 (331)
T PF14516_consen  161 KNNPIWQKLRLILAGSTEDYIILDINQSPFNIGQPIELPDFTPEEVQELAQRYGLEFSQEQLEQLMDWTGGHPYLVQKAC  240 (331)
T ss_pred             ccCcccceEEEEEecCcccccccCCCCCCcccccceeCCCCCHHHHHHHHHhhhccCCHHHHHHHHHHHCCCHHHHHHHH
Confidence            0    111  222222111111111     125678999999999999988755             2233388888888


Q ss_pred             hhhcch
Q 038234          246 VSCALK  251 (406)
Q Consensus       246 ~~L~~~  251 (406)
                      ..+...
T Consensus       241 ~~l~~~  246 (331)
T PF14516_consen  241 YLLVEE  246 (331)
T ss_pred             HHHHHc
Confidence            777553

>PRK06871 DNA polymerase III subunit delta'; Validated

Probab=96.97  E-value=0.0042  Score=58.76  Aligned_cols=143  Identities=7%  Similarity=0.014  Sum_probs=87.2

Q ss_pred             HHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChH------------HHHHHHHHHhcCC-------CCC
Q 038234           84 KNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDF------------RVAKAIIAALGCE-------TSN  144 (406)
Q Consensus        84 ~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~------------~~~~~i~~~l~~~-------~~~  144 (406)
                      -+.+.+.+..     +.-.+.+.++|+.|+||+++|..+++..-.            ..-+.+...-.++       ...
T Consensus        11 ~~~l~~~~~~-----~rl~HA~Lf~G~~G~GK~~lA~~~A~~llC~~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~p~~~~   85 (325)
T PRK06871         11 YQQITQAFQQ-----GLGHHALLFKADSGLGTEQLIRALAQWLMCQTPQGDQPCGQCHSCHLFQAGNHPDFHILEPIDNK   85 (325)
T ss_pred             HHHHHHHHHc-----CCcceeEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHhcCCCCCEEEEccccCC
Confidence            3455555553     233567889999999999999877653210            1111111111110       001


Q ss_pred             CCCHHHHHH---HHHh-hccCcceeEEeeCCCCcCccCcchhhhccCCCCCCcEEEEecCCh-HHHHHh-ccCCccccCC
Q 038234          145 LGSLQSLVR---CISE-SIEGKKYLVVLDDVWTDDYTKWEPFQRCSANGQCGNNILVTTHKK-TVARMM-ESTNFISIKE  218 (406)
Q Consensus       145 ~~~~~~~~~---~l~~-~l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTtR~~-~v~~~~-~~~~~~~l~~  218 (406)
                      ....+++..   .+.. -..+++-++|+|++...+....+.+...+-.-..++.+|++|.+. .+...+ +....+.+.+
T Consensus        86 ~I~id~iR~l~~~~~~~~~~g~~KV~iI~~a~~m~~~AaNaLLKtLEEPp~~~~fiL~t~~~~~llpTI~SRC~~~~~~~  165 (325)
T PRK06871         86 DIGVDQVREINEKVSQHAQQGGNKVVYIQGAERLTEAAANALLKTLEEPRPNTYFLLQADLSAALLPTIYSRCQTWLIHP  165 (325)
T ss_pred             CCCHHHHHHHHHHHhhccccCCceEEEEechhhhCHHHHHHHHHHhcCCCCCeEEEEEECChHhCchHHHhhceEEeCCC
Confidence            112333332   2221 124666788999998887777888888887666677777777664 444333 3467899999


Q ss_pred             CChHHHHHhhhhh
Q 038234          219 LSTQECWSLFKQE  231 (406)
Q Consensus       219 L~~~~a~~Lf~~~  231 (406)
                      ++.++..+.+...
T Consensus       166 ~~~~~~~~~L~~~  178 (325)
T PRK06871        166 PEEQQALDWLQAQ  178 (325)
T ss_pred             CCHHHHHHHHHHH
Confidence            9999998877764

>PRK09376 rho transcription termination factor Rho; Provisional

Probab=96.96  E-value=0.001  Score=63.79  Aligned_cols=25  Identities=28%  Similarity=0.034  Sum_probs=21.9

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      .....|+|++|+||||||+++|+..
T Consensus       169 GQR~lIvgppGvGKTTLaK~Ian~I  193 (416)
T PRK09376        169 GQRGLIVAPPKAGKTVLLQNIANSI  193 (416)
T ss_pred             CceEEEeCCCCCChhHHHHHHHHHH
Confidence            4567899999999999999999854

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

Probab=96.90  E-value=0.0017  Score=58.43  Aligned_cols=25  Identities=28%  Similarity=0.254  Sum_probs=20.3

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      .-.++|+|..|.|||||...+....
T Consensus        13 ~fr~viIG~sGSGKT~li~~lL~~~   37 (241)
T PF04665_consen   13 PFRMVIIGKSGSGKTTLIKSLLYYL   37 (241)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHhh
Confidence            3367899999999999998776654

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

>CHL00095 clpC Clp protease ATP binding subunit

Probab=96.90  E-value=0.0013  Score=70.56  Aligned_cols=125  Identities=14%  Similarity=0.166  Sum_probs=71.1

Q ss_pred             CceecchhhHHHHHHHHhcCC---CCCCCCcEEEEEeeeCCCcHHHHHHHHhcCCh---H--------HHH--HHHHHHh
Q 038234           75 SEICGRDYKKNELLSKLLSDS---SDQQKPIKMISIVGMGGIGKITLAQMAYNDKD---F--------RVA--KAIIAAL  138 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~---~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~---~--------~~~--~~i~~~l  138 (406)
                      ..++|-+..++.+.+.+....   ...+.+...+.++|+.|+|||+||+.+.+...   .        .+.  ..+ ..+
T Consensus       509 ~~v~GQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKt~lA~~LA~~l~~~~~~~~~~d~s~~~~~~~~-~~l  587 (821)
T CHL00095        509 KRIIGQDEAVVAVSKAIRRARVGLKNPNRPIASFLFSGPTGVGKTELTKALASYFFGSEDAMIRLDMSEYMEKHTV-SKL  587 (821)
T ss_pred             CcCcChHHHHHHHHHHHHHHhhcccCCCCCceEEEEECCCCCcHHHHHHHHHHHhcCCccceEEEEchhccccccH-HHh
Confidence            568899999999888775321   11134456678999999999999988776421   0        100  001 111


Q ss_pred             cCCCCCCCCHHHHHHHHHhhccCcc-eeEEeeCCCCcCccCcchhhhccCCC-----------CCCcEEEEecCC
Q 038234          139 GCETSNLGSLQSLVRCISESIEGKK-YLVVLDDVWTDDYTKWEPFQRCSANG-----------QCGNNILVTTHK  201 (406)
Q Consensus       139 ~~~~~~~~~~~~~~~~l~~~l~~kr-~LlVlDdvw~~~~~~~~~l~~~l~~~-----------~~gs~IivTtR~  201 (406)
                      .+..+.....++ ...+.+.+..++ .+++||++...+.+.++.+...+..+           -..+.||+||..
T Consensus       588 ~g~~~gyvg~~~-~~~l~~~~~~~p~~VvllDeieka~~~v~~~Llq~le~g~~~d~~g~~v~~~~~i~I~Tsn~  661 (821)
T CHL00095        588 IGSPPGYVGYNE-GGQLTEAVRKKPYTVVLFDEIEKAHPDIFNLLLQILDDGRLTDSKGRTIDFKNTLIIMTSNL  661 (821)
T ss_pred             cCCCCcccCcCc-cchHHHHHHhCCCeEEEECChhhCCHHHHHHHHHHhccCceecCCCcEEecCceEEEEeCCc
Confidence            111111111100 112334444455 48999999877777777777766542           134566777765

>PF14532 Sigma54_activ_2: Sigma-54 interaction domain; PDB: 3CO5_B 3N70_H

Probab=96.88  E-value=0.00069  Score=55.96  Aligned_cols=108  Identities=14%  Similarity=0.070  Sum_probs=59.5

Q ss_pred             ecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChHHHHHHHHHHhcCCCCCCCCHHHH-HHHHH
Q 038234           78 CGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDFRVAKAIIAALGCETSNLGSLQSL-VRCIS  156 (406)
Q Consensus        78 vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~~~i~~~l~~~~~~~~~~~~~-~~~l~  156 (406)
                      ||.-..++++.+.+..-.    .....|.|+|..|+||+++|+.++.....          ........+.... .+.+.
T Consensus         1 vG~S~~~~~l~~~l~~~a----~~~~pvli~GE~GtGK~~~A~~lh~~~~~----------~~~~~~~~~~~~~~~~~l~   66 (138)
T PF14532_consen    1 VGKSPAMRRLRRQLERLA----KSSSPVLITGEPGTGKSLLARALHRYSGR----------ANGPFIVIDCASLPAELLE   66 (138)
T ss_dssp             --SCHHHHHHHHHHHHHH----CSSS-EEEECCTTSSHHHHHHCCHHTTTT----------CCS-CCCCCHHCTCHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHh----CCCCcEEEEcCCCCCHHHHHHHHHhhcCc----------cCCCeEEechhhCcHHHHH
Confidence            466666777777665432    22345789999999999999988876432          0000000000000 11222


Q ss_pred             hhccCcceeEEeeCCCCcCccCcchhhhccCC-CCCCcEEEEecCCh
Q 038234          157 ESIEGKKYLVVLDDVWTDDYTKWEPFQRCSAN-GQCGNNILVTTHKK  202 (406)
Q Consensus       157 ~~l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~-~~~gs~IivTtR~~  202 (406)
                      .   .+.--|+|+|+..-+......+...+.. .....++|.||...
T Consensus        67 ~---a~~gtL~l~~i~~L~~~~Q~~L~~~l~~~~~~~~RlI~ss~~~  110 (138)
T PF14532_consen   67 Q---AKGGTLYLKNIDRLSPEAQRRLLDLLKRQERSNVRLIASSSQD  110 (138)
T ss_dssp             H---CTTSEEEEECGCCS-HHHHHHHHHHHHHCTTTTSEEEEEECC-
T ss_pred             H---cCCCEEEECChHHCCHHHHHHHHHHHHhcCCCCeEEEEEeCCC
Confidence            2   2555688999955444444445555542 24577999998853

>PF02562 PhoH: PhoH-like protein; InterPro: IPR003714 PhoH is a cytoplasmic protein and predicted ATPase that is induced by phosphate starvation and belongings to the phosphate regulon (pho) in Escherichia coli []

Probab=96.84  E-value=0.0021  Score=56.55  Aligned_cols=37  Identities=27%  Similarity=0.332  Sum_probs=24.3

Q ss_pred             cchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHh
Q 038234           79 GRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAY  123 (406)
Q Consensus        79 GR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~  123 (406)
                      .+..+-...++.|..        ..++.+.|++|.|||.||.+..
T Consensus         4 p~~~~Q~~~~~al~~--------~~~v~~~G~AGTGKT~LA~a~A   40 (205)
T PF02562_consen    4 PKNEEQKFALDALLN--------NDLVIVNGPAGTGKTFLALAAA   40 (205)
T ss_dssp             --SHHHHHHHHHHHH---------SEEEEE--TTSSTTHHHHHHH
T ss_pred             CCCHHHHHHHHHHHh--------CCeEEEECCCCCcHHHHHHHHH
Confidence            345556666777762        4489999999999999996554

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

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

Probab=96.83  E-value=0.00087  Score=63.55  Aligned_cols=73  Identities=16%  Similarity=0.171  Sum_probs=43.8

Q ss_pred             CCCcEEEEEeeeCCCcHHHHHHHHhcCChHHHHHHHHHHhcCCCCCCCCHHHHHHHHHhh-----ccCcceeEEeeCCC
Q 038234           99 QKPIKMISIVGMGGIGKITLAQMAYNDKDFRVAKAIIAALGCETSNLGSLQSLVRCISES-----IEGKKYLVVLDDVW  172 (406)
Q Consensus        99 ~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~-----l~~kr~LlVlDdvw  172 (406)
                      -..+..++|||++|.|||.+|+++++.....+..--...+...... .+...+.+.+...     -++++++|++|++.
T Consensus       145 ik~PlgllL~GPPGcGKTllAraiA~elg~~~i~vsa~eL~sk~vG-EsEk~IR~~F~~A~~~a~~~~aPcVLFIDEID  222 (413)
T PLN00020        145 IKVPLILGIWGGKGQGKSFQCELVFKKMGIEPIVMSAGELESENAG-EPGKLIRQRYREAADIIKKKGKMSCLFINDLD  222 (413)
T ss_pred             CCCCeEEEeeCCCCCCHHHHHHHHHHHcCCCeEEEEHHHhhcCcCC-cHHHHHHHHHHHHHHHhhccCCCeEEEEehhh
Confidence            3568899999999999999999999887653211111111111111 1122222222222     25789999999984

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

Probab=96.83  E-value=0.0015  Score=59.80  Aligned_cols=25  Identities=28%  Similarity=0.341  Sum_probs=21.6

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      ..-+.++|.+|+|||.||.++.+..
T Consensus       105 ~~nl~l~G~~G~GKThLa~Ai~~~l  129 (254)
T COG1484         105 GENLVLLGPPGVGKTHLAIAIGNEL  129 (254)
T ss_pred             CCcEEEECCCCCcHHHHHHHHHHHH
Confidence            5578999999999999998887764

>PRK06921 hypothetical protein; Provisional

Probab=96.81  E-value=0.0032  Score=58.13  Aligned_cols=25  Identities=32%  Similarity=0.420  Sum_probs=21.6

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      ...+.++|.+|+|||+||.++++..
T Consensus       117 ~~~l~l~G~~G~GKThLa~aia~~l  141 (266)
T PRK06921        117 KNSIALLGQPGSGKTHLLTAAANEL  141 (266)
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHHH
Confidence            4578999999999999999987753

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

Probab=96.78  E-value=0.0013  Score=61.56  Aligned_cols=94  Identities=22%  Similarity=0.218  Sum_probs=58.3

Q ss_pred             eecchhhHHHHHHHHhcCCCC-------CCCCcEEEEEeeeCCCcHHHHHHHHhcCChHHHHHHHHHHhcCCCCCCCCHH
Q 038234           77 ICGRDYKKNELLSKLLSDSSD-------QQKPIKMISIVGMGGIGKITLAQMAYNDKDFRVAKAIIAALGCETSNLGSLQ  149 (406)
Q Consensus        77 ~vGR~~~~~~l~~~L~~~~~~-------~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~~~i~~~l~~~~~~~~~~~  149 (406)
                      +=|-++.+++|.+.+.-.-..       +-++++-|.++|++|.|||-||++|+++....|.+-....+-....  .+-.
T Consensus       153 IGGL~~Qi~EirE~VELPL~~PElF~~~GI~PPKGVLLYGPPGTGKTLLAkAVA~~T~AtFIrvvgSElVqKYi--GEGa  230 (406)
T COG1222         153 IGGLDEQIQEIREVVELPLKNPELFEELGIDPPKGVLLYGPPGTGKTLLAKAVANQTDATFIRVVGSELVQKYI--GEGA  230 (406)
T ss_pred             ccCHHHHHHHHHHHhcccccCHHHHHHcCCCCCCceEeeCCCCCcHHHHHHHHHhccCceEEEeccHHHHHHHh--ccch
Confidence            447888888887776432211       2466788999999999999999999999775332221111111000  1112


Q ss_pred             HHHHHHHhhcc-CcceeEEeeCCC
Q 038234          150 SLVRCISESIE-GKKYLVVLDDVW  172 (406)
Q Consensus       150 ~~~~~l~~~l~-~kr~LlVlDdvw  172 (406)
                      .+++.+.+.-+ ..++.|++|.+.
T Consensus       231 RlVRelF~lArekaPsIIFiDEID  254 (406)
T COG1222         231 RLVRELFELAREKAPSIIFIDEID  254 (406)
T ss_pred             HHHHHHHHHHhhcCCeEEEEechh
Confidence            34555554443 568899999884

>TIGR00767 rho transcription termination factor Rho

Probab=96.78  E-value=0.0025  Score=61.37  Aligned_cols=24  Identities=25%  Similarity=0.022  Sum_probs=21.5

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ...++|+|++|+|||||++.+++.
T Consensus       168 Gq~~~IvG~~g~GKTtL~~~i~~~  191 (415)
T TIGR00767       168 GQRGLIVAPPKAGKTVLLQKIAQA  191 (415)
T ss_pred             CCEEEEECCCCCChhHHHHHHHHh
Confidence            456899999999999999999886

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

>COG1223 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=96.73  E-value=0.007  Score=54.30  Aligned_cols=152  Identities=13%  Similarity=0.138  Sum_probs=86.0

Q ss_pred             CceecchhhHHH---HHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChHHH-----HHHHHHHhcCCCCCCC
Q 038234           75 SEICGRDYKKNE---LLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDFRV-----AKAIIAALGCETSNLG  146 (406)
Q Consensus        75 ~~~vGR~~~~~~---l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~-----~~~i~~~l~~~~~~~~  146 (406)
                      ++++|.++...+   |++.|.....=++-.++-|..+|++|.|||-+|+++++..++-+     ..-|-+.++      +
T Consensus       121 ddViGqEeAK~kcrli~~yLenPe~Fg~WAPknVLFyGppGTGKTm~Akalane~kvp~l~vkat~liGehVG------d  194 (368)
T COG1223         121 DDVIGQEEAKRKCRLIMEYLENPERFGDWAPKNVLFYGPPGTGKTMMAKALANEAKVPLLLVKATELIGEHVG------D  194 (368)
T ss_pred             hhhhchHHHHHHHHHHHHHhhChHHhcccCcceeEEECCCCccHHHHHHHHhcccCCceEEechHHHHHHHhh------h
Confidence            467887765443   55666543322345578899999999999999999999887622     222222222      1


Q ss_pred             CHHHHHHHHHhhccCcceeEEeeCCCCcC------------ccCcchhhhccC--CCCCCcEEEEecCChHHHHHh-cc-
Q 038234          147 SLQSLVRCISESIEGKKYLVVLDDVWTDD------------YTKWEPFQRCSA--NGQCGNNILVTTHKKTVARMM-ES-  210 (406)
Q Consensus       147 ~~~~~~~~l~~~l~~kr~LlVlDdvw~~~------------~~~~~~l~~~l~--~~~~gs~IivTtR~~~v~~~~-~~-  210 (406)
                      ....+-....+.-+.-+|.+.||.+.---            .+..+.+..-+.  +.+.|-..|-.|-+..+.... .. 
T Consensus       195 gar~Ihely~rA~~~aPcivFiDE~DAiaLdRryQelRGDVsEiVNALLTelDgi~eneGVvtIaaTN~p~~LD~aiRsR  274 (368)
T COG1223         195 GARRIHELYERARKAAPCIVFIDELDAIALDRRYQELRGDVSEIVNALLTELDGIKENEGVVTIAATNRPELLDPAIRSR  274 (368)
T ss_pred             HHHHHHHHHHHHHhcCCeEEEehhhhhhhhhhhHHHhcccHHHHHHHHHHhccCcccCCceEEEeecCChhhcCHHHHhh
Confidence            11222222333334568999999763210            011122333332  234466666666665554321 11 


Q ss_pred             -CCccccCCCChHHHHHhhhhhc
Q 038234          211 -TNFISIKELSTQECWSLFKQES  232 (406)
Q Consensus       211 -~~~~~l~~L~~~~a~~Lf~~~~  232 (406)
                       ..-++...-+.+|-..++...+
T Consensus       275 FEeEIEF~LP~~eEr~~ile~y~  297 (368)
T COG1223         275 FEEEIEFKLPNDEERLEILEYYA  297 (368)
T ss_pred             hhheeeeeCCChHHHHHHHHHHH
Confidence             4566777777788877777654

>CHL00195 ycf46 Ycf46; Provisional

Probab=96.73  E-value=0.0021  Score=64.27  Aligned_cols=131  Identities=14%  Similarity=0.087  Sum_probs=68.8

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhcCChHHHHHHHHHHhcCCCCCCCCHHHHHHHHHhhccCcceeEEeeCCCCcCc--c
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYNDKDFRVAKAIIAALGCETSNLGSLQSLVRCISESIEGKKYLVVLDDVWTDDY--T  177 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdvw~~~~--~  177 (406)
                      ...+-|.++|++|+|||.+|+++++.....+..--...+...... .+...+.+.+...-...+++|++|++..--.  .
T Consensus       257 ~~pkGILL~GPpGTGKTllAkaiA~e~~~~~~~l~~~~l~~~~vG-ese~~l~~~f~~A~~~~P~IL~IDEID~~~~~~~  335 (489)
T CHL00195        257 PTPRGLLLVGIQGTGKSLTAKAIANDWQLPLLRLDVGKLFGGIVG-ESESRMRQMIRIAEALSPCILWIDEIDKAFSNSE  335 (489)
T ss_pred             CCCceEEEECCCCCcHHHHHHHHHHHhCCCEEEEEhHHhcccccC-hHHHHHHHHHHHHHhcCCcEEEehhhhhhhcccc
Confidence            346778999999999999999998875431110000011111000 1222333333333345789999999842100  0


Q ss_pred             C-----c-----chhhhccCCCCCCcEEEEecCChHH-HHHh----ccCCccccCCCChHHHHHhhhhh
Q 038234          178 K-----W-----EPFQRCSANGQCGNNILVTTHKKTV-ARMM----ESTNFISIKELSTQECWSLFKQE  231 (406)
Q Consensus       178 ~-----~-----~~l~~~l~~~~~gs~IivTtR~~~v-~~~~----~~~~~~~l~~L~~~~a~~Lf~~~  231 (406)
                      .     .     ..+...+.....+--||.||.+... -..+    .-...+.++.-+.++-.++|...
T Consensus       336 ~~~d~~~~~rvl~~lL~~l~~~~~~V~vIaTTN~~~~Ld~allR~GRFD~~i~v~lP~~~eR~~Il~~~  404 (489)
T CHL00195        336 SKGDSGTTNRVLATFITWLSEKKSPVFVVATANNIDLLPLEILRKGRFDEIFFLDLPSLEEREKIFKIH  404 (489)
T ss_pred             CCCCchHHHHHHHHHHHHHhcCCCceEEEEecCChhhCCHHHhCCCcCCeEEEeCCcCHHHHHHHHHHH
Confidence            0     0     1112222222334445567665432 1111    12567788888888888887754

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=96.72  E-value=0.0027  Score=67.42  Aligned_cols=156  Identities=13%  Similarity=0.116  Sum_probs=81.9

Q ss_pred             CceecchhhHHHHHHHHhcCCCC-------CCCCcEEEEEeeeCCCcHHHHHHHHhcCChHHHHHHHHHHhcCCCCCCCC
Q 038234           75 SEICGRDYKKNELLSKLLSDSSD-------QQKPIKMISIVGMGGIGKITLAQMAYNDKDFRVAKAIIAALGCETSNLGS  147 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~-------~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~~~i~~~l~~~~~~~~~  147 (406)
                      .++.|.+...+.|.+.+.-....       +-...+-+.++|++|+|||+||+++++.....+..--...+.... -..+
T Consensus       453 ~di~g~~~~k~~l~~~v~~~~~~~~~~~~~g~~~~~giLL~GppGtGKT~lakalA~e~~~~fi~v~~~~l~~~~-vGes  531 (733)
T TIGR01243       453 SDIGGLEEVKQELREAVEWPLKHPEIFEKMGIRPPKGVLLFGPPGTGKTLLAKAVATESGANFIAVRGPEILSKW-VGES  531 (733)
T ss_pred             hhcccHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhcCCCEEEEehHHHhhcc-cCcH
Confidence            35678777777776655311000       123355688999999999999999998754321100000000000 0112


Q ss_pred             HHHHHHHHHhhccCcceeEEeeCCCCcC------ccC------cchhhhccCC--CCCCcEEEEecCChHHHHH-h----
Q 038234          148 LQSLVRCISESIEGKKYLVVLDDVWTDD------YTK------WEPFQRCSAN--GQCGNNILVTTHKKTVARM-M----  208 (406)
Q Consensus       148 ~~~~~~~l~~~l~~kr~LlVlDdvw~~~------~~~------~~~l~~~l~~--~~~gs~IivTtR~~~v~~~-~----  208 (406)
                      ...+...+...-...+.+|+||++..--      ...      ...+...+..  ...+.-||.||...+.... +    
T Consensus       532 e~~i~~~f~~A~~~~p~iifiDEid~l~~~r~~~~~~~~~~~~~~~lL~~ldg~~~~~~v~vI~aTn~~~~ld~allRpg  611 (733)
T TIGR01243       532 EKAIREIFRKARQAAPAIIFFDEIDAIAPARGARFDTSVTDRIVNQLLTEMDGIQELSNVVVIAATNRPDILDPALLRPG  611 (733)
T ss_pred             HHHHHHHHHHHHhcCCEEEEEEChhhhhccCCCCCCccHHHHHHHHHHHHhhcccCCCCEEEEEeCCChhhCCHhhcCCC
Confidence            2233333444445678999999984310      000      1122222332  1234455666655443221 1    


Q ss_pred             ccCCccccCCCChHHHHHhhhhh
Q 038234          209 ESTNFISIKELSTQECWSLFKQE  231 (406)
Q Consensus       209 ~~~~~~~l~~L~~~~a~~Lf~~~  231 (406)
                      .-...+.+...+.++-.++|+..
T Consensus       612 Rfd~~i~v~~Pd~~~R~~i~~~~  634 (733)
T TIGR01243       612 RFDRLILVPPPDEEARKEIFKIH  634 (733)
T ss_pred             ccceEEEeCCcCHHHHHHHHHHH
Confidence            12567788888888888887643

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.

>PRK15455 PrkA family serine protein kinase; Provisional

Probab=96.71  E-value=0.0011  Score=66.54  Aligned_cols=50  Identities=18%  Similarity=0.236  Sum_probs=39.3

Q ss_pred             ceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234           76 EICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus        76 ~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      +++|.++.++++++.|..........-+++.++|++|+|||+||+.+.+-
T Consensus        77 d~yGlee~ieriv~~l~~Aa~gl~~~~~IL~LvGPpG~GKSsLa~~la~~  126 (644)
T PRK15455         77 EFYGMEEAIEQIVSYFRHAAQGLEEKKQILYLLGPVGGGKSSLAERLKSL  126 (644)
T ss_pred             cccCcHHHHHHHHHHHHHHHHhcCCCCceEEEecCCCCCchHHHHHHHHH
Confidence            57899999999999884322111345679999999999999999887653

>PRK06964 DNA polymerase III subunit delta'; Validated

Probab=96.71  E-value=0.011  Score=56.31  Aligned_cols=71  Identities=8%  Similarity=0.086  Sum_probs=53.1

Q ss_pred             CcceeEEeeCCCCcCccCcchhhhccCCCCCCcEEEEecCC-hHHHHH-hccCCccccCCCChHHHHHhhhhh
Q 038234          161 GKKYLVVLDDVWTDDYTKWEPFQRCSANGQCGNNILVTTHK-KTVARM-MESTNFISIKELSTQECWSLFKQE  231 (406)
Q Consensus       161 ~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTtR~-~~v~~~-~~~~~~~~l~~L~~~~a~~Lf~~~  231 (406)
                      +++-++|+|++...+....+.+...+-.-.+++.+|++|.+ ..+... .+....+.+.+++.++..+.+...
T Consensus       131 ~~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~LLpTI~SRcq~i~~~~~~~~~~~~~L~~~  203 (342)
T PRK06964        131 GGARVVVLYPAEALNVAAANALLKTLEEPPPGTVFLLVSARIDRLLPTILSRCRQFPMTVPAPEAAAAWLAAQ  203 (342)
T ss_pred             CCceEEEEechhhcCHHHHHHHHHHhcCCCcCcEEEEEECChhhCcHHHHhcCEEEEecCCCHHHHHHHHHHc
Confidence            55668899999888888888888888766667766665555 444433 334678899999999998888764

>PRK06835 DNA replication protein DnaC; Validated

Probab=96.71  E-value=0.0015  Score=62.12  Aligned_cols=24  Identities=21%  Similarity=0.268  Sum_probs=21.1

Q ss_pred             EEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          103 KMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       103 ~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      ..+.++|.+|+|||+||.++++..
T Consensus       184 ~~Lll~G~~GtGKThLa~aIa~~l  207 (329)
T PRK06835        184 ENLLFYGNTGTGKTFLSNCIAKEL  207 (329)
T ss_pred             CcEEEECCCCCcHHHHHHHHHHHH
Confidence            569999999999999999887753

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=96.68  E-value=0.0012  Score=70.10  Aligned_cols=155  Identities=15%  Similarity=0.086  Sum_probs=79.7

Q ss_pred             CceecchhhHHHHHHHHhcCCC-------CCCCCcEEEEEeeeCCCcHHHHHHHHhcCChHHHHHHHHHHhcCCCCCCCC
Q 038234           75 SEICGRDYKKNELLSKLLSDSS-------DQQKPIKMISIVGMGGIGKITLAQMAYNDKDFRVAKAIIAALGCETSNLGS  147 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~-------~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~~~i~~~l~~~~~~~~~  147 (406)
                      .++.|.+..++++.+.+...-.       -+-...+.+.++|++|+|||+||+.+++.....+..--...+.... ....
T Consensus       178 ~di~G~~~~~~~l~~~i~~~~~~~~~~~~~gi~~~~giLL~GppGtGKT~laraia~~~~~~~i~i~~~~i~~~~-~g~~  256 (733)
T TIGR01243       178 EDIGGLKEAKEKIREMVELPMKHPELFEHLGIEPPKGVLLYGPPGTGKTLLAKAVANEAGAYFISINGPEIMSKY-YGES  256 (733)
T ss_pred             HHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCceEEEECCCCCChHHHHHHHHHHhCCeEEEEecHHHhccc-ccHH
Confidence            3577999988888777642100       0123456788999999999999999987643211000000000000 0011


Q ss_pred             HHHHHHHHHhhccCcceeEEeeCCCCcCc------c-----CcchhhhccCCC-CCCcEEEE-ecCChH-HHHHhc----
Q 038234          148 LQSLVRCISESIEGKKYLVVLDDVWTDDY------T-----KWEPFQRCSANG-QCGNNILV-TTHKKT-VARMME----  209 (406)
Q Consensus       148 ~~~~~~~l~~~l~~kr~LlVlDdvw~~~~------~-----~~~~l~~~l~~~-~~gs~Iiv-TtR~~~-v~~~~~----  209 (406)
                      ...+...+.....+.+.+|+||++.....      .     ....+...+... ..+..+++ ||.... +-..+.    
T Consensus       257 ~~~l~~lf~~a~~~~p~il~iDEid~l~~~r~~~~~~~~~~~~~~Ll~~ld~l~~~~~vivI~atn~~~~ld~al~r~gR  336 (733)
T TIGR01243       257 EERLREIFKEAEENAPSIIFIDEIDAIAPKREEVTGEVEKRVVAQLLTLMDGLKGRGRVIVIGATNRPDALDPALRRPGR  336 (733)
T ss_pred             HHHHHHHHHHHHhcCCcEEEeehhhhhcccccCCcchHHHHHHHHHHHHhhccccCCCEEEEeecCChhhcCHHHhCchh
Confidence            23344444444556778999999843110      0     011233333221 22334444 444332 111111    


Q ss_pred             cCCccccCCCChHHHHHhhhh
Q 038234          210 STNFISIKELSTQECWSLFKQ  230 (406)
Q Consensus       210 ~~~~~~l~~L~~~~a~~Lf~~  230 (406)
                      -...+.+...+.++-.+++..
T Consensus       337 fd~~i~i~~P~~~~R~~Il~~  357 (733)
T TIGR01243       337 FDREIVIRVPDKRARKEILKV  357 (733)
T ss_pred             ccEEEEeCCcCHHHHHHHHHH
Confidence            134567777788877777663

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.

>PHA02244 ATPase-like protein

Probab=96.66  E-value=0.0054  Score=58.50  Aligned_cols=23  Identities=22%  Similarity=0.226  Sum_probs=19.8

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcCC
Q 038234          104 MISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      -|.|+|++|+|||+||++++...
T Consensus       121 PVLL~GppGtGKTtLA~aLA~~l  143 (383)
T PHA02244        121 PVFLKGGAGSGKNHIAEQIAEAL  143 (383)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh
Confidence            36789999999999999988654

>COG0572 Udk Uridine kinase [Nucleotide transport and metabolism]

Probab=96.66  E-value=0.0017  Score=57.20  Aligned_cols=64  Identities=20%  Similarity=0.235  Sum_probs=41.7

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhcCChHH---------HHHHHH-----HHh--cCCCCCCCCHHHHHHHHHhhccCcc
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYNDKDFR---------VAKAII-----AAL--GCETSNLGSLQSLVRCISESIEGKK  163 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~---------~~~~i~-----~~l--~~~~~~~~~~~~~~~~l~~~l~~kr  163 (406)
                      +.+.+|+|.|.+|.||||+|+.++......         +.+..-     ...  ....+...+.+-+.+.|..++.|++
T Consensus         6 ~~~iiIgIaG~SgSGKTTva~~l~~~~~~~~~~~I~~D~YYk~~~~~~~~~~~~~n~d~p~A~D~dLl~~~L~~L~~g~~   85 (218)
T COG0572           6 EKVIIIGIAGGSGSGKTTVAKELSEQLGVEKVVVISLDDYYKDQSHLPFEERNKINYDHPEAFDLDLLIEHLKDLKQGKP   85 (218)
T ss_pred             CceEEEEEeCCCCCCHHHHHHHHHHHhCcCcceEeeccccccchhhcCHhhcCCcCccChhhhcHHHHHHHHHHHHcCCc
Confidence            446899999999999999999998876531         111100     000  1112234566777788888888877

>PRK07667 uridine kinase; Provisional

Probab=96.66  E-value=0.0025  Score=55.93  Aligned_cols=38  Identities=21%  Similarity=0.312  Sum_probs=29.0

Q ss_pred             HHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234           84 KNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus        84 ~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ++.+.+.+...    .+...+|+|.|.+|+||||+|..+...
T Consensus         3 ~~~~~~~~~~~----~~~~~iIgI~G~~gsGKStla~~L~~~   40 (193)
T PRK07667          3 TNELINIMKKH----KENRFILGIDGLSRSGKTTFVANLKEN   40 (193)
T ss_pred             HHHHHHHHHhc----CCCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            45666666544    344589999999999999999887654

>PRK06090 DNA polymerase III subunit delta'; Validated

Probab=96.60  E-value=0.022  Score=53.86  Aligned_cols=143  Identities=8%  Similarity=0.015  Sum_probs=87.1

Q ss_pred             hHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCCh-----H------HHHHHHHHHhcCCC----C----
Q 038234           83 KKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKD-----F------RVAKAIIAALGCET----S----  143 (406)
Q Consensus        83 ~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~-----~------~~~~~i~~~l~~~~----~----  143 (406)
                      ..+++.+.+..     +.-.+.+.++|+.|+||+++|..+.+..-     .      ..-+.+.....++.    +    
T Consensus        11 ~~~~l~~~~~~-----~rl~hA~L~~G~~G~Gk~~lA~~~a~~llC~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~p~~~~   85 (319)
T PRK06090         11 VWQNWKAGLDA-----GRIPGALLLQSDEGLGVESLVELFSRALLCQNYQSEACGFCHSCELMQSGNHPDLHVIKPEKEG   85 (319)
T ss_pred             HHHHHHHHHHc-----CCcceeEeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCHHHHHHHcCCCCCEEEEecCcCC
Confidence            34555555543     23466889999999999999987754211     0      11111111111110    0    


Q ss_pred             CCCCHHHHHHHHHhhc-----cCcceeEEeeCCCCcCccCcchhhhccCCCCCCcEEEEecCCh-HHHHHh-ccCCcccc
Q 038234          144 NLGSLQSLVRCISESI-----EGKKYLVVLDDVWTDDYTKWEPFQRCSANGQCGNNILVTTHKK-TVARMM-ESTNFISI  216 (406)
Q Consensus       144 ~~~~~~~~~~~l~~~l-----~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTtR~~-~v~~~~-~~~~~~~l  216 (406)
                      .....+++.. +.+.+     .+++-++|+|++...+....+.+...+-.-..++.+|++|.+. .+...+ +....+.+
T Consensus        86 ~~I~vdqiR~-l~~~~~~~~~~~~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~lLpTI~SRCq~~~~  164 (319)
T PRK06090         86 KSITVEQIRQ-CNRLAQESSQLNGYRLFVIEPADAMNESASNALLKTLEEPAPNCLFLLVTHNQKRLLPTIVSRCQQWVV  164 (319)
T ss_pred             CcCCHHHHHH-HHHHHhhCcccCCceEEEecchhhhCHHHHHHHHHHhcCCCCCeEEEEEECChhhChHHHHhcceeEeC
Confidence            1122333332 22222     3455689999998877778888888887666677777766654 444443 44778899


Q ss_pred             CCCChHHHHHhhhhh
Q 038234          217 KELSTQECWSLFKQE  231 (406)
Q Consensus       217 ~~L~~~~a~~Lf~~~  231 (406)
                      .+++.+++.+.+...
T Consensus       165 ~~~~~~~~~~~L~~~  179 (319)
T PRK06090        165 TPPSTAQAMQWLKGQ  179 (319)
T ss_pred             CCCCHHHHHHHHHHc
Confidence            999999998888764

>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=96.59  E-value=0.0073  Score=58.12  Aligned_cols=24  Identities=25%  Similarity=0.396  Sum_probs=20.6

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHhc
Q 038234          101 PIKMISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      ..++|+++|.+|+||||++..++.
T Consensus       240 ~~~vI~LVGptGvGKTTTiaKLA~  263 (436)
T PRK11889        240 EVQTIALIGPTGVGKTTTLAKMAW  263 (436)
T ss_pred             CCcEEEEECCCCCcHHHHHHHHHH
Confidence            357999999999999999877754

>PRK07261 topology modulation protein; Provisional

Probab=96.57  E-value=0.0015  Score=56.20  Aligned_cols=64  Identities=20%  Similarity=0.222  Sum_probs=37.8

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcCChHHH-HHHHHHHhcCCCCCCCCHHHHHHHHHhhccCcceeEEeeCC
Q 038234          104 MISIVGMGGIGKITLAQMAYNDKDFRV-AKAIIAALGCETSNLGSLQSLVRCISESIEGKKYLVVLDDV  171 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~~~~~~-~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv  171 (406)
                      .|.|+|++|+||||||+.+........ ..+.+. .. ......+.++....+...+.+.+  .|+|+.
T Consensus         2 ri~i~G~~GsGKSTla~~l~~~~~~~~i~~D~~~-~~-~~~~~~~~~~~~~~~~~~~~~~~--wIidg~   66 (171)
T PRK07261          2 KIAIIGYSGSGKSTLARKLSQHYNCPVLHLDTLH-FQ-PNWQERDDDDMIADISNFLLKHD--WIIDGN   66 (171)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHhCCCeEecCCEE-ec-cccccCCHHHHHHHHHHHHhCCC--EEEcCc
Confidence            589999999999999998876532210 000000 00 01112334566667777777666  577876

>COG1136 SalX ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]

Probab=96.55  E-value=0.0099  Score=52.92  Aligned_cols=57  Identities=14%  Similarity=0.240  Sum_probs=35.4

Q ss_pred             HHHHhhccCcceeEEeeCCCCc-CccCcchhhhccCC--CCCCcEEEEecCChHHHHHhc
Q 038234          153 RCISESIEGKKYLVVLDDVWTD-DYTKWEPFQRCSAN--GQCGNNILVTTHKKTVARMME  209 (406)
Q Consensus       153 ~~l~~~l~~kr~LlVlDdvw~~-~~~~~~~l~~~l~~--~~~gs~IivTtR~~~v~~~~~  209 (406)
                      -.+.+.|-.++-+|+-|+---. |...-+.+...+..  ...|..||+.|.+..+|..+.
T Consensus       151 VAIARAL~~~P~iilADEPTgnLD~~t~~~V~~ll~~~~~~~g~tii~VTHd~~lA~~~d  210 (226)
T COG1136         151 VAIARALINNPKIILADEPTGNLDSKTAKEVLELLRELNKERGKTIIMVTHDPELAKYAD  210 (226)
T ss_pred             HHHHHHHhcCCCeEEeeCccccCChHHHHHHHHHHHHHHHhcCCEEEEEcCCHHHHHhCC
Confidence            3567777888899999965211 11111223333322  234778999999999998753

>PF03969 AFG1_ATPase: AFG1-like ATPase; InterPro: IPR005654 ATPase family gene 1 (AFG1) ATPase is a 377 amino acid putative protein with an ATPase motif typical of the protein family including SEC18p PAS1, CDC48-VCP and TBP

Probab=96.51  E-value=0.0056  Score=58.93  Aligned_cols=101  Identities=18%  Similarity=0.211  Sum_probs=60.6

Q ss_pred             CCCcEEEEEeeeCCCcHHHHHHHHhcCChH---------HHHHHHHHHhcCCCCCCCCHHHHHHHHHhhccCcceeEEee
Q 038234           99 QKPIKMISIVGMGGIGKITLAQMAYNDKDF---------RVAKAIIAALGCETSNLGSLQSLVRCISESIEGKKYLVVLD  169 (406)
Q Consensus        99 ~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~---------~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlD  169 (406)
                      ...++-+-|||..|.|||.|.-.+|+....         .+..++-..+..-.........+    .+.+.++..||.||
T Consensus        59 ~~~~~GlYl~G~vG~GKT~Lmd~f~~~lp~~~k~R~HFh~Fm~~vh~~l~~~~~~~~~l~~v----a~~l~~~~~lLcfD  134 (362)
T PF03969_consen   59 PPPPKGLYLWGPVGRGKTMLMDLFYDSLPIKRKRRVHFHEFMLDVHSRLHQLRGQDDPLPQV----ADELAKESRLLCFD  134 (362)
T ss_pred             CCCCceEEEECCCCCchhHHHHHHHHhCCccccccccccHHHHHHHHHHHHHhCCCccHHHH----HHHHHhcCCEEEEe
Confidence            345778999999999999999999987654         44444444444333223333333    34445677799999


Q ss_pred             CCCCcCccCcchhhhccCC-CCCCcEEEEecCChHH
Q 038234          170 DVWTDDYTKWEPFQRCSAN-GQCGNNILVTTHKKTV  204 (406)
Q Consensus       170 dvw~~~~~~~~~l~~~l~~-~~~gs~IivTtR~~~v  204 (406)
                      ...-.|..+--.+...+.. ...| .|||+|.|...
T Consensus       135 EF~V~DiaDAmil~rLf~~l~~~g-vvlVaTSN~~P  169 (362)
T PF03969_consen  135 EFQVTDIADAMILKRLFEALFKRG-VVLVATSNRPP  169 (362)
T ss_pred             eeeccchhHHHHHHHHHHHHHHCC-CEEEecCCCCh
Confidence            8855543332223333332 2334 46666666443

AFG1 also has substantial homology to these proteins outside the ATPase domain []. This family of proteins contains a P-loop motif.; GO: 0005524 ATP binding

>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=96.50  E-value=0.0065  Score=53.36  Aligned_cols=70  Identities=20%  Similarity=0.220  Sum_probs=39.3

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCChH------------------HHHHHHHHHhcCCCC---CCCCHHHHH-HHHHhhc
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDKDF------------------RVAKAIIAALGCETS---NLGSLQSLV-RCISESI  159 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~~~------------------~~~~~i~~~l~~~~~---~~~~~~~~~-~~l~~~l  159 (406)
                      ++++.++|+.|+||||.+.+++.....                  +.++.+.+.++-...   ...+..++. +.+.+.-
T Consensus         1 p~vi~lvGptGvGKTTt~aKLAa~~~~~~~~v~lis~D~~R~ga~eQL~~~a~~l~vp~~~~~~~~~~~~~~~~~l~~~~   80 (196)
T PF00448_consen    1 PKVIALVGPTGVGKTTTIAKLAARLKLKGKKVALISADTYRIGAVEQLKTYAEILGVPFYVARTESDPAEIAREALEKFR   80 (196)
T ss_dssp             SEEEEEEESTTSSHHHHHHHHHHHHHHTT--EEEEEESTSSTHHHHHHHHHHHHHTEEEEESSTTSCHHHHHHHHHHHHH
T ss_pred             CEEEEEECCCCCchHhHHHHHHHHHhhccccceeecCCCCCccHHHHHHHHHHHhccccchhhcchhhHHHHHHHHHHHh
Confidence            468999999999999977555443221                  556666777664421   122333333 3333332


Q ss_pred             cCcceeEEeeCC
Q 038234          160 EGKKYLVVLDDV  171 (406)
Q Consensus       160 ~~kr~LlVlDdv  171 (406)
                      ..+.=++++|=.
T Consensus        81 ~~~~D~vlIDT~   92 (196)
T PF00448_consen   81 KKGYDLVLIDTA   92 (196)
T ss_dssp             HTTSSEEEEEE-
T ss_pred             hcCCCEEEEecC
Confidence            223347777754

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 ....

>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN

Probab=96.49  E-value=0.0067  Score=55.94  Aligned_cols=22  Identities=32%  Similarity=0.403  Sum_probs=19.2

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcC
Q 038234          104 MISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      -|.+.|.+|+|||+||+.+++.
T Consensus        23 ~vLL~G~~GtGKT~lA~~la~~   44 (262)
T TIGR02640        23 PVHLRGPAGTGKTTLAMHVARK   44 (262)
T ss_pred             eEEEEcCCCCCHHHHHHHHHHH
Confidence            4668999999999999999863

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).

>PRK08699 DNA polymerase III subunit delta'; Validated

Probab=96.48  E-value=0.0082  Score=57.06  Aligned_cols=131  Identities=11%  Similarity=0.120  Sum_probs=73.8

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhcCChH-------------HHHHHHHHHhcCC----CC-----------CCCCHHHH
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYNDKDF-------------RVAKAIIAALGCE----TS-----------NLGSLQSL  151 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~-------------~~~~~i~~~l~~~----~~-----------~~~~~~~~  151 (406)
                      .-.+.+.++|+.|+|||++|..+.+..-.             ..-+.+......+    .+           .....+++
T Consensus        19 r~~hA~Lf~G~~G~GK~~la~~~a~~llC~~~~~~~~~Cg~C~~C~~~~~~~HpD~~~~~p~~~~~~~g~~~~~I~id~i   98 (325)
T PRK08699         19 RRPNAWLFAGKKGIGKTAFARFAAQALLCETPAPGHKPCGECMSCHLFGQGSHPDFYEITPLSDEPENGRKLLQIKIDAV   98 (325)
T ss_pred             CcceEEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCcCHHHHHHhcCCCCCEEEEecccccccccccCCCcCHHHH
Confidence            34667889999999999999877653210             1111111100000    00           00123333


Q ss_pred             HHHHHhhc-----cCcceeEEeeCCCCcCccCcchhhhccCCCCCCcEEEEecCCh-HHHHHh-ccCCccccCCCChHHH
Q 038234          152 VRCISESI-----EGKKYLVVLDDVWTDDYTKWEPFQRCSANGQCGNNILVTTHKK-TVARMM-ESTNFISIKELSTQEC  224 (406)
Q Consensus       152 ~~~l~~~l-----~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTtR~~-~v~~~~-~~~~~~~l~~L~~~~a  224 (406)
                      .. +.+.+     .+++-++|+|++...+...-+.+...+.....++.+|++|.+. .+...+ .....+.+.+++.+++
T Consensus        99 R~-l~~~~~~~p~~~~~kV~iiEp~~~Ld~~a~naLLk~LEep~~~~~~Ilvth~~~~ll~ti~SRc~~~~~~~~~~~~~  177 (325)
T PRK08699         99 RE-IIDNVYLTSVRGGLRVILIHPAESMNLQAANSLLKVLEEPPPQVVFLLVSHAADKVLPTIKSRCRKMVLPAPSHEEA  177 (325)
T ss_pred             HH-HHHHHhhCcccCCceEEEEechhhCCHHHHHHHHHHHHhCcCCCEEEEEeCChHhChHHHHHHhhhhcCCCCCHHHH
Confidence            33 22222     2444456678886666555556666665444456677777764 344333 3367889999999998


Q ss_pred             HHhhhhh
Q 038234          225 WSLFKQE  231 (406)
Q Consensus       225 ~~Lf~~~  231 (406)
                      .+.+.+.
T Consensus       178 ~~~L~~~  184 (325)
T PRK08699        178 LAYLRER  184 (325)
T ss_pred             HHHHHhc
Confidence            8877654

>PRK07993 DNA polymerase III subunit delta'; Validated

Probab=96.48  E-value=0.0053  Score=58.56  Aligned_cols=144  Identities=9%  Similarity=0.034  Sum_probs=87.0

Q ss_pred             hHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChH------------HHHHHHHHHhcCCC----C---
Q 038234           83 KKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDF------------RVAKAIIAALGCET----S---  143 (406)
Q Consensus        83 ~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~------------~~~~~i~~~l~~~~----~---  143 (406)
                      .-+++.+.+..     +.-.+.+.+.|+.|+||+++|..++...--            .--+.+.....++.    +   
T Consensus        10 ~~~~l~~~~~~-----~rl~HA~Lf~G~~G~Gk~~lA~~~A~~LlC~~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~p~~~   84 (334)
T PRK07993         10 DYEQLVGSYQA-----GRGHHALLIQALPGMGDDALIYALSRWLMCQQPQGHKSCGHCRGCQLMQAGTHPDYYTLTPEKG   84 (334)
T ss_pred             HHHHHHHHHHc-----CCcceEEeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHHcCCCCCEEEEecccc
Confidence            34556666654     244678889999999999999876543210            11111111111100    0   


Q ss_pred             -CCCCHHHHHHHHHh----hccCcceeEEeeCCCCcCccCcchhhhccCCCCCCcEEEEecCC-hHHHHHh-ccCCcccc
Q 038234          144 -NLGSLQSLVRCISE----SIEGKKYLVVLDDVWTDDYTKWEPFQRCSANGQCGNNILVTTHK-KTVARMM-ESTNFISI  216 (406)
Q Consensus       144 -~~~~~~~~~~~l~~----~l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTtR~-~~v~~~~-~~~~~~~l  216 (406)
                       ..-..+++......    -..+++-++|+|++...+...-+.+...+-.-..++.+|++|.+ ..+...+ +....+.+
T Consensus        85 ~~~I~idqiR~l~~~~~~~~~~g~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~lLpTIrSRCq~~~~  164 (334)
T PRK07993         85 KSSLGVDAVREVTEKLYEHARLGGAKVVWLPDAALLTDAAANALLKTLEEPPENTWFFLACREPARLLATLRSRCRLHYL  164 (334)
T ss_pred             cccCCHHHHHHHHHHHhhccccCCceEEEEcchHhhCHHHHHHHHHHhcCCCCCeEEEEEECChhhChHHHHhccccccC
Confidence             11223333332221    12467779999999877777777888888666667777777765 4455443 44677899


Q ss_pred             CCCChHHHHHhhhhh
Q 038234          217 KELSTQECWSLFKQE  231 (406)
Q Consensus       217 ~~L~~~~a~~Lf~~~  231 (406)
                      .+++.+++...+.+.
T Consensus       165 ~~~~~~~~~~~L~~~  179 (334)
T PRK07993        165 APPPEQYALTWLSRE  179 (334)
T ss_pred             CCCCHHHHHHHHHHc
Confidence            999999988877553

>PRK05541 adenylylsulfate kinase; Provisional

Probab=96.48  E-value=0.0028  Score=54.60  Aligned_cols=27  Identities=33%  Similarity=0.442  Sum_probs=23.0

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      .+..+|.+.|++|+||||+|+.+++..
T Consensus         5 ~~~~~I~i~G~~GsGKst~a~~l~~~l   31 (176)
T PRK05541          5 PNGYVIWITGLAGSGKTTIAKALYERL   31 (176)
T ss_pred             CCCCEEEEEcCCCCCHHHHHHHHHHHH
Confidence            346699999999999999999987654

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

Probab=96.48  E-value=0.0078  Score=57.18  Aligned_cols=141  Identities=18%  Similarity=0.165  Sum_probs=79.3

Q ss_pred             eecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChHH------------HHHHHHHHhcCC---
Q 038234           77 ICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDFR------------VAKAIIAALGCE---  141 (406)
Q Consensus        77 ~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~------------~~~~i~~~l~~~---  141 (406)
                      ++|-+....++..+.....    ...+.+.++|++|+||||+|..+.+.....            ....+...-..+   
T Consensus         3 ~~~~~~~~~~l~~~~~~~~----~~~halL~~Gp~G~Gktt~a~~lA~~l~~~~~~~~~~~~~~~~~~~~~~~~~~d~le   78 (325)
T COG0470           3 LVPWQEAVKRLLVQALESG----RLPHALLFYGPPGVGKTTAALALAKELLCENPTGLLPCGHCRSCKLIPAGNHPDFLE   78 (325)
T ss_pred             cccchhHHHHHHHHHHhcC----CCCceeeeeCCCCCCHHHHHHHHHHHHhCCCcccCCcccchhhhhHHhhcCCCceEE
Confidence            5677778888888887532    223469999999999999998887653210            000000000000   


Q ss_pred             --CCCCCC---HHHHHHHHHhhc-----cCcceeEEeeCCCCcCccCcchhhhccCCCCCCcEEEEecCC-hHHHHHhc-
Q 038234          142 --TSNLGS---LQSLVRCISESI-----EGKKYLVVLDDVWTDDYTKWEPFQRCSANGQCGNNILVTTHK-KTVARMME-  209 (406)
Q Consensus       142 --~~~~~~---~~~~~~~l~~~l-----~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTtR~-~~v~~~~~-  209 (406)
                        ..+...   ..+.++.+.+..     .++.-++++|++...+.+.-+.+...+......+.+|++|.+ ..+...+. 
T Consensus        79 l~~s~~~~~~i~~~~vr~~~~~~~~~~~~~~~kviiidead~mt~~A~nallk~lEep~~~~~~il~~n~~~~il~tI~S  158 (325)
T COG0470          79 LNPSDLRKIDIIVEQVRELAEFLSESPLEGGYKVVIIDEADKLTEDAANALLKTLEEPPKNTRFILITNDPSKILPTIRS  158 (325)
T ss_pred             ecccccCCCcchHHHHHHHHHHhccCCCCCCceEEEeCcHHHHhHHHHHHHHHHhccCCCCeEEEEEcCChhhccchhhh
Confidence              011111   222333333322     256779999999766655556666666666667788877774 33333222 


Q ss_pred             cCCccccCCCCh
Q 038234          210 STNFISIKELST  221 (406)
Q Consensus       210 ~~~~~~l~~L~~  221 (406)
                      ....+.+.+.+.
T Consensus       159 Rc~~i~f~~~~~  170 (325)
T COG0470         159 RCQRIRFKPPSR  170 (325)
T ss_pred             cceeeecCCchH
Confidence            245566665333

>PRK13695 putative NTPase; Provisional

Probab=96.47  E-value=0.0015  Score=56.33  Aligned_cols=22  Identities=36%  Similarity=0.395  Sum_probs=19.2

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcC
Q 038234          104 MISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      .++|+|.+|+|||||++.+++.
T Consensus         2 ~i~ltG~~G~GKTTll~~i~~~   23 (174)
T PRK13695          2 KIGITGPPGVGKTTLVLKIAEL   23 (174)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            4789999999999999987654

>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=96.46  E-value=0.0021  Score=51.93  Aligned_cols=22  Identities=36%  Similarity=0.474  Sum_probs=20.1

Q ss_pred             EEEeeeCCCcHHHHHHHHhcCC
Q 038234          105 ISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       105 i~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      |.|.|.+|+||||+|+.+.+..
T Consensus         1 I~i~G~~GsGKtTia~~L~~~~   22 (129)
T PF13238_consen    1 IGISGIPGSGKTTIAKELAERL   22 (129)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHH
T ss_pred             CEEECCCCCCHHHHHHHHHHHH
Confidence            6899999999999999998874

...

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

Probab=96.42  E-value=0.0038  Score=63.53  Aligned_cols=29  Identities=31%  Similarity=0.540  Sum_probs=25.2

Q ss_pred             CCCcEEEEEeeeCCCcHHHHHHHHhcCCh
Q 038234           99 QKPIKMISIVGMGGIGKITLAQMAYNDKD  127 (406)
Q Consensus        99 ~~~~~vi~I~G~gGiGKTtLA~~v~~~~~  127 (406)
                      .+.-+++.++|++|.||||||..++++..
T Consensus       323 RP~kKilLL~GppGlGKTTLAHViAkqaG  351 (877)
T KOG1969|consen  323 RPPKKILLLCGPPGLGKTTLAHVIAKQAG  351 (877)
T ss_pred             CCccceEEeecCCCCChhHHHHHHHHhcC
Confidence            45578999999999999999999988754

>PRK08233 hypothetical protein; Provisional

Probab=96.42  E-value=0.0026  Score=55.00  Aligned_cols=25  Identities=32%  Similarity=0.429  Sum_probs=22.1

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      ..+|+|.|.+|+||||||..+....
T Consensus         3 ~~iI~I~G~~GsGKtTla~~L~~~l   27 (182)
T PRK08233          3 TKIITIAAVSGGGKTTLTERLTHKL   27 (182)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhhC
Confidence            4789999999999999999887654

>COG4618 ArpD ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]

Probab=96.41  E-value=0.0042  Score=60.79  Aligned_cols=24  Identities=33%  Similarity=0.434  Sum_probs=20.8

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ..+++|+|++|.||||||+.+.--
T Consensus       362 G~~lgIIGPSgSGKSTLaR~lvG~  385 (580)
T COG4618         362 GEALGIIGPSGSGKSTLARLLVGI  385 (580)
T ss_pred             CceEEEECCCCccHHHHHHHHHcc
Confidence            458999999999999999987653

>PRK12608 transcription termination factor Rho; Provisional

Probab=96.41  E-value=0.0061  Score=58.33  Aligned_cols=84  Identities=15%  Similarity=0.103  Sum_probs=50.6

Q ss_pred             hHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCC-----hH---------------HHHHHHHHHhcCCC
Q 038234           83 KKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDK-----DF---------------RVAKAIIAALGCET  142 (406)
Q Consensus        83 ~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~-----~~---------------~~~~~i~~~l~~~~  142 (406)
                      ...++++.+..-.     ....+.|+|.+|+|||||++.+++..     .+               ++...+...+....
T Consensus       119 ~~~RvID~l~PiG-----kGQR~LIvG~pGtGKTTLl~~la~~i~~~~~dv~~vv~lIgER~~EV~df~~~i~~~Vvast  193 (380)
T PRK12608        119 LSMRVVDLVAPIG-----KGQRGLIVAPPRAGKTVLLQQIAAAVAANHPEVHLMVLLIDERPEEVTDMRRSVKGEVYAST  193 (380)
T ss_pred             hhHhhhhheeecC-----CCceEEEECCCCCCHHHHHHHHHHHHHhcCCCceEEEEEecCCCCCHHHHHHHHhhhEEeec
Confidence            3455777777542     24567999999999999998866532     11               55566655555443


Q ss_pred             CCCCCHHH-----HHHHHHhh--ccCcceeEEeeCC
Q 038234          143 SNLGSLQS-----LVRCISES--IEGKKYLVVLDDV  171 (406)
Q Consensus       143 ~~~~~~~~-----~~~~l~~~--l~~kr~LlVlDdv  171 (406)
                      .+......     ....+.+.  -.|++.+||+|++
T Consensus       194 ~de~~~~~~~v~~~~~~~Ae~f~~~GkdVVLvlDsl  229 (380)
T PRK12608        194 FDRPPDEHIRVAELVLERAKRLVEQGKDVVILLDSL  229 (380)
T ss_pred             CCCCHHHHHHHHHHHHHHHHHHHHcCCCEEEEEeCc
Confidence            22221111     11111222  2589999999998

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

Probab=96.37  E-value=0.0026  Score=55.85  Aligned_cols=22  Identities=41%  Similarity=0.483  Sum_probs=19.5

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcC
Q 038234          104 MISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ||+|.|.+|+||||+|+.+...
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            6999999999999999887653

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 ....

>PRK04296 thymidine kinase; Provisional

Probab=96.35  E-value=0.0031  Score=55.17  Aligned_cols=98  Identities=15%  Similarity=0.082  Sum_probs=53.2

Q ss_pred             EEEEEeeeCCCcHHHHHHHHhcCChH-----H----------HHHHHHHHhcCCCCC--CCCHHHHHHHHHhhccCccee
Q 038234          103 KMISIVGMGGIGKITLAQMAYNDKDF-----R----------VAKAIIAALGCETSN--LGSLQSLVRCISESIEGKKYL  165 (406)
Q Consensus       103 ~vi~I~G~gGiGKTtLA~~v~~~~~~-----~----------~~~~i~~~l~~~~~~--~~~~~~~~~~l~~~l~~kr~L  165 (406)
                      .++.|+|..|.||||+|..+..+...     -          ....+...++.....  .....++...+.+ ..++.-+
T Consensus         3 ~i~litG~~GsGKTT~~l~~~~~~~~~g~~v~i~k~~~d~~~~~~~i~~~lg~~~~~~~~~~~~~~~~~~~~-~~~~~dv   81 (190)
T PRK04296          3 KLEFIYGAMNSGKSTELLQRAYNYEERGMKVLVFKPAIDDRYGEGKVVSRIGLSREAIPVSSDTDIFELIEE-EGEKIDC   81 (190)
T ss_pred             EEEEEECCCCCHHHHHHHHHHHHHHHcCCeEEEEeccccccccCCcEecCCCCcccceEeCChHHHHHHHHh-hCCCCCE
Confidence            47889999999999999776654321     0          011122222211111  1233445555554 3345559


Q ss_pred             EEeeCCCCcCccCcchhhhccCCCCCCcEEEEecCChH
Q 038234          166 VVLDDVWTDDYTKWEPFQRCSANGQCGNNILVTTHKKT  203 (406)
Q Consensus       166 lVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTtR~~~  203 (406)
                      ||+|.+..-+.++...+...+  ...|..||+|.++.+
T Consensus        82 viIDEaq~l~~~~v~~l~~~l--~~~g~~vi~tgl~~~  117 (190)
T PRK04296         82 VLIDEAQFLDKEQVVQLAEVL--DDLGIPVICYGLDTD  117 (190)
T ss_pred             EEEEccccCCHHHHHHHHHHH--HHcCCeEEEEecCcc
Confidence            999999543222122222222  234778999998743

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

Probab=96.35  E-value=0.0094  Score=51.42  Aligned_cols=24  Identities=38%  Similarity=0.380  Sum_probs=21.3

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcCCh
Q 038234          104 MISIVGMGGIGKITLAQMAYNDKD  127 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~~~  127 (406)
                      .|.|.|.+|+||||+|+.+.+...
T Consensus         2 riiilG~pGaGK~T~A~~La~~~~   25 (178)
T COG0563           2 RILILGPPGAGKSTLAKKLAKKLG   25 (178)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhC
Confidence            478999999999999999988754

>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A

Probab=96.33  E-value=0.0041  Score=54.68  Aligned_cols=91  Identities=18%  Similarity=0.231  Sum_probs=46.5

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCChH------------HHHHHHHHHhcCCCCCCCCHHHHHHHHHhhc---------c
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDKDF------------RVAKAIIAALGCETSNLGSLQSLVRCISESI---------E  160 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~~~------------~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l---------~  160 (406)
                      -+++.|.|.+|.|||+++..+.+....            +-...+....+..   ...   +...+....         .
T Consensus        18 ~~~~~l~G~aGtGKT~~l~~~~~~~~~~g~~v~~~apT~~Aa~~L~~~~~~~---a~T---i~~~l~~~~~~~~~~~~~~   91 (196)
T PF13604_consen   18 DRVSVLQGPAGTGKTTLLKALAEALEAAGKRVIGLAPTNKAAKELREKTGIE---AQT---IHSFLYRIPNGDDEGRPEL   91 (196)
T ss_dssp             CSEEEEEESTTSTHHHHHHHHHHHHHHTT--EEEEESSHHHHHHHHHHHTS----EEE---HHHHTTEECCEECCSSCC-
T ss_pred             CeEEEEEECCCCCHHHHHHHHHHHHHhCCCeEEEECCcHHHHHHHHHhhCcc---hhh---HHHHHhcCCcccccccccC
Confidence            457889999999999998876543322            2222233332211   011   111111111         1


Q ss_pred             CcceeEEeeCCCCcCccCcchhhhccCCCCCCcEEEEecC
Q 038234          161 GKKYLVVLDDVWTDDYTKWEPFQRCSANGQCGNNILVTTH  200 (406)
Q Consensus       161 ~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTtR  200 (406)
                      .++-+||+|++.-.+...+..+....+.  .|+++|+.-=
T Consensus        92 ~~~~vliVDEasmv~~~~~~~ll~~~~~--~~~klilvGD  129 (196)
T PF13604_consen   92 PKKDVLIVDEASMVDSRQLARLLRLAKK--SGAKLILVGD  129 (196)
T ss_dssp             TSTSEEEESSGGG-BHHHHHHHHHHS-T---T-EEEEEE-
T ss_pred             CcccEEEEecccccCHHHHHHHHHHHHh--cCCEEEEECC
Confidence            3346999999965554455555555444  3667776543

>cd03228 ABCC_MRP_Like The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export

Probab=96.32  E-value=0.015  Score=49.93  Aligned_cols=106  Identities=19%  Similarity=0.229  Sum_probs=56.0

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCChH----------HHH----HHHHHHhc--CCCCCC--CCH--------HHHHHHH
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDKDF----------RVA----KAIIAALG--CETSNL--GSL--------QSLVRCI  155 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~~~----------~~~----~~i~~~l~--~~~~~~--~~~--------~~~~~~l  155 (406)
                      ..+++|+|..|.|||||.+.++.....          .+.    ......+.  .+....  .+.        +...-.+
T Consensus        28 G~~~~l~G~nGsGKstLl~~i~G~~~~~~G~i~~~g~~~~~~~~~~~~~~i~~~~~~~~~~~~t~~e~lLS~G~~~rl~l  107 (171)
T cd03228          28 GEKVAIVGPSGSGKSTLLKLLLRLYDPTSGEILIDGVDLRDLDLESLRKNIAYVPQDPFLFSGTIRENILSGGQRQRIAI  107 (171)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHcCCCCCCCEEEECCEEhhhcCHHHHHhhEEEEcCCchhccchHHHHhhCHHHHHHHHH
Confidence            558999999999999999999876432          110    01111111  011000  011        1111234


Q ss_pred             HhhccCcceeEEeeCCCCc-CccCcchhhhccCCCCCCcEEEEecCChHHHHH
Q 038234          156 SESIEGKKYLVVLDDVWTD-DYTKWEPFQRCSANGQCGNNILVTTHKKTVARM  207 (406)
Q Consensus       156 ~~~l~~kr~LlVlDdvw~~-~~~~~~~l~~~l~~~~~gs~IivTtR~~~v~~~  207 (406)
                      ...+-.++-+++||+.... |......+...+.....+..||++|.+......
T Consensus       108 a~al~~~p~llllDEP~~gLD~~~~~~l~~~l~~~~~~~tii~~sh~~~~~~~  160 (171)
T cd03228         108 ARALLRDPPILILDEATSALDPETEALILEALRALAKGKTVIVIAHRLSTIRD  160 (171)
T ss_pred             HHHHhcCCCEEEEECCCcCCCHHHHHHHHHHHHHhcCCCEEEEEecCHHHHHh
Confidence            5556677889999987431 111222333333222235678888888766654

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.

>PRK08769 DNA polymerase III subunit delta'; Validated

Probab=96.32  E-value=0.022  Score=53.85  Aligned_cols=143  Identities=13%  Similarity=0.113  Sum_probs=83.3

Q ss_pred             hHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChH---------HHHHHHHHHhcCC------CCCC--
Q 038234           83 KKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDF---------RVAKAIIAALGCE------TSNL--  145 (406)
Q Consensus        83 ~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~---------~~~~~i~~~l~~~------~~~~--  145 (406)
                      ..+.+...+..     +.-.+.+.++|+.|+||+++|..+++..-.         .-...+...-.++      .++.  
T Consensus        12 ~~~~l~~~~~~-----~rl~HA~Lf~Gp~G~GK~~lA~~lA~~LlC~~~~~~~~c~~c~~~~~g~HPD~~~i~~~p~~~~   86 (319)
T PRK08769         12 AYDQTVAALDA-----GRLGHGLLICGPEGLGKRAVALALAEHVLASGPDPAAAQRTRQLIAAGTHPDLQLVSFIPNRTG   86 (319)
T ss_pred             HHHHHHHHHHc-----CCcceeEeeECCCCCCHHHHHHHHHHHHhCCCCCCCCcchHHHHHhcCCCCCEEEEecCCCccc
Confidence            34555665543     233567899999999999999777653210         1111111000000      0000  


Q ss_pred             ------CCHHHHHHHHHhh-----ccCcceeEEeeCCCCcCccCcchhhhccCCCCCCcEEEEecCC-hHHHHHh-ccCC
Q 038234          146 ------GSLQSLVRCISES-----IEGKKYLVVLDDVWTDDYTKWEPFQRCSANGQCGNNILVTTHK-KTVARMM-ESTN  212 (406)
Q Consensus       146 ------~~~~~~~~~l~~~-----l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTtR~-~~v~~~~-~~~~  212 (406)
                            ...+++. .+.+.     ..+++-++|+|++...+...-+.+...+-.-..++.+|++|.+ ..+...+ +...
T Consensus        87 ~k~~~~I~idqIR-~l~~~~~~~p~~g~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~~~fiL~~~~~~~lLpTIrSRCq  165 (319)
T PRK08769         87 DKLRTEIVIEQVR-EISQKLALTPQYGIAQVVIVDPADAINRAACNALLKTLEEPSPGRYLWLISAQPARLPATIRSRCQ  165 (319)
T ss_pred             ccccccccHHHHH-HHHHHHhhCcccCCcEEEEeccHhhhCHHHHHHHHHHhhCCCCCCeEEEEECChhhCchHHHhhhe
Confidence                  1122222 22222     2356679999999777666667777777665567777766664 4444333 3467


Q ss_pred             ccccCCCChHHHHHhhhhh
Q 038234          213 FISIKELSTQECWSLFKQE  231 (406)
Q Consensus       213 ~~~l~~L~~~~a~~Lf~~~  231 (406)
                      .+.+.+++.+++.+.+.+.
T Consensus       166 ~i~~~~~~~~~~~~~L~~~  184 (319)
T PRK08769        166 RLEFKLPPAHEALAWLLAQ  184 (319)
T ss_pred             EeeCCCcCHHHHHHHHHHc
Confidence            7889999999988877654

>PRK05480 uridine/cytidine kinase; Provisional

Probab=96.32  E-value=0.0033  Score=55.89  Aligned_cols=27  Identities=37%  Similarity=0.509  Sum_probs=23.1

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      .+..+|+|.|.+|+||||||+.++...
T Consensus         4 ~~~~iI~I~G~sGsGKTTl~~~l~~~l   30 (209)
T PRK05480          4 KKPIIIGIAGGSGSGKTTVASTIYEEL   30 (209)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            457799999999999999999887643

>TIGR00235 udk uridine kinase

Probab=96.31  E-value=0.0033  Score=55.83  Aligned_cols=26  Identities=35%  Similarity=0.423  Sum_probs=22.8

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      +...+|+|+|++|+||||||+.+...
T Consensus         4 ~~g~vi~I~G~sGsGKSTl~~~l~~~   29 (207)
T TIGR00235         4 PKGIIIGIGGGSGSGKTTVARKIYEQ   29 (207)
T ss_pred             CCeEEEEEECCCCCCHHHHHHHHHHH
Confidence            45789999999999999999988754

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

>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=96.29  E-value=0.0035  Score=51.79  Aligned_cols=23  Identities=35%  Similarity=0.391  Sum_probs=20.1

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcCC
Q 038234          104 MISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      +|.++|++|+||||+|+.+....
T Consensus         1 lii~~G~pgsGKSt~a~~l~~~~   23 (143)
T PF13671_consen    1 LIILCGPPGSGKSTLAKRLAKRL   23 (143)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHS
T ss_pred             CEEEECCCCCCHHHHHHHHHHHC
Confidence            58899999999999999988543

...

>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=96.28  E-value=0.0036  Score=52.06  Aligned_cols=26  Identities=31%  Similarity=0.301  Sum_probs=22.1

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCCh
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDKD  127 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~~  127 (406)
                      ..-|.|.|++|+||||+++.+.+..+
T Consensus         5 ~mki~ITG~PGvGKtTl~~ki~e~L~   30 (179)
T COG1618           5 AMKIFITGRPGVGKTTLVLKIAEKLR   30 (179)
T ss_pred             ceEEEEeCCCCccHHHHHHHHHHHHH
Confidence            56789999999999999998876543

>KOG0730 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=96.27  E-value=0.01  Score=59.83  Aligned_cols=152  Identities=14%  Similarity=0.118  Sum_probs=80.0

Q ss_pred             ceecchhhHHHHHHHHhcCCCC-------CCCCcEEEEEeeeCCCcHHHHHHHHhcCChHHHHHH----HHHHhcCCCCC
Q 038234           76 EICGRDYKKNELLSKLLSDSSD-------QQKPIKMISIVGMGGIGKITLAQMAYNDKDFRVAKA----IIAALGCETSN  144 (406)
Q Consensus        76 ~~vGR~~~~~~l~~~L~~~~~~-------~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~~~----i~~~l~~~~~~  144 (406)
                      ++=|.++-..+|.+.+.-....       +-.+.+-|..+|+||.|||++|+++++.....|+.-    ++...-     
T Consensus       435 dIGGlE~lK~elq~~V~~p~~~pe~F~r~Gi~ppkGVLlyGPPGC~KT~lAkalAne~~~nFlsvkgpEL~sk~v-----  509 (693)
T KOG0730|consen  435 DIGGLEELKRELQQAVEWPLKHPEKFARFGISPPKGVLLYGPPGCGKTLLAKALANEAGMNFLSVKGPELFSKYV-----  509 (693)
T ss_pred             hccCHHHHHHHHHHHHhhhhhchHHHHHhcCCCCceEEEECCCCcchHHHHHHHhhhhcCCeeeccCHHHHHHhc-----
Confidence            3445666555555444321110       235678899999999999999999999876543322    111111     


Q ss_pred             CCCHHHHHHHHHhhccCcceeEEeeCCCCcCc-----------cCcchhhhccCCCCCC-cEEEE--ecCChHHHHH-hc
Q 038234          145 LGSLQSLVRCISESIEGKKYLVVLDDVWTDDY-----------TKWEPFQRCSANGQCG-NNILV--TTHKKTVARM-ME  209 (406)
Q Consensus       145 ~~~~~~~~~~l~~~l~~kr~LlVlDdvw~~~~-----------~~~~~l~~~l~~~~~g-s~Iiv--TtR~~~v~~~-~~  209 (406)
                      ..+...+.+..++.-+--+++|.||.+..-..           ....++..-+...... ..+|+  |.|...+-.. +.
T Consensus       510 GeSEr~ir~iF~kAR~~aP~IiFfDEiDsi~~~R~g~~~~v~~RVlsqLLtEmDG~e~~k~V~ViAATNRpd~ID~ALlR  589 (693)
T KOG0730|consen  510 GESERAIREVFRKARQVAPCIIFFDEIDALAGSRGGSSSGVTDRVLSQLLTEMDGLEALKNVLVIAATNRPDMIDPALLR  589 (693)
T ss_pred             CchHHHHHHHHHHHhhcCCeEEehhhHHhHhhccCCCccchHHHHHHHHHHHcccccccCcEEEEeccCChhhcCHHHcC
Confidence            12333444444444445678999998743110           0111222222222222 23333  3333332222 22


Q ss_pred             ---cCCccccCCCChHHHHHhhhhhc
Q 038234          210 ---STNFISIKELSTQECWSLFKQES  232 (406)
Q Consensus       210 ---~~~~~~l~~L~~~~a~~Lf~~~~  232 (406)
                         -..++-++.-+.+--.++|+.++
T Consensus       590 PGRlD~iiyVplPD~~aR~~Ilk~~~  615 (693)
T KOG0730|consen  590 PGRLDRIIYVPLPDLEARLEILKQCA  615 (693)
T ss_pred             CcccceeEeecCccHHHHHHHHHHHH
Confidence               25666777667777778888765

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

Probab=96.26  E-value=0.0031  Score=63.99  Aligned_cols=157  Identities=13%  Similarity=0.174  Sum_probs=83.2

Q ss_pred             CceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChHHHHHH-------HHHHhcCC-CCCCC
Q 038234           75 SEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDFRVAKA-------IIAALGCE-TSNLG  146 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~~~-------i~~~l~~~-~~~~~  146 (406)
                      .+-+|+++-.+++++.+--..-.++-+.++++.+|++|||||++|+.+++-...+|++.       ..+--+.. +.--.
T Consensus       411 eDHYgm~dVKeRILEfiAV~kLrgs~qGkIlCf~GPPGVGKTSI~kSIA~ALnRkFfRfSvGG~tDvAeIkGHRRTYVGA  490 (906)
T KOG2004|consen  411 EDHYGMEDVKERILEFIAVGKLRGSVQGKILCFVGPPGVGKTSIAKSIARALNRKFFRFSVGGMTDVAEIKGHRRTYVGA  490 (906)
T ss_pred             ccccchHHHHHHHHHHHHHHhhcccCCCcEEEEeCCCCCCcccHHHHHHHHhCCceEEEeccccccHHhhcccceeeecc
Confidence            45679999999999887533222356688999999999999999988776543322110       00000000 00001


Q ss_pred             CHHHHHHHHHhhccCcceeEEeeCCCCcCc----cCcchhhhccCCC-C------------CCcEEE-EecCCh--HH-H
Q 038234          147 SLQSLVRCISESIEGKKYLVVLDDVWTDDY----TKWEPFQRCSANG-Q------------CGNNIL-VTTHKK--TV-A  205 (406)
Q Consensus       147 ~~~~~~~~l~~~l~~kr~LlVlDdvw~~~~----~~~~~l~~~l~~~-~------------~gs~Ii-vTtR~~--~v-~  205 (406)
                      -...+++.|++. +..+-|+.||.|..-..    +--..+...|... +            -=|+|+ |.|-|.  .+ .
T Consensus       491 MPGkiIq~LK~v-~t~NPliLiDEvDKlG~g~qGDPasALLElLDPEQNanFlDHYLdVp~DLSkVLFicTAN~idtIP~  569 (906)
T KOG2004|consen  491 MPGKIIQCLKKV-KTENPLILIDEVDKLGSGHQGDPASALLELLDPEQNANFLDHYLDVPVDLSKVLFICTANVIDTIPP  569 (906)
T ss_pred             CChHHHHHHHhh-CCCCceEEeehhhhhCCCCCCChHHHHHHhcChhhccchhhhccccccchhheEEEEeccccccCCh
Confidence            112333333332 34566888998843210    0111233333211 1            125665 334331  11 1


Q ss_pred             HHhccCCccccCCCChHHHHHhhhhhc
Q 038234          206 RMMESTNFISIKELSTQECWSLFKQES  232 (406)
Q Consensus       206 ~~~~~~~~~~l~~L~~~~a~~Lf~~~~  232 (406)
                      .......+|++.+-..+|-..+-.++.
T Consensus       570 pLlDRMEvIelsGYv~eEKv~IA~~yL  596 (906)
T KOG2004|consen  570 PLLDRMEVIELSGYVAEEKVKIAERYL  596 (906)
T ss_pred             hhhhhhheeeccCccHHHHHHHHHHhh
Confidence            112336788999999888776665554

>cd01131 PilT Pilus retraction ATPase PilT

Probab=96.26  E-value=0.0041  Score=54.80  Aligned_cols=99  Identities=11%  Similarity=0.125  Sum_probs=53.5

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcCChH-------------HHHHHHHHHhcCCCCCCCCHHHHHHHHHhhccCcceeEEeeC
Q 038234          104 MISIVGMGGIGKITLAQMAYNDKDF-------------RVAKAIIAALGCETSNLGSLQSLVRCISESIEGKKYLVVLDD  170 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~~~~-------------~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDd  170 (406)
                      +|.|+|+.|.||||++..+......             ++...-...+-.+.....+.....+.++..+...+=++++|.
T Consensus         3 lilI~GptGSGKTTll~~ll~~~~~~~~~~i~t~e~~~E~~~~~~~~~i~q~~vg~~~~~~~~~i~~aLr~~pd~ii~gE   82 (198)
T cd01131           3 LVLVTGPTGSGKSTTLAAMIDYINKNKTHHILTIEDPIEFVHESKRSLINQREVGLDTLSFENALKAALRQDPDVILVGE   82 (198)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhhhcCCcEEEEEcCCccccccCccceeeecccCCCccCHHHHHHHHhcCCcCEEEEcC
Confidence            6899999999999999876544321             100000000000000011123345566777776778999999


Q ss_pred             CCCcCccCcchhhhccCCCCCCcEEEEecCChHHHHH
Q 038234          171 VWTDDYTKWEPFQRCSANGQCGNNILVTTHKKTVARM  207 (406)
Q Consensus       171 vw~~~~~~~~~l~~~l~~~~~gs~IivTtR~~~v~~~  207 (406)
                      +.+  .+....+...   ...|..++.|+....+...
T Consensus        83 ird--~e~~~~~l~~---a~~G~~v~~t~Ha~~~~~~  114 (198)
T cd01131          83 MRD--LETIRLALTA---AETGHLVMSTLHTNSAAKT  114 (198)
T ss_pred             CCC--HHHHHHHHHH---HHcCCEEEEEecCCcHHHH
Confidence            943  2333332222   2235568888877665544

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.

>cd03247 ABCC_cytochrome_bd The CYD subfamily implicated in cytochrome bd biogenesis

Probab=96.24  E-value=0.015  Score=50.17  Aligned_cols=105  Identities=18%  Similarity=0.141  Sum_probs=55.8

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCChH-------------HHHHHHHHHhc--CCCCCC--CC-----------HHHHHH
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDKDF-------------RVAKAIIAALG--CETSNL--GS-----------LQSLVR  153 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~~~-------------~~~~~i~~~l~--~~~~~~--~~-----------~~~~~~  153 (406)
                      ..+++|.|..|.|||||++.+......             .....+-..+.  .+.+..  ..           -+...-
T Consensus        28 Ge~~~i~G~nGsGKStLl~~l~G~~~~~~G~i~~~g~~~~~~~~~~~~~i~~~~q~~~~~~~tv~~~i~~~LS~G~~qrv  107 (178)
T cd03247          28 GEKIALLGRSGSGKSTLLQLLTGDLKPQQGEITLDGVPVSDLEKALSSLISVLNQRPYLFDTTLRNNLGRRFSGGERQRL  107 (178)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhccCCCCCCEEEECCEEHHHHHHHHHhhEEEEccCCeeecccHHHhhcccCCHHHHHHH
Confidence            458999999999999999998876432             11111111111  011100  00           111112


Q ss_pred             HHHhhccCcceeEEeeCCCCc-CccCcchhhhccCCCCCCcEEEEecCChHHHH
Q 038234          154 CISESIEGKKYLVVLDDVWTD-DYTKWEPFQRCSANGQCGNNILVTTHKKTVAR  206 (406)
Q Consensus       154 ~l~~~l~~kr~LlVlDdvw~~-~~~~~~~l~~~l~~~~~gs~IivTtR~~~v~~  206 (406)
                      .+.+.+-.++-+++||+.... |....+.+...+.....+..||++|.+.....
T Consensus       108 ~laral~~~p~~lllDEP~~~LD~~~~~~l~~~l~~~~~~~tii~~sh~~~~~~  161 (178)
T cd03247         108 ALARILLQDAPIVLLDEPTVGLDPITERQLLSLIFEVLKDKTLIWITHHLTGIE  161 (178)
T ss_pred             HHHHHHhcCCCEEEEECCcccCCHHHHHHHHHHHHHHcCCCEEEEEecCHHHHH
Confidence            344556677889999987432 11122223333322223567888888876654

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.

>PRK06547 hypothetical protein; Provisional

Probab=96.24  E-value=0.0063  Score=52.25  Aligned_cols=27  Identities=30%  Similarity=0.271  Sum_probs=23.5

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      ....+|+|.|.+|+||||+|+.+.+..
T Consensus        13 ~~~~~i~i~G~~GsGKTt~a~~l~~~~   39 (172)
T PRK06547         13 GGMITVLIDGRSGSGKTTLAGALAART   39 (172)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            457899999999999999999987653

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

Probab=96.24  E-value=0.0042  Score=57.33  Aligned_cols=24  Identities=25%  Similarity=0.213  Sum_probs=18.3

Q ss_pred             EEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          103 KMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       103 ~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      ..|.|+|.||+||||+|+.+....
T Consensus         2 pLiil~G~P~SGKTt~a~~L~~~~   25 (270)
T PF08433_consen    2 PLIILCGLPCSGKTTRAKELKKYL   25 (270)
T ss_dssp             -EEEEE--TTSSHHHHHHHHHHHH
T ss_pred             EEEEEEcCCCCcHHHHHHHHHHHH
Confidence            368999999999999999887753

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

>cd00561 CobA_CobO_BtuR ATP:corrinoid adenosyltransferase BtuR/CobO/CobP

Probab=96.21  E-value=0.0085  Score=50.47  Aligned_cols=47  Identities=17%  Similarity=0.151  Sum_probs=30.2

Q ss_pred             HhhccC-cceeEEeeCCCCc---CccCcchhhhccCCCCCCcEEEEecCCh
Q 038234          156 SESIEG-KKYLVVLDDVWTD---DYTKWEPFQRCSANGQCGNNILVTTHKK  202 (406)
Q Consensus       156 ~~~l~~-kr~LlVlDdvw~~---~~~~~~~l~~~l~~~~~gs~IivTtR~~  202 (406)
                      ++.+.. +-=|||||++--.   ..-..+.+...+.....+..||+|.|+.
T Consensus        88 ~~~~~~~~~dLlVLDEi~~a~~~gli~~~~v~~ll~~rp~~~evIlTGr~~  138 (159)
T cd00561          88 KEAIASGEYDLVILDEINYALGYGLLDVEEVVDLLKAKPEDLELVLTGRNA  138 (159)
T ss_pred             HHHHhcCCCCEEEEechHhHhhCCCCCHHHHHHHHHcCCCCCEEEEECCCC
Confidence            344444 4459999988321   1223345666666666788999999984

This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer, which catalyzes the adenosylation reaction: ATP + cob(I)alamin + H2O <= phosphate + diphosphate + adenosylcobalamin.

>cd03281 ABC_MSH5_euk MutS5 homolog in eukaryotes

Probab=96.21  E-value=0.006  Score=54.40  Aligned_cols=107  Identities=13%  Similarity=0.097  Sum_probs=55.0

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCCh------H--------HHHHHHHHHhcCCCCCCCC---HHHHHHHHHhh--ccCc
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDKD------F--------RVAKAIIAALGCETSNLGS---LQSLVRCISES--IEGK  162 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~~------~--------~~~~~i~~~l~~~~~~~~~---~~~~~~~l~~~--l~~k  162 (406)
                      .+++.|+|+.|.|||||.+.+.....      .        .+...+...+.........   ...-.+.+...  +..+
T Consensus        29 ~~~~~itGpNg~GKStlLk~i~~~~~la~~G~~v~a~~~~~~~~d~i~~~l~~~~si~~~~S~f~~el~~l~~~l~~~~~  108 (213)
T cd03281          29 PSIMVITGPNSSGKSVYLKQVALIVFLAHIGSFVPADSATIGLVDKIFTRMSSRESVSSGQSAFMIDLYQVSKALRLATR  108 (213)
T ss_pred             ceEEEEECCCCCChHHHHHHHHHHHHHHhCCCeeEcCCcEEeeeeeeeeeeCCccChhhccchHHHHHHHHHHHHHhCCC
Confidence            47899999999999999888752210      0        1111222222211111111   11111222222  2367


Q ss_pred             ceeEEeeCCCCcCc-cCcc----hhhhccCCC-CCCcEEEEecCChHHHHHh
Q 038234          163 KYLVVLDDVWTDDY-TKWE----PFQRCSANG-QCGNNILVTTHKKTVARMM  208 (406)
Q Consensus       163 r~LlVlDdvw~~~~-~~~~----~l~~~l~~~-~~gs~IivTtR~~~v~~~~  208 (406)
                      +.|++||..-.... .+..    .+...+... ..+..+|+||.+..++...
T Consensus       109 ~slvllDE~~~gtd~~~~~~~~~ail~~l~~~~~~~~~vli~TH~~~l~~~~  160 (213)
T cd03281         109 RSLVLIDEFGKGTDTEDGAGLLIATIEHLLKRGPECPRVIVSTHFHELFNRS  160 (213)
T ss_pred             CcEEEeccccCCCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEcChHHHHHhh
Confidence            89999999854321 1111    122222222 2345799999998887764

The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal domain with a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding c

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

Probab=96.20  E-value=0.0092  Score=55.19  Aligned_cols=69  Identities=20%  Similarity=0.305  Sum_probs=43.7

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCChHHH-------------HHHHHHHhcCCCCCCCCHHHHHHHHHhhccCcce--eE
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDKDFRV-------------AKAIIAALGCETSNLGSLQSLVRCISESIEGKKY--LV  166 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~-------------~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~kr~--Ll  166 (406)
                      .++|.++|++|.|||+|.+++++...++.             ...++.....+  .......+-+.+++.++++..  .+
T Consensus       177 NRliLlhGPPGTGKTSLCKaLaQkLSIR~~~~y~~~~liEinshsLFSKWFsE--SgKlV~kmF~kI~ELv~d~~~lVfv  254 (423)
T KOG0744|consen  177 NRLILLHGPPGTGKTSLCKALAQKLSIRTNDRYYKGQLIEINSHSLFSKWFSE--SGKLVAKMFQKIQELVEDRGNLVFV  254 (423)
T ss_pred             eeEEEEeCCCCCChhHHHHHHHHhheeeecCccccceEEEEehhHHHHHHHhh--hhhHHHHHHHHHHHHHhCCCcEEEE
Confidence            47899999999999999999998765410             11111111111  113345566777888877664  44


Q ss_pred             EeeCCC
Q 038234          167 VLDDVW  172 (406)
Q Consensus       167 VlDdvw  172 (406)
                      .+|.|.
T Consensus       255 LIDEVE  260 (423)
T KOG0744|consen  255 LIDEVE  260 (423)
T ss_pred             EeHHHH
Confidence            578773

>PRK06762 hypothetical protein; Provisional

Probab=96.19  E-value=0.0037  Score=53.25  Aligned_cols=25  Identities=32%  Similarity=0.389  Sum_probs=21.7

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      ..+|.|+|++|+||||+|+.+.+..
T Consensus         2 ~~li~i~G~~GsGKST~A~~L~~~l   26 (166)
T PRK06762          2 TTLIIIRGNSGSGKTTIAKQLQERL   26 (166)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            4689999999999999999887653

>COG2274 SunT ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]

Probab=96.19  E-value=0.007  Score=63.27  Aligned_cols=29  Identities=31%  Similarity=0.362  Sum_probs=24.0

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhcCChH
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYNDKDF  128 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~  128 (406)
                      ++...|+|+|..|+|||||++.+..-+..
T Consensus       497 ~~Ge~vaIvG~SGsGKSTL~KLL~gly~p  525 (709)
T COG2274         497 PPGEKVAIVGRSGSGKSTLLKLLLGLYKP  525 (709)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcCCCC
Confidence            34568999999999999999998776543

>COG1102 Cmk Cytidylate kinase [Nucleotide transport and metabolism]

Probab=96.19  E-value=0.005  Score=51.24  Aligned_cols=38  Identities=24%  Similarity=0.388  Sum_probs=31.2

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcCChH------HHHHHHHHHhcCC
Q 038234          104 MISIVGMGGIGKITLAQMAYNDKDF------RVAKAIIAALGCE  141 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~~~~------~~~~~i~~~l~~~  141 (406)
                      +|.|.|++|.||||+|+.+.++..-      .++++++...+-+
T Consensus         2 ~ItIsG~pGsG~TTva~~lAe~~gl~~vsaG~iFR~~A~e~gms   45 (179)
T COG1102           2 VITISGLPGSGKTTVARELAEHLGLKLVSAGTIFREMARERGMS   45 (179)
T ss_pred             EEEeccCCCCChhHHHHHHHHHhCCceeeccHHHHHHHHHcCCC
Confidence            6899999999999999999988653      6777777776543

>KOG0726 consensus 26S proteasome regulatory complex, ATPase RPT2 [Posttranslational modification, protein turnover, chaperones]

Probab=96.19  E-value=0.022  Score=52.05  Aligned_cols=95  Identities=21%  Similarity=0.202  Sum_probs=60.2

Q ss_pred             ceecchhhHHHHHHHHhcCCCC-------CCCCcEEEEEeeeCCCcHHHHHHHHhcCChHHHHHHHHHHhcCCCCCCCCH
Q 038234           76 EICGRDYKKNELLSKLLSDSSD-------QQKPIKMISIVGMGGIGKITLAQMAYNDKDFRVAKAIIAALGCETSNLGSL  148 (406)
Q Consensus        76 ~~vGR~~~~~~l~~~L~~~~~~-------~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~~~i~~~l~~~~~~~~~~  148 (406)
                      ++=|-+..+++|.+.+.-.-..       +-.+++-|.++|.+|.|||-||++|+|+-...|++..-..+......  +-
T Consensus       186 diGGle~QiQEiKEsvELPLthPE~YeemGikpPKGVIlyG~PGTGKTLLAKAVANqTSATFlRvvGseLiQkylG--dG  263 (440)
T KOG0726|consen  186 DIGGLESQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGEPGTGKTLLAKAVANQTSATFLRVVGSELIQKYLG--DG  263 (440)
T ss_pred             ccccHHHHHHHHHHhhcCCCCCHHHHHHcCCCCCCeeEEeCCCCCchhHHHHHHhcccchhhhhhhhHHHHHHHhc--cc
Confidence            4557888888888876433211       24557788999999999999999999998876666554444322211  11


Q ss_pred             HHHHHHHHhhc-cCcceeEEeeCCC
Q 038234          149 QSLVRCISESI-EGKKYLVVLDDVW  172 (406)
Q Consensus       149 ~~~~~~l~~~l-~~kr~LlVlDdvw  172 (406)
                      -.+++.+.+.. ..-+.++++|.+.
T Consensus       264 pklvRqlF~vA~e~apSIvFiDEId  288 (440)
T KOG0726|consen  264 PKLVRELFRVAEEHAPSIVFIDEID  288 (440)
T ss_pred             hHHHHHHHHHHHhcCCceEEeehhh
Confidence            12333333332 3456778888763

>PTZ00301 uridine kinase; Provisional

Probab=96.18  E-value=0.0039  Score=55.35  Aligned_cols=24  Identities=29%  Similarity=0.462  Sum_probs=20.7

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ..+|+|.|.+|+||||||+.+.+.
T Consensus         3 ~~iIgIaG~SgSGKTTla~~l~~~   26 (210)
T PTZ00301          3 CTVIGISGASGSGKSSLSTNIVSE   26 (210)
T ss_pred             CEEEEEECCCcCCHHHHHHHHHHH
Confidence            579999999999999999876543

>PRK13531 regulatory ATPase RavA; Provisional

Probab=96.16  E-value=0.0056  Score=60.53  Aligned_cols=43  Identities=21%  Similarity=0.155  Sum_probs=36.7

Q ss_pred             CceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234           75 SEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ..++||++.++.+...+....        -|.|.|++|+|||+||+.+...
T Consensus        20 ~~i~gre~vI~lll~aalag~--------hVLL~GpPGTGKT~LAraLa~~   62 (498)
T PRK13531         20 KGLYERSHAIRLCLLAALSGE--------SVFLLGPPGIAKSLIARRLKFA   62 (498)
T ss_pred             hhccCcHHHHHHHHHHHccCC--------CEEEECCCChhHHHHHHHHHHH
Confidence            348899999999999887643        4789999999999999988764

>COG0396 sufC Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=96.15  E-value=0.022  Score=50.34  Aligned_cols=26  Identities=31%  Similarity=0.341  Sum_probs=22.7

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCCh
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDKD  127 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~~  127 (406)
                      -.+-+|.|+.|.||||||..+.-++.
T Consensus        30 GEvhaiMGPNGsGKSTLa~~i~G~p~   55 (251)
T COG0396          30 GEVHAIMGPNGSGKSTLAYTIMGHPK   55 (251)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCCCC
Confidence            45788999999999999999987764

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

Probab=96.15  E-value=0.012  Score=49.40  Aligned_cols=26  Identities=31%  Similarity=0.262  Sum_probs=22.1

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCCh
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDKD  127 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~~  127 (406)
                      ..+|-|+|.+|.||||||+++.+...
T Consensus         2 g~vIwltGlsGsGKtTlA~~L~~~L~   27 (156)
T PF01583_consen    2 GFVIWLTGLSGSGKTTLARALERRLF   27 (156)
T ss_dssp             -EEEEEESSTTSSHHHHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHH
Confidence            46899999999999999999887654

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 ....

>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=96.12  E-value=0.0038  Score=44.73  Aligned_cols=22  Identities=36%  Similarity=0.502  Sum_probs=18.8

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcC
Q 038234          104 MISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      +|.|.|.+|+||||+++.+.+.
T Consensus         1 ~i~i~G~~gsGKst~~~~l~~~   22 (69)
T cd02019           1 IIAITGGSGSGKSTVAKKLAEQ   22 (69)
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            4789999999999999987554

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.

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

Probab=96.12  E-value=0.0042  Score=63.19  Aligned_cols=157  Identities=13%  Similarity=0.160  Sum_probs=86.7

Q ss_pred             CceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChHHHHHHHHH------HhcCC--CCCCC
Q 038234           75 SEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDFRVAKAIIA------ALGCE--TSNLG  146 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~~~i~~------~l~~~--~~~~~  146 (406)
                      .+-+|.++-.+++++.|.-......-...++++||++|||||+|++.+++....+|.+--+.      .+.++  +---.
T Consensus       323 ~dHYGLekVKeRIlEyLAV~~l~~~~kGpILcLVGPPGVGKTSLgkSIA~al~RkfvR~sLGGvrDEAEIRGHRRTYIGa  402 (782)
T COG0466         323 KDHYGLEKVKERILEYLAVQKLTKKLKGPILCLVGPPGVGKTSLGKSIAKALGRKFVRISLGGVRDEAEIRGHRRTYIGA  402 (782)
T ss_pred             ccccCchhHHHHHHHHHHHHHHhccCCCcEEEEECCCCCCchhHHHHHHHHhCCCEEEEecCccccHHHhcccccccccc
Confidence            45679999999998887432211133457999999999999999988776543211110000      00000  00001


Q ss_pred             CHHHHHHHHHhhccCcceeEEeeCCCCcCcc----CcchhhhccCCCCC-------------CcEE-EEecCChH---HH
Q 038234          147 SLQSLVRCISESIEGKKYLVVLDDVWTDDYT----KWEPFQRCSANGQC-------------GNNI-LVTTHKKT---VA  205 (406)
Q Consensus       147 ~~~~~~~~l~~~l~~kr~LlVlDdvw~~~~~----~~~~l~~~l~~~~~-------------gs~I-ivTtR~~~---v~  205 (406)
                      -...+++.+++. +.++-|++||.+.....+    --..+...|....+             =|.| .|||-|.-   .+
T Consensus       403 mPGrIiQ~mkka-~~~NPv~LLDEIDKm~ss~rGDPaSALLEVLDPEQN~~F~DhYLev~yDLS~VmFiaTANsl~tIP~  481 (782)
T COG0466         403 MPGKIIQGMKKA-GVKNPVFLLDEIDKMGSSFRGDPASALLEVLDPEQNNTFSDHYLEVPYDLSKVMFIATANSLDTIPA  481 (782)
T ss_pred             CChHHHHHHHHh-CCcCCeEEeechhhccCCCCCChHHHHHhhcCHhhcCchhhccccCccchhheEEEeecCccccCCh
Confidence            112333333332 456779999998654321    11234444432111             1344 45665521   12


Q ss_pred             HHhccCCccccCCCChHHHHHhhhhhc
Q 038234          206 RMMESTNFISIKELSTQECWSLFKQES  232 (406)
Q Consensus       206 ~~~~~~~~~~l~~L~~~~a~~Lf~~~~  232 (406)
                      ..+....++++.+-+++|-.++-+++.
T Consensus       482 PLlDRMEiI~lsgYt~~EKl~IAk~~L  508 (782)
T COG0466         482 PLLDRMEVIRLSGYTEDEKLEIAKRHL  508 (782)
T ss_pred             HHhcceeeeeecCCChHHHHHHHHHhc
Confidence            333457899999999999887776655

>COG1121 ZnuC ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]

Probab=96.06  E-value=0.02  Score=51.84  Aligned_cols=23  Identities=26%  Similarity=0.431  Sum_probs=21.1

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhc
Q 038234          102 IKMISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      ...++|+|+.|.|||||.+.+..
T Consensus        30 G~~~~iiGPNGaGKSTLlK~iLG   52 (254)
T COG1121          30 GEITALIGPNGAGKSTLLKAILG   52 (254)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhC
Confidence            46899999999999999999887

>PRK03839 putative kinase; Provisional

Probab=96.05  E-value=0.0036  Score=54.19  Aligned_cols=25  Identities=28%  Similarity=0.610  Sum_probs=21.9

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcCChH
Q 038234          104 MISIVGMGGIGKITLAQMAYNDKDF  128 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~~~~  128 (406)
                      .|.|.|++|+||||+|+.+++....
T Consensus         2 ~I~l~G~pGsGKsT~~~~La~~~~~   26 (180)
T PRK03839          2 IIAITGTPGVGKTTVSKLLAEKLGY   26 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCC
Confidence            5889999999999999999887543

>TIGR03499 FlhF flagellar biosynthetic protein FlhF

Probab=96.05  E-value=0.022  Score=53.17  Aligned_cols=24  Identities=29%  Similarity=0.332  Sum_probs=20.1

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHhc
Q 038234          101 PIKMISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      ..++++|+|++|+||||++..++.
T Consensus       193 ~~~vi~~vGptGvGKTTt~~kLa~  216 (282)
T TIGR03499       193 QGGVIALVGPTGVGKTTTLAKLAA  216 (282)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            467999999999999998866543

>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=96.04  E-value=0.023  Score=49.19  Aligned_cols=105  Identities=16%  Similarity=0.208  Sum_probs=57.1

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCChH------------------HHHH------HHHHHhcCCC------CCCCCHHHH
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDKDF------------------RVAK------AIIAALGCET------SNLGSLQSL  151 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~~~------------------~~~~------~i~~~l~~~~------~~~~~~~~~  151 (406)
                      ..+++|+|..|.|||||.+.++.....                  ....      +++..++...      .....-+.-
T Consensus        25 G~~~~l~G~nGsGKStLl~~i~G~~~~~~G~v~~~g~~~~~~~~~~~~~~i~~~~q~l~~~gl~~~~~~~~~~LS~G~~q  104 (180)
T cd03214          25 GEIVGILGPNGAGKSTLLKTLAGLLKPSSGEILLDGKDLASLSPKELARKIAYVPQALELLGLAHLADRPFNELSGGERQ  104 (180)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCCCCCcEEEECCEECCcCCHHHHHHHHhHHHHHHHHcCCHhHhcCCcccCCHHHHH
Confidence            558999999999999999998875321                  1111      1222222211      111111222


Q ss_pred             HHHHHhhccCcceeEEeeCCCCc-CccCcchhhhccCCC-CC-CcEEEEecCChHHHH
Q 038234          152 VRCISESIEGKKYLVVLDDVWTD-DYTKWEPFQRCSANG-QC-GNNILVTTHKKTVAR  206 (406)
Q Consensus       152 ~~~l~~~l~~kr~LlVlDdvw~~-~~~~~~~l~~~l~~~-~~-gs~IivTtR~~~v~~  206 (406)
                      .-.+.+.+-..+-+++||+.-.. |......+...+... .. +..||++|.+.....
T Consensus       105 rl~laral~~~p~llllDEP~~~LD~~~~~~~~~~l~~~~~~~~~tiii~sh~~~~~~  162 (180)
T cd03214         105 RVLLARALAQEPPILLLDEPTSHLDIAHQIELLELLRRLARERGKTVVMVLHDLNLAA  162 (180)
T ss_pred             HHHHHHHHhcCCCEEEEeCCccCCCHHHHHHHHHHHHHHHHhcCCEEEEEeCCHHHHH
Confidence            22355566678889999987321 112223333333321 12 567888888866543

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.

>TIGR01817 nifA Nif-specific regulatory protein

Probab=96.01  E-value=0.012  Score=60.13  Aligned_cols=50  Identities=16%  Similarity=0.196  Sum_probs=39.4

Q ss_pred             CCCceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234           73 DESEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus        73 ~~~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      ....++|....+.++.+.+..-.    .....|.|+|..|+|||++|+.+++..
T Consensus       194 ~~~~liG~s~~~~~~~~~~~~~a----~~~~pvli~Ge~GtGK~~lA~~ih~~s  243 (534)
T TIGR01817       194 KEDGIIGKSPAMRQVVDQARVVA----RSNSTVLLRGESGTGKELIAKAIHYLS  243 (534)
T ss_pred             ccCceEECCHHHHHHHHHHHHHh----CcCCCEEEECCCCccHHHHHHHHHHhC
Confidence            34579999999999988886543    223357899999999999999998653

This model represents NifA, a DNA-binding regulatory protein for nitrogen fixation. The model produces scores between the trusted and noise cutoffs for a well-described NifA homolog in Aquifex aeolicus (which lacks nitrogenase), for transcriptional activators of alternative nitrogenases (VFe or FeFe instead of MoFe), and truncated forms.

>KOG2228 consensus Origin recognition complex, subunit 4 [Replication, recombination and repair]

Probab=96.01  E-value=0.028  Score=52.41  Aligned_cols=156  Identities=15%  Similarity=0.126  Sum_probs=84.7

Q ss_pred             CceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChH------------------HHHHHHHH
Q 038234           75 SEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDF------------------RVAKAIIA  136 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~------------------~~~~~i~~  136 (406)
                      ..++|-.++..++-.++....-  .+...-+.|+|+.|.|||+|......+.+.                  -.++.|..
T Consensus        24 ~~l~g~~~~~~~l~~~lkqt~~--~gEsnsviiigprgsgkT~li~~~Ls~~q~~~E~~l~v~Lng~~~~dk~al~~I~r  101 (408)
T KOG2228|consen   24 INLFGVQDEQKHLSELLKQTIL--HGESNSVIIIGPRGSGKTILIDTRLSDIQENGENFLLVRLNGELQTDKIALKGITR  101 (408)
T ss_pred             cceeehHHHHHHHHHHHHHHHH--hcCCCceEEEccCCCCceEeeHHHHhhHHhcCCeEEEEEECccchhhHHHHHHHHH
Confidence            3478888888888777754321  233557889999999999998766655221                  12333444


Q ss_pred             HhcC----CCCC----CCCHHHHHHHHHhh--ccCcceeEEeeCCCCcCccCcchhhhcc-----CCCCCCcEEEEecCC
Q 038234          137 ALGC----ETSN----LGSLQSLVRCISES--IEGKKYLVVLDDVWTDDYTKWEPFQRCS-----ANGQCGNNILVTTHK  201 (406)
Q Consensus       137 ~l~~----~~~~----~~~~~~~~~~l~~~--l~~kr~LlVlDdvw~~~~~~~~~l~~~l-----~~~~~gs~IivTtR~  201 (406)
                      ++..    ....    ..+...+...++..  ..+-++.+|+|...-.-...-..+...+     ....+=+.|-+|||-
T Consensus       102 ql~~e~~~~~k~~gsfte~l~~lL~~L~~~~~~t~~~ViFIldEfDlf~~h~rQtllYnlfDisqs~r~Piciig~Ttrl  181 (408)
T KOG2228|consen  102 QLALELNRIVKSFGSFTENLSKLLEALKKGDETTSGKVIFILDEFDLFAPHSRQTLLYNLFDISQSARAPICIIGVTTRL  181 (408)
T ss_pred             HHHHHHhhhheeecccchhHHHHHHHHhcCCCCCCceEEEEeehhhccccchhhHHHHHHHHHHhhcCCCeEEEEeeccc
Confidence            3322    1111    22333344444332  1234578888876221111111111111     123345566799997


Q ss_pred             hHHH---HHh----ccCCccccCCCChHHHHHhhhhhc
Q 038234          202 KTVA---RMM----ESTNFISIKELSTQECWSLFKQES  232 (406)
Q Consensus       202 ~~v~---~~~----~~~~~~~l~~L~~~~a~~Lf~~~~  232 (406)
                      ..+-   +..    .-..++-++.++-++...++++..
T Consensus       182 d~lE~LEKRVKSRFshr~I~m~~~~~l~~yv~l~r~ll  219 (408)
T KOG2228|consen  182 DILELLEKRVKSRFSHRVIFMLPSLPLGDYVDLYRKLL  219 (408)
T ss_pred             cHHHHHHHHHHhhcccceeeccCCCChHHHHHHHHHHh
Confidence            5322   122    123466777888888888888754

>KOG1514 consensus Origin recognition complex, subunit 1, and related proteins [Replication, recombination and repair]

Probab=95.99  E-value=0.027  Score=57.28  Aligned_cols=154  Identities=13%  Similarity=0.104  Sum_probs=87.6

Q ss_pred             CceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChH------------------------HH
Q 038234           75 SEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDF------------------------RV  130 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~------------------------~~  130 (406)
                      ..+-+|+.+..+|.+.+...-.. ......+-|.|.+|+|||..+..|.+....                        ++
T Consensus       396 ~sLpcRe~E~~~I~~f~~~~i~~-~~~g~~mYIsGvPGtGKT~tV~~Vm~~Lq~~s~~~e~p~f~yveINgm~l~~~~~~  474 (767)
T KOG1514|consen  396 ESLPCRENEFSEIEDFLRSFISD-QGLGSCMYISGVPGTGKTATVLEVMKELQTSSAQKELPKFDYVEINGLRLASPREI  474 (767)
T ss_pred             ccccchhHHHHHHHHHHHhhcCC-CCCceeEEEecCCCCCceehHHHHHHHHHHHHhhcCCCCccEEEEcceeecCHHHH
Confidence            34668999999999888755432 234558899999999999999999885432                        67


Q ss_pred             HHHHHHHhcCCCCCCCCHHHHHHHHHhhc-----cCcceeEEeeCCCCcCccCcchhhhccCC-CCCCcEEEEecC-Ch-
Q 038234          131 AKAIIAALGCETSNLGSLQSLVRCISESI-----EGKKYLVVLDDVWTDDYTKWEPFQRCSAN-GQCGNNILVTTH-KK-  202 (406)
Q Consensus       131 ~~~i~~~l~~~~~~~~~~~~~~~~l~~~l-----~~kr~LlVlDdvw~~~~~~~~~l~~~l~~-~~~gs~IivTtR-~~-  202 (406)
                      +..||..+.+....   .......|..+.     +.+..++++|++..--...-+.+...+.| ..++|+++|.+= +- 
T Consensus       475 Y~~I~~~lsg~~~~---~~~al~~L~~~f~~~k~~~~~~VvLiDElD~Lvtr~QdVlYn~fdWpt~~~sKLvvi~IaNTm  551 (767)
T KOG1514|consen  475 YEKIWEALSGERVT---WDAALEALNFRFTVPKPKRSTTVVLIDELDILVTRSQDVLYNIFDWPTLKNSKLVVIAIANTM  551 (767)
T ss_pred             HHHHHHhcccCccc---HHHHHHHHHHhhccCCCCCCCEEEEeccHHHHhcccHHHHHHHhcCCcCCCCceEEEEecccc
Confidence            77788888665432   222223333333     24567888887722100111223334443 245666654332 21 


Q ss_pred             HHHH-Hhc-------cCCccccCCCChHHHHHhhhhhc
Q 038234          203 TVAR-MME-------STNFISIKELSTQECWSLFKQES  232 (406)
Q Consensus       203 ~v~~-~~~-------~~~~~~l~~L~~~~a~~Lf~~~~  232 (406)
                      ++.. .+.       ...-+...|-+.++-.++...+.
T Consensus       552 dlPEr~l~nrvsSRlg~tRi~F~pYth~qLq~Ii~~RL  589 (767)
T KOG1514|consen  552 DLPERLLMNRVSSRLGLTRICFQPYTHEQLQEIISARL  589 (767)
T ss_pred             cCHHHHhccchhhhccceeeecCCCCHHHHHHHHHHhh
Confidence            1111 111       02335566677777666655544

>COG4088 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=95.99  E-value=0.014  Score=50.63  Aligned_cols=26  Identities=27%  Similarity=0.354  Sum_probs=21.9

Q ss_pred             EEEEEeeeCCCcHHHHHHHHhcCChH
Q 038234          103 KMISIVGMGGIGKITLAQMAYNDKDF  128 (406)
Q Consensus       103 ~vi~I~G~gGiGKTtLA~~v~~~~~~  128 (406)
                      +.|.+.|.+|+||||+|+++.+..+.
T Consensus         2 pLiIlTGyPgsGKTtfakeLak~L~~   27 (261)
T COG4088           2 PLIILTGYPGSGKTTFAKELAKELRQ   27 (261)
T ss_pred             ceEEEecCCCCCchHHHHHHHHHHHH
Confidence            46789999999999999998876554

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

Probab=95.98  E-value=0.046  Score=51.98  Aligned_cols=40  Identities=18%  Similarity=0.149  Sum_probs=30.5

Q ss_pred             hhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhc
Q 038234           82 YKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus        82 ~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      .-.+.|.+.|....   .....+|+|.|.=|+|||++.+.+.+
T Consensus         3 ~~a~~la~~I~~~~---~~~~~~IgL~G~WGsGKSs~l~~l~~   42 (325)
T PF07693_consen    3 PYAKALAEIIKNPD---SDDPFVIGLYGEWGSGKSSFLNMLKE   42 (325)
T ss_pred             HHHHHHHHHHhccC---CCCCeEEEEECCCCCCHHHHHHHHHH
Confidence            34566777776542   36688999999999999999977754

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

>PRK04040 adenylate kinase; Provisional

Probab=95.94  E-value=0.0063  Score=53.09  Aligned_cols=25  Identities=28%  Similarity=0.562  Sum_probs=22.0

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      ..+|+|+|++|+||||+++.+.+..
T Consensus         2 ~~~i~v~G~pG~GKtt~~~~l~~~l   26 (188)
T PRK04040          2 MKVVVVTGVPGVGKTTVLNKALEKL   26 (188)
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHHHh
Confidence            4689999999999999999887665

>PF10443 RNA12: RNA12 protein; InterPro: IPR018850 Mitochondrial escape protein 2 (also known as RNA12) plays a role in maintaining the mitochondrial genome and in controlling mtDNA escape [, ]

Probab=95.91  E-value=0.086  Score=51.18  Aligned_cols=41  Identities=29%  Similarity=0.367  Sum_probs=33.5

Q ss_pred             chhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHH-HHHhcCC
Q 038234           80 RDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLA-QMAYNDK  126 (406)
Q Consensus        80 R~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA-~~v~~~~  126 (406)
                      |.+.+++|..||...      .-..|.|.|+-|.||+.|+ .++.++.
T Consensus         1 R~e~~~~L~~wL~e~------~~TFIvV~GPrGSGK~elV~d~~L~~r   42 (431)
T PF10443_consen    1 RKEAIEQLKSWLNEN------PNTFIVVQGPRGSGKRELVMDHVLKDR   42 (431)
T ss_pred             CchHHHHHHHHHhcC------CCeEEEEECCCCCCccHHHHHHHHhCC
Confidence            567789999999854      3569999999999999999 6666553

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 [].

>PTZ00088 adenylate kinase 1; Provisional

Probab=95.91  E-value=0.012  Score=52.97  Aligned_cols=26  Identities=27%  Similarity=0.468  Sum_probs=22.0

Q ss_pred             EEEEEeeeCCCcHHHHHHHHhcCChH
Q 038234          103 KMISIVGMGGIGKITLAQMAYNDKDF  128 (406)
Q Consensus       103 ~vi~I~G~gGiGKTtLA~~v~~~~~~  128 (406)
                      ..|.|.|++|+||||+|+.+.+.+..
T Consensus         7 mrIvl~G~PGsGK~T~a~~La~~~g~   32 (229)
T PTZ00088          7 LKIVLFGAPGVGKGTFAEILSKKENL   32 (229)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHhCC
Confidence            34899999999999999999877543

>COG3267 ExeA Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]

Probab=95.89  E-value=0.055  Score=48.64  Aligned_cols=133  Identities=14%  Similarity=0.225  Sum_probs=70.6

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhcCChH----------------HHHHHHHHHhcCCCCCC--CCHHHHHHHHHhhc-c
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYNDKDF----------------RVAKAIIAALGCETSNL--GSLQSLVRCISESI-E  160 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~----------------~~~~~i~~~l~~~~~~~--~~~~~~~~~l~~~l-~  160 (406)
                      ++-.++.++|.-|.|||.+.++.......                .+...+...+..+....  .-...+...+.... +
T Consensus        49 d~qg~~~vtGevGsGKTv~~Ral~~s~~~d~~~~v~i~~~~~s~~~~~~ai~~~l~~~p~~~~~~~~e~~~~~L~al~~~  128 (269)
T COG3267          49 DGQGILAVTGEVGSGKTVLRRALLASLNEDQVAVVVIDKPTLSDATLLEAIVADLESQPKVNVNAVLEQIDRELAALVKK  128 (269)
T ss_pred             cCCceEEEEecCCCchhHHHHHHHHhcCCCceEEEEecCcchhHHHHHHHHHHHhccCccchhHHHHHHHHHHHHHHHHh
Confidence            44669999999999999999854432211                45555555555422111  11222223333332 4


Q ss_pred             Ccc-eeEEeeCCCCcCccCcchhhhccC---CCCCCcEEEEecC--------ChHHHHHhccCCc-cccCCCChHHHHHh
Q 038234          161 GKK-YLVVLDDVWTDDYTKWEPFQRCSA---NGQCGNNILVTTH--------KKTVARMMESTNF-ISIKELSTQECWSL  227 (406)
Q Consensus       161 ~kr-~LlVlDdvw~~~~~~~~~l~~~l~---~~~~gs~IivTtR--------~~~v~~~~~~~~~-~~l~~L~~~~a~~L  227 (406)
                      ++| ..++.|+...-..+..+.++....   ....--+|+..-.        -......-....+ |++.|++.++...+
T Consensus       129 g~r~v~l~vdEah~L~~~~le~Lrll~nl~~~~~~~l~ivL~Gqp~L~~~lr~~~l~e~~~R~~ir~~l~P~~~~~t~~y  208 (269)
T COG3267         129 GKRPVVLMVDEAHDLNDSALEALRLLTNLEEDSSKLLSIVLIGQPKLRPRLRLPVLRELEQRIDIRIELPPLTEAETGLY  208 (269)
T ss_pred             CCCCeEEeehhHhhhChhHHHHHHHHHhhcccccCceeeeecCCcccchhhchHHHHhhhheEEEEEecCCcChHHHHHH
Confidence            677 899999996654444444433322   1111112333221        1112222122344 89999999977766


Q ss_pred             hhhhc
Q 038234          228 FKQES  232 (406)
Q Consensus       228 f~~~~  232 (406)
                      +....
T Consensus       209 l~~~L  213 (269)
T COG3267         209 LRHRL  213 (269)
T ss_pred             HHHHH
Confidence            65543

>KOG0651 consensus 26S proteasome regulatory complex, ATPase RPT4 [Posttranslational modification, protein turnover, chaperones]

Probab=95.89  E-value=0.0063  Score=55.94  Aligned_cols=71  Identities=24%  Similarity=0.286  Sum_probs=46.7

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhcCChHHHHHHHHHHhcCCCCCCCCHHHHHH-HHHhhccCcceeEEeeCCC
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYNDKDFRVAKAIIAALGCETSNLGSLQSLVR-CISESIEGKKYLVVLDDVW  172 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~-~l~~~l~~kr~LlVlDdvw  172 (406)
                      ..+..++|||++|.|||-+|+.|+....+.++......+....  ..+...+++ ..+..-...++.|.+||+.
T Consensus       164 k~Pkg~ll~GppGtGKTlla~~Vaa~mg~nfl~v~ss~lv~ky--iGEsaRlIRemf~yA~~~~pciifmdeiD  235 (388)
T KOG0651|consen  164 KPPKGLLLYGPPGTGKTLLARAVAATMGVNFLKVVSSALVDKY--IGESARLIRDMFRYAREVIPCIIFMDEID  235 (388)
T ss_pred             CCCceeEEeCCCCCchhHHHHHHHHhcCCceEEeeHhhhhhhh--cccHHHHHHHHHHHHhhhCceEEeehhhh
Confidence            4577899999999999999999999888766554444443221  122223333 2333333457999999983

>PRK10867 signal recognition particle protein; Provisional

Probab=95.88  E-value=0.029  Score=55.23  Aligned_cols=24  Identities=42%  Similarity=0.551  Sum_probs=19.4

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHh
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAY  123 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~  123 (406)
                      .++.+|.++|.+|+||||++..++
T Consensus        98 ~~p~vI~~vG~~GsGKTTtaakLA  121 (433)
T PRK10867         98 KPPTVIMMVGLQGAGKTTTAGKLA  121 (433)
T ss_pred             CCCEEEEEECCCCCcHHHHHHHHH
Confidence            447899999999999999665444

>TIGR00150 HI0065_YjeE ATPase, YjeE family

Probab=95.87  E-value=0.012  Score=48.06  Aligned_cols=41  Identities=17%  Similarity=0.071  Sum_probs=29.3

Q ss_pred             hhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234           82 YKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus        82 ~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      ++..++-+.|...-    .+..+|.+.|.-|+||||+++.+++..
T Consensus         6 ~~t~~l~~~l~~~l----~~~~~i~l~G~lGaGKTtl~~~l~~~l   46 (133)
T TIGR00150         6 KAMDKFGKAFAKPL----DFGTVVLLKGDLGAGKTTLVQGLLQGL   46 (133)
T ss_pred             HHHHHHHHHHHHhC----CCCCEEEEEcCCCCCHHHHHHHHHHHc
Confidence            34555555554321    235589999999999999999988764

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.

>cd03282 ABC_MSH4_euk MutS4 homolog in eukaryotes

Probab=95.86  E-value=0.019  Score=50.82  Aligned_cols=106  Identities=14%  Similarity=0.147  Sum_probs=55.5

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCCh--------------HHHHHHHHHHhcCCCCCCCCHHHHHH---HHHhh--ccCc
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDKD--------------FRVAKAIIAALGCETSNLGSLQSLVR---CISES--IEGK  162 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~~--------------~~~~~~i~~~l~~~~~~~~~~~~~~~---~l~~~--l~~k  162 (406)
                      .+++.|.|+.|.||||+.+.+..-.-              ..+...+...++..............   .+...  +..+
T Consensus        29 ~~~~~l~G~n~~GKstll~~i~~~~~la~~G~~vpa~~~~l~~~d~I~~~~~~~d~~~~~~S~fs~e~~~~~~il~~~~~  108 (204)
T cd03282          29 SRFHIITGPNMSGKSTYLKQIALLAIMAQIGCFVPAEYATLPIFNRLLSRLSNDDSMERNLSTFASEMSETAYILDYADG  108 (204)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHHHHcCCCcchhhcCccChhheeEecCCccccchhhhHHHHHHHHHHHHHHhcCC
Confidence            47899999999999999887743210              01222222222221111111111111   12222  2356


Q ss_pred             ceeEEeeCCCCcC-ccC----cchhhhccCCCCCCcEEEEecCChHHHHHhc
Q 038234          163 KYLVVLDDVWTDD-YTK----WEPFQRCSANGQCGNNILVTTHKKTVARMME  209 (406)
Q Consensus       163 r~LlVlDdvw~~~-~~~----~~~l~~~l~~~~~gs~IivTtR~~~v~~~~~  209 (406)
                      +-|++||..-... ..+    ...+...+..  .|+.+|++|.+..++....
T Consensus       109 ~~lvllDE~~~gt~~~~~~~l~~~il~~l~~--~~~~~i~~TH~~~l~~~~~  158 (204)
T cd03282         109 DSLVLIDELGRGTSSADGFAISLAILECLIK--KESTVFFATHFRDIAAILG  158 (204)
T ss_pred             CcEEEeccccCCCCHHHHHHHHHHHHHHHHh--cCCEEEEECChHHHHHHhh
Confidence            7899999974321 111    1112222222  2779999999998887654

The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal domain with a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding c

>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily

Probab=95.85  E-value=0.0059  Score=53.05  Aligned_cols=24  Identities=38%  Similarity=0.362  Sum_probs=21.4

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ..+|.|+|++|+||||+|+.+.+.
T Consensus         3 ~~ii~i~G~~GsGKsTl~~~l~~~   26 (188)
T TIGR01360         3 CKIIFIVGGPGSGKGTQCEKIVEK   26 (188)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHH
Confidence            678999999999999999988754

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.

>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional

Probab=95.85  E-value=0.01  Score=62.55  Aligned_cols=48  Identities=25%  Similarity=0.271  Sum_probs=37.5

Q ss_pred             CceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234           75 SEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      ..++|+...+..+.+.+..-.    ....-|.|+|..|+|||++|+.+++..
T Consensus       376 ~~liG~S~~~~~~~~~~~~~a----~~~~pVLI~GE~GTGK~~lA~~ih~~s  423 (686)
T PRK15429        376 GEIIGRSEAMYSVLKQVEMVA----QSDSTVLILGETGTGKELIARAIHNLS  423 (686)
T ss_pred             cceeecCHHHHHHHHHHHHHh----CCCCCEEEECCCCcCHHHHHHHHHHhc
Confidence            358999998888877776432    223468899999999999999998743

>PRK05342 clpX ATP-dependent protease ATP-binding subunit ClpX; Provisional

Probab=95.84  E-value=0.017  Score=56.72  Aligned_cols=53  Identities=25%  Similarity=0.248  Sum_probs=35.3

Q ss_pred             CceecchhhHHHHHHHHh-------cCCC---CCCCCcEEEEEeeeCCCcHHHHHHHHhcCCh
Q 038234           75 SEICGRDYKKNELLSKLL-------SDSS---DQQKPIKMISIVGMGGIGKITLAQMAYNDKD  127 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~-------~~~~---~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~  127 (406)
                      ..++|.+..++.+...+.       ....   +-.-....+.++|++|+|||+||+.+++...
T Consensus        71 ~~ViGq~~ak~~l~~av~~~~~r~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~lAr~lA~~l~  133 (412)
T PRK05342         71 QYVIGQERAKKVLSVAVYNHYKRLRHGDKKDDDVELQKSNILLIGPTGSGKTLLAQTLARILD  133 (412)
T ss_pred             hHeeChHHHHHHHHHHHHHHHHhhhcccccccccccCCceEEEEcCCCCCHHHHHHHHHHHhC
Confidence            358999988887754442       1100   0011235689999999999999999986543

>KOG2170 consensus ATPase of the AAA+ superfamily [General function prediction only]

Probab=95.83  E-value=0.019  Score=52.73  Aligned_cols=110  Identities=14%  Similarity=0.175  Sum_probs=65.9

Q ss_pred             ceecchhhHHHHHHHHhcCC-CCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChH-----HHHHHHHHHhcCCCCCCCCHH
Q 038234           76 EICGRDYKKNELLSKLLSDS-SDQQKPIKMISIVGMGGIGKITLAQMAYNDKDF-----RVAKAIIAALGCETSNLGSLQ  149 (406)
Q Consensus        76 ~~vGR~~~~~~l~~~L~~~~-~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~-----~~~~~i~~~l~~~~~~~~~~~  149 (406)
                      .++|..-..+.++..+...- .+....+-+++.+|.+|+||.-.++.+++....     .+...+....  ..+.....+
T Consensus        83 ~lfGQHla~~~Vv~alk~~~~n~~p~KPLvLSfHG~tGTGKN~Va~iiA~n~~~~Gl~S~~V~~fvat~--hFP~~~~ie  160 (344)
T KOG2170|consen   83 ALFGQHLAKQLVVNALKSHWANPNPRKPLVLSFHGWTGTGKNYVAEIIAENLYRGGLRSPFVHHFVATL--HFPHASKIE  160 (344)
T ss_pred             HhhchHHHHHHHHHHHHHHhcCCCCCCCeEEEecCCCCCchhHHHHHHHHHHHhccccchhHHHhhhhc--cCCChHHHH
Confidence            45665555555555554321 112456779999999999999998888776443     2222222211  233344444


Q ss_pred             HHHHHHHhhcc-----CcceeEEeeCCCCcCccCcchhhhccC
Q 038234          150 SLVRCISESIE-----GKKYLVVLDDVWTDDYTKWEPFQRCSA  187 (406)
Q Consensus       150 ~~~~~l~~~l~-----~kr~LlVlDdvw~~~~~~~~~l~~~l~  187 (406)
                      .-..+|++++.     -+|.|+|+|++......-.+.+...+.
T Consensus       161 ~Yk~eL~~~v~~~v~~C~rslFIFDE~DKmp~gLld~lkpfLd  203 (344)
T KOG2170|consen  161 DYKEELKNRVRGTVQACQRSLFIFDEVDKLPPGLLDVLKPFLD  203 (344)
T ss_pred             HHHHHHHHHHHHHHHhcCCceEEechhhhcCHhHHHHHhhhhc
Confidence            44455555543     378999999997666555566666554

>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=95.81  E-value=0.027  Score=47.98  Aligned_cols=103  Identities=15%  Similarity=0.096  Sum_probs=54.2

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCChH--------------------HH-HHHHHHHhcC-CCCCCCCHHHHHHHHHhhc
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDKDF--------------------RV-AKAIIAALGC-ETSNLGSLQSLVRCISESI  159 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~~~--------------------~~-~~~i~~~l~~-~~~~~~~~~~~~~~l~~~l  159 (406)
                      -.+++|+|..|.|||||++.+......                    .+ ...+.+.+.. .......-+...-.+.+.+
T Consensus        27 Ge~~~i~G~nGsGKSTLl~~l~G~~~~~~G~i~~~~~~~i~~~~q~~~~~~~tv~~nl~~~~~~~LS~G~~~rv~laral  106 (166)
T cd03223          27 GDRLLITGPSGTGKSSLFRALAGLWPWGSGRIGMPEGEDLLFLPQRPYLPLGTLREQLIYPWDDVLSGGEQQRLAFARLL  106 (166)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCCCCCCceEEECCCceEEEECCCCccccccHHHHhhccCCCCCCHHHHHHHHHHHHH
Confidence            558999999999999999998876432                    00 0011111110 0111111122222345556


Q ss_pred             cCcceeEEeeCCCCc-CccCcchhhhccCCCCCCcEEEEecCChHHHH
Q 038234          160 EGKKYLVVLDDVWTD-DYTKWEPFQRCSANGQCGNNILVTTHKKTVAR  206 (406)
Q Consensus       160 ~~kr~LlVlDdvw~~-~~~~~~~l~~~l~~~~~gs~IivTtR~~~v~~  206 (406)
                      -.++-+++||+.-.. |......+...+...  +..||++|.+.....
T Consensus       107 ~~~p~~lllDEPt~~LD~~~~~~l~~~l~~~--~~tiiivsh~~~~~~  152 (166)
T cd03223         107 LHKPKFVFLDEATSALDEESEDRLYQLLKEL--GITVISVGHRPSLWK  152 (166)
T ss_pred             HcCCCEEEEECCccccCHHHHHHHHHHHHHh--CCEEEEEeCChhHHh
Confidence            667889999976321 111222233333322  356888888766543

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

>PRK12723 flagellar biosynthesis regulator FlhF; Provisional

Probab=95.81  E-value=0.029  Score=54.52  Aligned_cols=71  Identities=20%  Similarity=0.230  Sum_probs=42.6

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHhcCCh---------H-------------HHHHHHHHHhcCCCCCCCCHHHHHHHHHhh
Q 038234          101 PIKMISIVGMGGIGKITLAQMAYNDKD---------F-------------RVAKAIIAALGCETSNLGSLQSLVRCISES  158 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~~~~~---------~-------------~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~  158 (406)
                      ...+|.++|..|+||||.+..++....         +             ..++.....++.......+.+.+...+.+.
T Consensus       173 ~~~vi~lvGptGvGKTTT~aKLA~~~~~~~~~~g~~V~lit~Dt~R~aa~eQL~~~a~~lgvpv~~~~~~~~l~~~L~~~  252 (388)
T PRK12723        173 KKRVFILVGPTGVGKTTTIAKLAAIYGINSDDKSLNIKIITIDNYRIGAKKQIQTYGDIMGIPVKAIESFKDLKEEITQS  252 (388)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHhhhccCCCeEEEEeccCccHHHHHHHHHHhhcCCcceEeeCcHHHHHHHHHHh
Confidence            467999999999999998876654321         1             223333333433322334445555555543


Q ss_pred             ccCcceeEEeeCCCC
Q 038234          159 IEGKKYLVVLDDVWT  173 (406)
Q Consensus       159 l~~kr~LlVlDdvw~  173 (406)
                        .+.-++++|..-.
T Consensus       253 --~~~DlVLIDTaGr  265 (388)
T PRK12723        253 --KDFDLVLVDTIGK  265 (388)
T ss_pred             --CCCCEEEEcCCCC
Confidence              3456888898744

>PRK00131 aroK shikimate kinase; Reviewed

Probab=95.80  E-value=0.0068  Score=51.85  Aligned_cols=26  Identities=23%  Similarity=0.326  Sum_probs=22.7

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCCh
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDKD  127 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~~  127 (406)
                      ...|.|+|++|+||||+|+.+++...
T Consensus         4 ~~~i~l~G~~GsGKstla~~La~~l~   29 (175)
T PRK00131          4 GPNIVLIGFMGAGKSTIGRLLAKRLG   29 (175)
T ss_pred             CCeEEEEcCCCCCHHHHHHHHHHHhC
Confidence            45899999999999999999988654

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

Probab=95.79  E-value=0.026  Score=51.23  Aligned_cols=109  Identities=17%  Similarity=0.159  Sum_probs=64.3

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCChH---------------------HHHHHHHHHhcCCCC------CCCCHHHH-HH
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDKDF---------------------RVAKAIIAALGCETS------NLGSLQSL-VR  153 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~~~---------------------~~~~~i~~~l~~~~~------~~~~~~~~-~~  153 (406)
                      ..+++|+|.+|.|||||++.+..-...                     +...+++..++....      ..-+-.+. .-
T Consensus        39 ge~~glVGESG~GKSTlgr~i~~L~~pt~G~i~f~g~~i~~~~~~~~~~~v~elL~~Vgl~~~~~~ryPhelSGGQrQRi  118 (268)
T COG4608          39 GETLGLVGESGCGKSTLGRLILGLEEPTSGEILFEGKDITKLSKEERRERVLELLEKVGLPEEFLYRYPHELSGGQRQRI  118 (268)
T ss_pred             CCEEEEEecCCCCHHHHHHHHHcCcCCCCceEEEcCcchhhcchhHHHHHHHHHHHHhCCCHHHhhcCCcccCchhhhhH
Confidence            558999999999999999999875442                     233445555543221      11111122 22


Q ss_pred             HHHhhccCcceeEEeeCCCCcCccCc-chhhhccCC--CCCCcEEEEecCChHHHHHhcc
Q 038234          154 CISESIEGKKYLVVLDDVWTDDYTKW-EPFQRCSAN--GQCGNNILVTTHKKTVARMMES  210 (406)
Q Consensus       154 ~l~~~l~~kr~LlVlDdvw~~~~~~~-~~l~~~l~~--~~~gs~IivTtR~~~v~~~~~~  210 (406)
                      .+.+.|.-++-|+|.|..-+.-.... .++...+.+  ...|-..+..|.+-.++..++.
T Consensus       119 ~IARALal~P~liV~DEpvSaLDvSiqaqIlnLL~dlq~~~~lt~lFIsHDL~vv~~isd  178 (268)
T COG4608         119 GIARALALNPKLIVADEPVSALDVSVQAQILNLLKDLQEELGLTYLFISHDLSVVRYISD  178 (268)
T ss_pred             HHHHHHhhCCcEEEecCchhhcchhHHHHHHHHHHHHHHHhCCeEEEEEEEHHhhhhhcc
Confidence            46677888999999998744321111 223232221  2235677888888777776543

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

Probab=95.77  E-value=0.02  Score=56.39  Aligned_cols=90  Identities=17%  Similarity=0.235  Sum_probs=55.7

Q ss_pred             ceecchh---hHHHHHHHHhcCCC---CCCCCcEEEEEeeeCCCcHHHHHHHHhcCChHHHH-------HHHHHHhcCCC
Q 038234           76 EICGRDY---KKNELLSKLLSDSS---DQQKPIKMISIVGMGGIGKITLAQMAYNDKDFRVA-------KAIIAALGCET  142 (406)
Q Consensus        76 ~~vGR~~---~~~~l~~~L~~~~~---~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~-------~~i~~~l~~~~  142 (406)
                      ++-|-|+   |++++++.|..+..   -+..-++-|.++|++|.|||-||++++-...+-|+       .+++...+   
T Consensus       305 dVkG~DEAK~ELeEiVefLkdP~kftrLGGKLPKGVLLvGPPGTGKTlLARAvAGEA~VPFF~~sGSEFdEm~VGvG---  381 (752)
T KOG0734|consen  305 DVKGVDEAKQELEEIVEFLKDPTKFTRLGGKLPKGVLLVGPPGTGKTLLARAVAGEAGVPFFYASGSEFDEMFVGVG---  381 (752)
T ss_pred             cccChHHHHHHHHHHHHHhcCcHHhhhccCcCCCceEEeCCCCCchhHHHHHhhcccCCCeEeccccchhhhhhccc---
Confidence            4556665   67777888865421   12344677899999999999999999988766332       11111111   


Q ss_pred             CCCCCHHHHHHHHHhhccCcceeEEeeCCCC
Q 038234          143 SNLGSLQSLVRCISESIEGKKYLVVLDDVWT  173 (406)
Q Consensus       143 ~~~~~~~~~~~~l~~~l~~kr~LlVlDdvw~  173 (406)
                           ...+.+.....-..-+++|++|.+..
T Consensus       382 -----ArRVRdLF~aAk~~APcIIFIDEiDa  407 (752)
T KOG0734|consen  382 -----ARRVRDLFAAAKARAPCIIFIDEIDA  407 (752)
T ss_pred             -----HHHHHHHHHHHHhcCCeEEEEechhh
Confidence                 12222233333345689999998853

>KOG0058 consensus Peptide exporter, ABC superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=95.77  E-value=0.012  Score=60.24  Aligned_cols=28  Identities=32%  Similarity=0.528  Sum_probs=22.8

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhcCCh
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYNDKD  127 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~  127 (406)
                      ++..++++||++|.||||+|..+-+-+.
T Consensus       492 ~pGe~vALVGPSGsGKSTiasLL~rfY~  519 (716)
T KOG0058|consen  492 RPGEVVALVGPSGSGKSTIASLLLRFYD  519 (716)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHHhcC
Confidence            4466999999999999999977766543

>cd03216 ABC_Carb_Monos_I This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=95.76  E-value=0.015  Score=49.49  Aligned_cols=104  Identities=14%  Similarity=0.145  Sum_probs=55.2

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCChH----------HHH----HHHHH-HhcCCCCCCCCHHHHHHHHHhhccCcceeE
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDKDF----------RVA----KAIIA-ALGCETSNLGSLQSLVRCISESIEGKKYLV  166 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~~~----------~~~----~~i~~-~l~~~~~~~~~~~~~~~~l~~~l~~kr~Ll  166 (406)
                      ..+++|.|..|.|||||.+.++.....          .+.    ..... .++ -..+...-+...-.+.+.+-.++-++
T Consensus        26 Ge~~~l~G~nGsGKSTLl~~i~G~~~~~~G~v~~~g~~~~~~~~~~~~~~~i~-~~~qLS~G~~qrl~laral~~~p~il  104 (163)
T cd03216          26 GEVHALLGENGAGKSTLMKILSGLYKPDSGEILVDGKEVSFASPRDARRAGIA-MVYQLSVGERQMVEIARALARNARLL  104 (163)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCCCCCeEEEECCEECCcCCHHHHHhcCeE-EEEecCHHHHHHHHHHHHHhcCCCEE
Confidence            458999999999999999999865432          000    00000 000 00001111222223555666788899


Q ss_pred             EeeCCCCc-CccCcchhhhccCCC-CCCcEEEEecCChHHHH
Q 038234          167 VLDDVWTD-DYTKWEPFQRCSANG-QCGNNILVTTHKKTVAR  206 (406)
Q Consensus       167 VlDdvw~~-~~~~~~~l~~~l~~~-~~gs~IivTtR~~~v~~  206 (406)
                      ++|+.-.. |......+...+... ..|..||++|.+.....
T Consensus       105 llDEP~~~LD~~~~~~l~~~l~~~~~~~~tiii~sh~~~~~~  146 (163)
T cd03216         105 ILDEPTAALTPAEVERLFKVIRRLRAQGVAVIFISHRLDEVF  146 (163)
T ss_pred             EEECCCcCCCHHHHHHHHHHHHHHHHCCCEEEEEeCCHHHHH
Confidence            99987321 112222333333221 23667888888866443

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.

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

Probab=95.76  E-value=0.022  Score=53.85  Aligned_cols=74  Identities=23%  Similarity=0.242  Sum_probs=44.7

Q ss_pred             CCCcEEEEEeeeCCCcHHHHHHHHhcCChH------------HHHHHHHHHhcCCC-----CCCCCHHHHHHHHHhhcc-
Q 038234           99 QKPIKMISIVGMGGIGKITLAQMAYNDKDF------------RVAKAIIAALGCET-----SNLGSLQSLVRCISESIE-  160 (406)
Q Consensus        99 ~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~------------~~~~~i~~~l~~~~-----~~~~~~~~~~~~l~~~l~-  160 (406)
                      =+.-+++-|+|++|+||||||.+++.....            .+....+..++...     ..+.+.++....+...++ 
T Consensus        52 lp~G~iteI~Gp~GsGKTtLal~~~~~~~~~g~~~vyId~E~~~~~~~a~~lGvd~~~l~v~~p~~~eq~l~i~~~li~s  131 (325)
T cd00983          52 YPKGRIIEIYGPESSGKTTLALHAIAEAQKLGGTVAFIDAEHALDPVYAKKLGVDLDNLLISQPDTGEQALEIADSLVRS  131 (325)
T ss_pred             ccCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCCEEEECccccHHHHHHHHcCCCHHHheecCCCCHHHHHHHHHHHHhc
Confidence            355789999999999999999876643211            22233444443321     123344555555555443 


Q ss_pred             CcceeEEeeCCC
Q 038234          161 GKKYLVVLDDVW  172 (406)
Q Consensus       161 ~kr~LlVlDdvw  172 (406)
                      +..-|+|+|-+-
T Consensus       132 ~~~~lIVIDSva  143 (325)
T cd00983         132 GAVDLIVVDSVA  143 (325)
T ss_pred             cCCCEEEEcchH
Confidence            456699999873

RecA couples ATP hydrolysis to DNA strand exchange.

>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=95.75  E-value=0.0076  Score=49.63  Aligned_cols=21  Identities=38%  Similarity=0.409  Sum_probs=18.6

Q ss_pred             EEEeeeCCCcHHHHHHHHhcC
Q 038234          105 ISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       105 i~I~G~gGiGKTtLA~~v~~~  125 (406)
                      |.++|.+|+|||+||+.+++.
T Consensus         2 vlL~G~~G~GKt~l~~~la~~   22 (139)
T PF07728_consen    2 VLLVGPPGTGKTTLARELAAL   22 (139)
T ss_dssp             EEEEESSSSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            679999999999999988754

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.

>cd03369 ABCC_NFT1 Domain 2 of NFT1 (New full-length MRP-type transporter 1)

Probab=95.73  E-value=0.044  Score=48.50  Aligned_cols=25  Identities=36%  Similarity=0.376  Sum_probs=21.6

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          101 PIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      +..+++|.|..|.|||||.+.+...
T Consensus        33 ~G~~~~i~G~nGsGKSTLl~~l~Gl   57 (207)
T cd03369          33 AGEKIGIVGRTGAGKSTLILALFRF   57 (207)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcc
Confidence            3558999999999999999988754

NFT1 belongs to the MRP (mulrtidrug resisitance-associated protein) family of ABC transporters. Some of the MRP members have five additional transmembrane segments in their N-terminas, but the function of these additional membrane-spanning domains is not clear. The MRP was found in the multidrug-resisting lung cancer cell in which p-glycoprotein was not overexpressed. MRP exports glutathione by drug stimulation, as well as, certain substrates in conjugated forms with anions such as glutathione, glucuronate, and sulfate.

>PRK00889 adenylylsulfate kinase; Provisional

Probab=95.72  E-value=0.0092  Score=51.33  Aligned_cols=25  Identities=24%  Similarity=0.327  Sum_probs=21.7

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          101 PIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      +..+|.|+|++|+||||+|+.+...
T Consensus         3 ~g~~i~~~G~~GsGKST~a~~la~~   27 (175)
T PRK00889          3 RGVTVWFTGLSGAGKTTIARALAEK   27 (175)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHH
Confidence            3569999999999999999987764

>PRK00625 shikimate kinase; Provisional

Probab=95.72  E-value=0.0062  Score=52.31  Aligned_cols=24  Identities=17%  Similarity=0.253  Sum_probs=20.8

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcCCh
Q 038234          104 MISIVGMGGIGKITLAQMAYNDKD  127 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~~~  127 (406)
                      .|.++||+|+||||+++.+.+...
T Consensus         2 ~I~LiG~pGsGKTT~~k~La~~l~   25 (173)
T PRK00625          2 QIFLCGLPTVGKTSFGKALAKFLS   25 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            478999999999999999977643

>PRK09270 nucleoside triphosphate hydrolase domain-containing protein; Reviewed

Probab=95.71  E-value=0.014  Score=52.56  Aligned_cols=27  Identities=30%  Similarity=0.354  Sum_probs=23.0

Q ss_pred             CCCcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234           99 QKPIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus        99 ~~~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      .++..+++|.|..|.|||||++.+...
T Consensus        30 ~~~~~iigi~G~~GsGKTTl~~~L~~~   56 (229)
T PRK09270         30 PQRRTIVGIAGPPGAGKSTLAEFLEAL   56 (229)
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            456889999999999999999887644

>cd03246 ABCC_Protease_Secretion This family represents the ABC component of the protease secretion system PrtD, a 60-kDa integral membrane protein sharing 37% identity with HlyB, the ABC component of the alpha-hemolysin secretion pathway, in the C-terminal domain

Probab=95.71  E-value=0.023  Score=48.84  Aligned_cols=25  Identities=32%  Similarity=0.407  Sum_probs=21.8

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      ..+++|+|..|.|||||.+.+....
T Consensus        28 Ge~~~i~G~nGsGKStLl~~l~G~~   52 (173)
T cd03246          28 GESLAIIGPSGSGKSTLARLILGLL   52 (173)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhcc
Confidence            4589999999999999999988653

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

>PRK14974 cell division protein FtsY; Provisional

Probab=95.71  E-value=0.036  Score=52.83  Aligned_cols=24  Identities=29%  Similarity=0.306  Sum_probs=19.8

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHhc
Q 038234          101 PIKMISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      +..+|.++|++|+||||++..++.
T Consensus       139 ~~~vi~~~G~~GvGKTTtiakLA~  162 (336)
T PRK14974        139 KPVVIVFVGVNGTGKTTTIAKLAY  162 (336)
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHH
Confidence            468999999999999996655554

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

Probab=95.71  E-value=0.014  Score=48.88  Aligned_cols=23  Identities=30%  Similarity=0.459  Sum_probs=19.7

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcCC
Q 038234          104 MISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      +|.|+|.+|+||||||+.+....
T Consensus         1 ~i~i~G~~GsGKSTla~~L~~~l   23 (149)
T cd02027           1 VIWLTGLSGSGKSTIARALEEKL   23 (149)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHH
Confidence            47899999999999998876654

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

>TIGR02012 tigrfam_recA protein RecA

Probab=95.70  E-value=0.025  Score=53.42  Aligned_cols=74  Identities=22%  Similarity=0.236  Sum_probs=44.6

Q ss_pred             CCCcEEEEEeeeCCCcHHHHHHHHhcCChH------------HHHHHHHHHhcCCC-----CCCCCHHHHHHHHHhhcc-
Q 038234           99 QKPIKMISIVGMGGIGKITLAQMAYNDKDF------------RVAKAIIAALGCET-----SNLGSLQSLVRCISESIE-  160 (406)
Q Consensus        99 ~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~------------~~~~~i~~~l~~~~-----~~~~~~~~~~~~l~~~l~-  160 (406)
                      =+.-+++-|+|++|+||||||.++......            .+....+..++...     ..+...++....+...++ 
T Consensus        52 lp~G~iteI~G~~GsGKTtLaL~~~~~~~~~g~~v~yId~E~~~~~~~a~~lGvd~~~l~v~~p~~~eq~l~~~~~li~~  131 (321)
T TIGR02012        52 LPRGRIIEIYGPESSGKTTLALHAIAEAQKAGGTAAFIDAEHALDPVYARKLGVDIDNLLVSQPDTGEQALEIAETLVRS  131 (321)
T ss_pred             CcCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEcccchhHHHHHHHcCCCHHHeEEecCCCHHHHHHHHHHHhhc
Confidence            355789999999999999998776543211            22223344443321     122344555555544443 


Q ss_pred             CcceeEEeeCCC
Q 038234          161 GKKYLVVLDDVW  172 (406)
Q Consensus       161 ~kr~LlVlDdvw  172 (406)
                      +..-++|+|.+-
T Consensus       132 ~~~~lIVIDSv~  143 (321)
T TIGR02012       132 GAVDIIVVDSVA  143 (321)
T ss_pred             cCCcEEEEcchh
Confidence            456799999873

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.

>PRK05439 pantothenate kinase; Provisional

Probab=95.70  E-value=0.014  Score=54.84  Aligned_cols=26  Identities=35%  Similarity=0.353  Sum_probs=22.4

Q ss_pred             CCCcEEEEEeeeCCCcHHHHHHHHhc
Q 038234           99 QKPIKMISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus        99 ~~~~~vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      ....-+|+|.|.+|+||||+|+.+..
T Consensus        83 ~~~~~iIgIaG~~gsGKSTla~~L~~  108 (311)
T PRK05439         83 QKVPFIIGIAGSVAVGKSTTARLLQA  108 (311)
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHH
Confidence            45678999999999999999987654

>PF08298 AAA_PrkA: PrkA AAA domain; InterPro: IPR013153 This is entry is found at the N terminus of PrkA proteins - bacterial and archaeal serine kinases approximately 630 residues in length

Probab=95.70  E-value=0.012  Score=55.61  Aligned_cols=51  Identities=20%  Similarity=0.302  Sum_probs=43.5

Q ss_pred             CceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234           75 SEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ..|+|.++.++++++.+...+......-+++-++|+.|.||||||..+-+-
T Consensus        61 ~~~~G~~~~i~~lV~~fk~AA~g~~~~krIl~L~GPvg~GKSsl~~~Lk~~  111 (358)
T PF08298_consen   61 DEFYGMEETIERLVNYFKSAAQGLEERKRILLLLGPVGGGKSSLAELLKRG  111 (358)
T ss_pred             ccccCcHHHHHHHHHHHHHHHhccCccceEEEEECCCCCCHHHHHHHHHHH
Confidence            479999999999999998765544677889999999999999999877554

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

>TIGR00554 panK_bact pantothenate kinase, bacterial type

Probab=95.69  E-value=0.016  Score=53.92  Aligned_cols=24  Identities=38%  Similarity=0.396  Sum_probs=20.6

Q ss_pred             CCCcEEEEEeeeCCCcHHHHHHHH
Q 038234           99 QKPIKMISIVGMGGIGKITLAQMA  122 (406)
Q Consensus        99 ~~~~~vi~I~G~gGiGKTtLA~~v  122 (406)
                      .....+|+|.|..|+||||+|+.+
T Consensus        59 ~~~p~IIGIaG~~GSGKSTlar~L   82 (290)
T TIGR00554        59 AKIPYIISIAGSVAVGKSTTARIL   82 (290)
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHH
Confidence            345789999999999999999765

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.

>PRK13657 cyclic beta-1,2-glucan ABC transporter; Provisional

Probab=95.68  E-value=0.016  Score=60.13  Aligned_cols=26  Identities=35%  Similarity=0.423  Sum_probs=22.3

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          101 PIKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      +...++|+|..|.|||||++.+....
T Consensus       360 ~G~~v~IvG~sGsGKSTLl~lL~gl~  385 (588)
T PRK13657        360 PGQTVAIVGPTGAGKSTLINLLQRVF  385 (588)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCc
Confidence            45689999999999999999887654

>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=95.67  E-value=0.019  Score=51.93  Aligned_cols=39  Identities=31%  Similarity=0.441  Sum_probs=28.3

Q ss_pred             hHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234           83 KKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus        83 ~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      +..++++.+...    ..+..+|+|.|.||+||+||...+...
T Consensus        14 ~~~~ll~~l~~~----~g~a~~iGiTG~PGaGKSTli~~l~~~   52 (266)
T PF03308_consen   14 EARELLKRLYPH----TGRAHVIGITGPPGAGKSTLIDALIRE   52 (266)
T ss_dssp             HHHHHHHHHGGG----TT-SEEEEEEE-TTSSHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhh----cCCceEEEeeCCCCCcHHHHHHHHHHH
Confidence            456677777654    356789999999999999998765443

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.

>TIGR00382 clpX endopeptidase Clp ATP-binding regulatory subunit (clpX)

Probab=95.67  E-value=0.033  Score=54.45  Aligned_cols=53  Identities=21%  Similarity=0.237  Sum_probs=36.0

Q ss_pred             CceecchhhHHHHHHHHh-------cC-CCCCCC----CcEEEEEeeeCCCcHHHHHHHHhcCCh
Q 038234           75 SEICGRDYKKNELLSKLL-------SD-SSDQQK----PIKMISIVGMGGIGKITLAQMAYNDKD  127 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~-------~~-~~~~~~----~~~vi~I~G~gGiGKTtLA~~v~~~~~  127 (406)
                      ..++|.++.++.+...+.       .. ....++    ....+.++|++|+|||+||+.++....
T Consensus        77 ~~ViGQe~A~~~l~~av~~h~~~~~~~~~~~~~~~~~~~~~~iLL~GP~GsGKT~lAraLA~~l~  141 (413)
T TIGR00382        77 EYVIGQEQAKKVLSVAVYNHYKRLNFEKNKKSDNGVELSKSNILLIGPTGSGKTLLAQTLARILN  141 (413)
T ss_pred             ceecCHHHHHHHHHHHHHHHHhhhccccccccccccccCCceEEEECCCCcCHHHHHHHHHHhcC
Confidence            467899988888765541       10 000001    135789999999999999999986543

A member of the ATP-dependent proteases, ClpX has ATP-dependent chaperone activity and is required for specific ATP-dependent proteolytic activities expressed by ClpPX. The gene is also found to be involved in stress tolerance in Bacillus subtilis and is essential for the efficient acquisition of genes specifying type IA and IB restriction.

>cd03221 ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth

Probab=95.66  E-value=0.034  Score=46.23  Aligned_cols=103  Identities=17%  Similarity=0.228  Sum_probs=54.5

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCChHH---HHHHHHHHhcCCCCCCCCHHHHHHHHHhhccCcceeEEeeCCCCc-Ccc
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDKDFR---VAKAIIAALGCETSNLGSLQSLVRCISESIEGKKYLVVLDDVWTD-DYT  177 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~---~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdvw~~-~~~  177 (406)
                      ..+++|+|..|.|||||++.+.......   +.-.--..+. -.+....-+...-.+.+.+-.++-++++|+.-.. |..
T Consensus        26 Ge~~~i~G~nGsGKStLl~~l~G~~~~~~G~i~~~~~~~i~-~~~~lS~G~~~rv~laral~~~p~illlDEP~~~LD~~  104 (144)
T cd03221          26 GDRIGLVGRNGAGKSTLLKLIAGELEPDEGIVTWGSTVKIG-YFEQLSGGEKMRLALAKLLLENPNLLLLDEPTNHLDLE  104 (144)
T ss_pred             CCEEEEECCCCCCHHHHHHHHcCCCCCCceEEEECCeEEEE-EEccCCHHHHHHHHHHHHHhcCCCEEEEeCCccCCCHH
Confidence            4589999999999999999988764320   0000000000 0001111122223355666678889999987321 112


Q ss_pred             CcchhhhccCCCCCCcEEEEecCChHHHHH
Q 038234          178 KWEPFQRCSANGQCGNNILVTTHKKTVARM  207 (406)
Q Consensus       178 ~~~~l~~~l~~~~~gs~IivTtR~~~v~~~  207 (406)
                      ....+...+...  +..||++|.+...+..
T Consensus       105 ~~~~l~~~l~~~--~~til~~th~~~~~~~  132 (144)
T cd03221         105 SIEALEEALKEY--PGTVILVSHDRYFLDQ  132 (144)
T ss_pred             HHHHHHHHHHHc--CCEEEEEECCHHHHHH
Confidence            223333333322  2467888877655543

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.

>TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family

Probab=95.66  E-value=0.0061  Score=52.82  Aligned_cols=24  Identities=21%  Similarity=0.227  Sum_probs=21.1

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcCCh
Q 038234          104 MISIVGMGGIGKITLAQMAYNDKD  127 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~~~  127 (406)
                      +|.|+|++|+||||+|+.+.+...
T Consensus         1 ~i~i~G~pGsGKst~a~~la~~~~   24 (183)
T TIGR01359         1 VVFVLGGPGSGKGTQCAKIVENFG   24 (183)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHcC
Confidence            578999999999999999987654

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.

>TIGR02858 spore_III_AA stage III sporulation protein AA

Probab=95.65  E-value=0.043  Score=50.68  Aligned_cols=114  Identities=17%  Similarity=0.154  Sum_probs=63.4

Q ss_pred             hHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChH---------------HHHHHHHHHhcCCC-CC--
Q 038234           83 KKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDF---------------RVAKAIIAALGCET-SN--  144 (406)
Q Consensus        83 ~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~---------------~~~~~i~~~l~~~~-~~--  144 (406)
                      ..+.++..|..     +....-++|+|..|.|||||.+.+......               +-..++......-. ..  
T Consensus        97 ~~~~~l~~l~~-----~~~~~~~~i~g~~g~GKttl~~~l~~~~~~~~G~i~~~g~~v~~~d~~~ei~~~~~~~~q~~~~  171 (270)
T TIGR02858        97 AADKLLPYLVR-----NNRVLNTLIISPPQCGKTTLLRDLARILSTGISQLGLRGKKVGIVDERSEIAGCVNGVPQHDVG  171 (270)
T ss_pred             cHHHHHHHHHh-----CCCeeEEEEEcCCCCCHHHHHHHHhCccCCCCceEEECCEEeecchhHHHHHHHhccccccccc
Confidence            34555555553     233578999999999999999999876432               11233332221111 00  


Q ss_pred             -----CCCHHHHHHHHHhhc-cCcceeEEeeCCCCcCccCcchhhhccCCCCCCcEEEEecCChHHHHH
Q 038234          145 -----LGSLQSLVRCISESI-EGKKYLVVLDDVWTDDYTKWEPFQRCSANGQCGNNILVTTHKKTVARM  207 (406)
Q Consensus       145 -----~~~~~~~~~~l~~~l-~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTtR~~~v~~~  207 (406)
                           .++..... .+...+ ...+=++++|.+-.  ...+..+...+.   .|..||+||.+..+...
T Consensus       172 ~r~~v~~~~~k~~-~~~~~i~~~~P~villDE~~~--~e~~~~l~~~~~---~G~~vI~ttH~~~~~~~  234 (270)
T TIGR02858       172 IRTDVLDGCPKAE-GMMMLIRSMSPDVIVVDEIGR--EEDVEALLEALH---AGVSIIATAHGRDVEDL  234 (270)
T ss_pred             ccccccccchHHH-HHHHHHHhCCCCEEEEeCCCc--HHHHHHHHHHHh---CCCEEEEEechhHHHHH
Confidence                 01111111 122222 25788999999843  233444444442   47789999998666443

Members of this protein are the stage III sporulation protein AA, encoded by one of several genes in the spoIIIA locus. It seems that this protein is found in a species if and only if that species is capable of endospore formation.

>cd03251 ABCC_MsbA MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins

Probab=95.63  E-value=0.045  Score=49.45  Aligned_cols=24  Identities=29%  Similarity=0.361  Sum_probs=21.2

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ..+++|+|..|.|||||++.++..
T Consensus        28 Ge~~~i~G~nGsGKSTLl~~l~Gl   51 (234)
T cd03251          28 GETVALVGPSGSGKSTLVNLIPRF   51 (234)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcc
Confidence            558999999999999999988754

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.

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

Probab=95.63  E-value=0.0078  Score=50.73  Aligned_cols=20  Identities=35%  Similarity=0.688  Sum_probs=18.5

Q ss_pred             EEEEeeeCCCcHHHHHHHHh
Q 038234          104 MISIVGMGGIGKITLAQMAY  123 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~  123 (406)
                      .|+|.|.||+||||++..+.
T Consensus         2 ~I~ITGTPGvGKTT~~~~L~   21 (180)
T COG1936           2 LIAITGTPGVGKTTVCKLLR   21 (180)
T ss_pred             eEEEeCCCCCchHHHHHHHH
Confidence            58999999999999998886

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

Probab=95.63  E-value=0.0086  Score=51.68  Aligned_cols=24  Identities=38%  Similarity=0.479  Sum_probs=20.5

Q ss_pred             EEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          103 KMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       103 ~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      .+++|+|++|+|||||++.+....
T Consensus         2 ~~~~i~G~sGsGKttl~~~l~~~~   25 (179)
T TIGR02322         2 RLIYVVGPSGAGKDTLLDYARARL   25 (179)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHc
Confidence            378999999999999999876643

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.

>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=95.61  E-value=0.048  Score=53.84  Aligned_cols=22  Identities=27%  Similarity=0.356  Sum_probs=18.2

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHh
Q 038234          102 IKMISIVGMGGIGKITLAQMAY  123 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~  123 (406)
                      .+++.++|++|+||||++..++
T Consensus       221 ~~~i~~vGptGvGKTTt~~kLA  242 (424)
T PRK05703        221 GGVVALVGPTGVGKTTTLAKLA  242 (424)
T ss_pred             CcEEEEECCCCCCHHHHHHHHH
Confidence            4689999999999999775543

>cd00227 CPT Chloramphenicol (Cm) phosphotransferase (CPT)

Probab=95.61  E-value=0.0084  Score=51.64  Aligned_cols=25  Identities=20%  Similarity=0.203  Sum_probs=21.6

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      .++|.+.|++|+||||+|+.+.+..
T Consensus         2 ~~~i~l~G~~gsGKst~a~~l~~~~   26 (175)
T cd00227           2 GRIIILNGGSSAGKSSIARALQSVL   26 (175)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhh
Confidence            3589999999999999999887653

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

>cd02023 UMPK Uridine monophosphate kinase (UMPK, EC 2

Probab=95.60  E-value=0.0072  Score=53.17  Aligned_cols=21  Identities=38%  Similarity=0.545  Sum_probs=18.5

Q ss_pred             EEEEeeeCCCcHHHHHHHHhc
Q 038234          104 MISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      +|+|.|.+|+||||||+.+..
T Consensus         1 iigi~G~~GsGKSTl~~~l~~   21 (198)
T cd02023           1 IIGIAGGSGSGKTTVAEEIIE   21 (198)
T ss_pred             CEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999988644

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.

>TIGR02868 CydC thiol reductant ABC exporter, CydC subunit

Probab=95.59  E-value=0.018  Score=58.86  Aligned_cols=27  Identities=30%  Similarity=0.343  Sum_probs=23.1

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      ++...++|+|+.|.|||||++.+....
T Consensus       359 ~~G~~vaIvG~SGsGKSTLl~lL~g~~  385 (529)
T TIGR02868       359 PPGERVAILGPSGSGKSTLLMLLTGLL  385 (529)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            446689999999999999999887654

The gene pair cydCD encodes an ABC-family transporter in which each gene contains an N-terminal membrane-spanning domain (pfam00664) and a C-terminal ATP-binding domain (pfam00005). In E. coli these genes were discovered as mutants which caused the terminal heme-copper oxidase complex cytochrome bd to fail to assemble. Recent work has shown that the transporter is involved in export of redox-active thiol compounds such as cysteine and glutathione. The linkage to assembly of the cytochrome bd complex is further supported by the conserved operon structure found outside the gammaproteobacteria (cydABCD) containing both the transporter and oxidase genes components. The genes used as the seed members for this model are all either found in the gammproteobacterial context or the CydABCD context. All members of this family scoring above trusted at the time of its creation were from genomes which encode a cytochrome bd complex.

>cd03230 ABC_DR_subfamily_A This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity

Probab=95.57  E-value=0.041  Score=47.19  Aligned_cols=106  Identities=17%  Similarity=0.206  Sum_probs=56.2

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCChH----------HH---HHHHHHHhc--CCCCC---CCCHH--------H-HHHH
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDKDF----------RV---AKAIIAALG--CETSN---LGSLQ--------S-LVRC  154 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~~~----------~~---~~~i~~~l~--~~~~~---~~~~~--------~-~~~~  154 (406)
                      ..+++|+|..|.|||||.+.++.....          .+   ...+...+.  .+...   .....        + ..-.
T Consensus        26 Ge~~~i~G~nGsGKStLl~~l~G~~~~~~G~i~~~g~~~~~~~~~~~~~i~~~~q~~~~~~~~tv~~~~~LS~G~~qrv~  105 (173)
T cd03230          26 GEIYGLLGPNGAGKTTLIKIILGLLKPDSGEIKVLGKDIKKEPEEVKRRIGYLPEEPSLYENLTVRENLKLSGGMKQRLA  105 (173)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCCCCCCCeEEEECCEEcccchHhhhccEEEEecCCccccCCcHHHHhhcCHHHHHHHH
Confidence            558999999999999999999875421          11   011111111  01110   00111        1 1123


Q ss_pred             HHhhccCcceeEEeeCCCCc-CccCcchhhhccCCC-CCCcEEEEecCChHHHHH
Q 038234          155 ISESIEGKKYLVVLDDVWTD-DYTKWEPFQRCSANG-QCGNNILVTTHKKTVARM  207 (406)
Q Consensus       155 l~~~l~~kr~LlVlDdvw~~-~~~~~~~l~~~l~~~-~~gs~IivTtR~~~v~~~  207 (406)
                      +...+-.++-++++|+.-.. |......+...+... ..|..||++|.+......
T Consensus       106 laral~~~p~illlDEPt~~LD~~~~~~l~~~l~~~~~~g~tiii~th~~~~~~~  160 (173)
T cd03230         106 LAQALLHDPELLILDEPTSGLDPESRREFWELLRELKKEGKTILLSSHILEEAER  160 (173)
T ss_pred             HHHHHHcCCCEEEEeCCccCCCHHHHHHHHHHHHHHHHCCCEEEEECCCHHHHHH
Confidence            55566678889999987332 111122233333221 225678888888765553

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.

>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=95.54  E-value=0.024  Score=48.66  Aligned_cols=22  Identities=36%  Similarity=0.452  Sum_probs=18.7

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcC
Q 038234          104 MISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ++.++|++|+||||++..++..
T Consensus         2 ~~~~~G~~G~GKTt~~~~la~~   23 (173)
T cd03115           2 VILLVGLQGVGKTTTAAKLALY   23 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            6789999999999998776654

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.

>TIGR02857 CydD thiol reductant ABC exporter, CydD subunit

Probab=95.54  E-value=0.027  Score=57.58  Aligned_cols=28  Identities=32%  Similarity=0.445  Sum_probs=23.3

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhcCCh
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYNDKD  127 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~  127 (406)
                      ++...++|+|..|.|||||++.+.....
T Consensus       346 ~~G~~~~ivG~sGsGKSTL~~ll~g~~~  373 (529)
T TIGR02857       346 PPGERVALVGPSGAGKSTLLNLLLGFVD  373 (529)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcCCC
Confidence            3466899999999999999998877543

Unfortunately, the gene symbol nomenclature adopted based on this operon in B. subtilis assigns cydC to the third gene in the operon where this gene is actually homologous to the E. coli cydD gene. We have chosen to name all homologs in this family in accordance with the precedence of publication of the E. coli name, CydD

>KOG0652 consensus 26S proteasome regulatory complex, ATPase RPT5 [Posttranslational modification, protein turnover, chaperones]

Probab=95.52  E-value=0.062  Score=48.35  Aligned_cols=95  Identities=21%  Similarity=0.231  Sum_probs=57.4

Q ss_pred             ceecchhhHHHHHHHHhcCCCC-------CCCCcEEEEEeeeCCCcHHHHHHHHhcCChHHHHHHHHHHhcCCCCCCCCH
Q 038234           76 EICGRDYKKNELLSKLLSDSSD-------QQKPIKMISIVGMGGIGKITLAQMAYNDKDFRVAKAIIAALGCETSNLGSL  148 (406)
Q Consensus        76 ~~vGR~~~~~~l~~~L~~~~~~-------~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~~~i~~~l~~~~~~~~~~  148 (406)
                      ++=|-++.+++|++.+.-....       +-.+++-+..+|++|.|||-+|++.+.+....|++-..-++-....  .+-
T Consensus       172 DiGGldkQIqELvEAiVLpmth~ekF~~lgi~pPKGvLmYGPPGTGKTlmARAcAaqT~aTFLKLAgPQLVQMfI--GdG  249 (424)
T KOG0652|consen  172 DIGGLDKQIQELVEAIVLPMTHKEKFENLGIRPPKGVLMYGPPGTGKTLMARACAAQTNATFLKLAGPQLVQMFI--GDG  249 (424)
T ss_pred             ccccHHHHHHHHHHHhccccccHHHHHhcCCCCCCceEeeCCCCCcHHHHHHHHHHhccchHHHhcchHHHhhhh--cch
Confidence            4557888889988876543221       2355677899999999999999998887766555432222211111  111


Q ss_pred             HHHHH-HHHhhccCcceeEEeeCCC
Q 038234          149 QSLVR-CISESIEGKKYLVVLDDVW  172 (406)
Q Consensus       149 ~~~~~-~l~~~l~~kr~LlVlDdvw  172 (406)
                      ..+++ .+.-.-...+.+|++|.+.
T Consensus       250 AkLVRDAFaLAKEkaP~IIFIDElD  274 (424)
T KOG0652|consen  250 AKLVRDAFALAKEKAPTIIFIDELD  274 (424)
T ss_pred             HHHHHHHHHHhhccCCeEEEEechh
Confidence            22222 2222224567889999773

>PRK06217 hypothetical protein; Validated

Probab=95.50  E-value=0.01  Score=51.56  Aligned_cols=24  Identities=33%  Similarity=0.407  Sum_probs=21.1

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcCCh
Q 038234          104 MISIVGMGGIGKITLAQMAYNDKD  127 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~~~  127 (406)
                      .|.|.|.+|+||||||+++.+...
T Consensus         3 ~I~i~G~~GsGKSTla~~L~~~l~   26 (183)
T PRK06217          3 RIHITGASGSGTTTLGAALAERLD   26 (183)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcC
Confidence            589999999999999999887653

>PRK00771 signal recognition particle protein Srp54; Provisional

Probab=95.50  E-value=0.037  Score=54.61  Aligned_cols=26  Identities=31%  Similarity=0.295  Sum_probs=21.9

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      .++.+|.++|.+|+||||+|..++..
T Consensus        93 ~~p~vI~lvG~~GsGKTTtaakLA~~  118 (437)
T PRK00771         93 LKPQTIMLVGLQGSGKTTTAAKLARY  118 (437)
T ss_pred             CCCeEEEEECCCCCcHHHHHHHHHHH
Confidence            35789999999999999999777654

>TIGR02974 phageshock_pspF psp operon transcriptional activator PspF

Probab=95.49  E-value=0.011  Score=56.48  Aligned_cols=46  Identities=20%  Similarity=0.151  Sum_probs=34.0

Q ss_pred             eecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234           77 ICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus        77 ~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      ++|....+.++.+.+..-.    ....-|.|+|..|+||+++|+.+++..
T Consensus         1 liG~S~~m~~~~~~~~~~a----~~~~pVLI~GE~GtGK~~lAr~iH~~s   46 (329)
T TIGR02974         1 LIGESNAFLEVLEQVSRLA----PLDRPVLIIGERGTGKELIAARLHYLS   46 (329)
T ss_pred             CCcCCHHHHHHHHHHHHHh----CCCCCEEEECCCCChHHHHHHHHHHhc
Confidence            4677777777777776543    223457899999999999999987643

Members of this protein family are PspF, the sigma-54-dependent transcriptional activator of the phage shock protein (psp) operon, in Escherichia coli and numerous other species. The psp operon is induced by a number of stress conditions, including heat shock, ethanol, and filamentous phage infection. Changed com_name to adhere to TIGR role notes conventions. 09/15/06 - DMH

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

Probab=95.49  E-value=0.0083  Score=52.13  Aligned_cols=23  Identities=30%  Similarity=0.416  Sum_probs=20.1

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcCC
Q 038234          104 MISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      +|+|.|.+|+||||||+.+....
T Consensus         1 ii~i~G~sgsGKTtla~~l~~~~   23 (187)
T cd02024           1 IVGISGVTNSGKTTLAKLLQRIL   23 (187)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHc
Confidence            58999999999999999887653

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.

>PRK12727 flagellar biosynthesis regulator FlhF; Provisional

Probab=95.48  E-value=0.039  Score=55.25  Aligned_cols=24  Identities=29%  Similarity=0.288  Sum_probs=20.2

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHhc
Q 038234          101 PIKMISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      ...+++|+|.+|+||||++..+..
T Consensus       349 ~G~vIaLVGPtGvGKTTtaakLAa  372 (559)
T PRK12727        349 RGGVIALVGPTGAGKTTTIAKLAQ  372 (559)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHH
Confidence            457999999999999999876653

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=95.46  E-value=0.028  Score=54.14  Aligned_cols=24  Identities=21%  Similarity=0.281  Sum_probs=20.4

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHhc
Q 038234          101 PIKMISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      ...++.++|+.|+||||++.++..
T Consensus       136 ~g~ii~lvGptGvGKTTtiakLA~  159 (374)
T PRK14722        136 RGGVFALMGPTGVGKTTTTAKLAA  159 (374)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH
Confidence            357999999999999999877654

>TIGR00958 3a01208 Conjugate Transporter-2 (CT2) Family protein

Probab=95.45  E-value=0.02  Score=60.75  Aligned_cols=28  Identities=32%  Similarity=0.469  Sum_probs=23.3

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhcCCh
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYNDKD  127 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~  127 (406)
                      ++...++|+|..|.|||||++.+..-..
T Consensus       505 ~~Ge~vaIvG~SGsGKSTLl~lL~gl~~  532 (711)
T TIGR00958       505 HPGEVVALVGPSGSGKSTVAALLQNLYQ  532 (711)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHhccC
Confidence            3466899999999999999998876543

>KOG0924 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]

Probab=95.45  E-value=0.059  Score=54.59  Aligned_cols=111  Identities=23%  Similarity=0.273  Sum_probs=60.5

Q ss_pred             hHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHH-HHHHHhcCChH----------------HHHHHHHHHhcCCCC--
Q 038234           83 KKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKIT-LAQMAYNDKDF----------------RVAKAIIAALGCETS--  143 (406)
Q Consensus        83 ~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTt-LA~~v~~~~~~----------------~~~~~i~~~l~~~~~--  143 (406)
                      ..++|++.+..        ..||.|+|..|.|||| |++.+|.+-..                .+.+.+...++..-.  
T Consensus       360 ~R~~ll~~ir~--------n~vvvivgETGSGKTTQl~QyL~edGY~~~GmIGcTQPRRvAAiSVAkrVa~EM~~~lG~~  431 (1042)
T KOG0924|consen  360 CRDQLLSVIRE--------NQVVVIVGETGSGKTTQLAQYLYEDGYADNGMIGCTQPRRVAAISVAKRVAEEMGVTLGDT  431 (1042)
T ss_pred             HHHHHHHHHhh--------CcEEEEEecCCCCchhhhHHHHHhcccccCCeeeecCchHHHHHHHHHHHHHHhCCccccc
Confidence            34556666643        4599999999999996 77888776432                344444444432211  


Q ss_pred             --------CCCC----------HHHHHHHHHhhccCcceeEEeeCCCCcCccCcchhhhccC---CCCCCcEEEEecCCh
Q 038234          144 --------NLGS----------LQSLVRCISESIEGKKYLVVLDDVWTDDYTKWEPFQRCSA---NGQCGNNILVTTHKK  202 (406)
Q Consensus       144 --------~~~~----------~~~~~~~l~~~l~~kr~LlVlDdvw~~~~~~~~~l~~~l~---~~~~gs~IivTtR~~  202 (406)
                              +..+          ---+...|....-.|=..||+|.+++... .-+.+...+.   .....-++||||-.-
T Consensus       432 VGYsIRFEdvT~~~T~IkymTDGiLLrEsL~d~~L~kYSviImDEAHERsl-NtDilfGllk~~larRrdlKliVtSATm  510 (1042)
T KOG0924|consen  432 VGYSIRFEDVTSEDTKIKYMTDGILLRESLKDRDLDKYSVIIMDEAHERSL-NTDILFGLLKKVLARRRDLKLIVTSATM  510 (1042)
T ss_pred             cceEEEeeecCCCceeEEEeccchHHHHHhhhhhhhheeEEEechhhhccc-chHHHHHHHHHHHHhhccceEEEeeccc
Confidence                    1111          11222233333334556899999865432 2222222221   223366899988763

>PRK09354 recA recombinase A; Provisional

Probab=95.44  E-value=0.034  Score=52.96  Aligned_cols=74  Identities=22%  Similarity=0.239  Sum_probs=45.4

Q ss_pred             CCCcEEEEEeeeCCCcHHHHHHHHhcCChH------------HHHHHHHHHhcCCC-----CCCCCHHHHHHHHHhhcc-
Q 038234           99 QKPIKMISIVGMGGIGKITLAQMAYNDKDF------------RVAKAIIAALGCET-----SNLGSLQSLVRCISESIE-  160 (406)
Q Consensus        99 ~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~------------~~~~~i~~~l~~~~-----~~~~~~~~~~~~l~~~l~-  160 (406)
                      =+.-+++-|+|++|+||||||.+++.....            .+....+..++.+.     ..+.+.++....+...++ 
T Consensus        57 ip~G~IteI~G~~GsGKTtLal~~~~~~~~~G~~~~yId~E~s~~~~~a~~lGvdld~lli~qp~~~Eq~l~i~~~li~s  136 (349)
T PRK09354         57 LPRGRIVEIYGPESSGKTTLALHAIAEAQKAGGTAAFIDAEHALDPVYAKKLGVDIDNLLVSQPDTGEQALEIADTLVRS  136 (349)
T ss_pred             CcCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEECCccchHHHHHHHcCCCHHHeEEecCCCHHHHHHHHHHHhhc
Confidence            456789999999999999999876543211            23334444444321     122344555555555443 


Q ss_pred             CcceeEEeeCCC
Q 038234          161 GKKYLVVLDDVW  172 (406)
Q Consensus       161 ~kr~LlVlDdvw  172 (406)
                      ++.-|||+|-+-
T Consensus       137 ~~~~lIVIDSva  148 (349)
T PRK09354        137 GAVDLIVVDSVA  148 (349)
T ss_pred             CCCCEEEEeChh
Confidence            456699999873

>KOG0729 consensus 26S proteasome regulatory complex, ATPase RPT1 [Posttranslational modification, protein turnover, chaperones]

Probab=95.44  E-value=0.022  Score=51.25  Aligned_cols=94  Identities=20%  Similarity=0.156  Sum_probs=53.9

Q ss_pred             eecchhhHHHHHHHHhcCCC-------CCCCCcEEEEEeeeCCCcHHHHHHHHhcCChHHHHHHHHHHhcCCCCCCCCHH
Q 038234           77 ICGRDYKKNELLSKLLSDSS-------DQQKPIKMISIVGMGGIGKITLAQMAYNDKDFRVAKAIIAALGCETSNLGSLQ  149 (406)
Q Consensus        77 ~vGR~~~~~~l~~~L~~~~~-------~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~~~i~~~l~~~~~~~~~~~  149 (406)
                      +=|=.+.++++.+......-       -+-++++-|.++|++|.|||-+|++|+|+....|.+.|-..+-...-  .+-.
T Consensus       179 vggckeqieklrevve~pll~perfv~lgidppkgvllygppgtgktl~aravanrtdacfirvigselvqkyv--gega  256 (435)
T KOG0729|consen  179 VGGCKEQIEKLREVVELPLLHPERFVNLGIDPPKGVLLYGPPGTGKTLCARAVANRTDACFIRVIGSELVQKYV--GEGA  256 (435)
T ss_pred             ccchHHHHHHHHHHHhccccCHHHHhhcCCCCCCceEEeCCCCCchhHHHHHHhcccCceEEeehhHHHHHHHh--hhhH
Confidence            33555666666655432210       12456778899999999999999999998765332222222211100  1112


Q ss_pred             HHHHHHHhhcc-CcceeEEeeCCC
Q 038234          150 SLVRCISESIE-GKKYLVVLDDVW  172 (406)
Q Consensus       150 ~~~~~l~~~l~-~kr~LlVlDdvw  172 (406)
                      ..+.+|.+..+ .|-++|++|.+.
T Consensus       257 rmvrelf~martkkaciiffdeid  280 (435)
T KOG0729|consen  257 RMVRELFEMARTKKACIIFFDEID  280 (435)
T ss_pred             HHHHHHHHHhcccceEEEEeeccc
Confidence            33444444444 456889999873

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

Probab=95.44  E-value=0.029  Score=51.56  Aligned_cols=26  Identities=27%  Similarity=0.318  Sum_probs=22.4

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCCh
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDKD  127 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~~  127 (406)
                      -..++|.|.+|+|||+|+..+++...
T Consensus        69 GQr~~If~~~G~GKTtLa~~i~~~i~   94 (274)
T cd01133          69 GGKIGLFGGAGVGKTVLIMELINNIA   94 (274)
T ss_pred             CCEEEEecCCCCChhHHHHHHHHHHH
Confidence            55789999999999999999887654

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.

>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=95.43  E-value=0.0085  Score=53.69  Aligned_cols=22  Identities=32%  Similarity=0.365  Sum_probs=19.0

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcC
Q 038234          104 MISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      +|+|.|.+|+||||||+.+...
T Consensus         1 IigI~G~sGSGKTTla~~L~~~   22 (220)
T cd02025           1 IIGIAGSVAVGKSTTARVLQAL   22 (220)
T ss_pred             CEEeeCCCCCCHHHHHHHHHHH
Confidence            5899999999999999877643

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

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

Probab=95.43  E-value=0.0095  Score=49.76  Aligned_cols=24  Identities=25%  Similarity=0.451  Sum_probs=20.4

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcCCh
Q 038234          104 MISIVGMGGIGKITLAQMAYNDKD  127 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~~~  127 (406)
                      ++.|+|++|+||||+|+.+.+...
T Consensus         1 li~l~G~~GsGKST~a~~l~~~~~   24 (150)
T cd02021           1 IIVVMGVSGSGKSTVGKALAERLG   24 (150)
T ss_pred             CEEEEcCCCCCHHHHHHHHHhhcC
Confidence            367999999999999999877643

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

>COG1428 Deoxynucleoside kinases [Nucleotide transport and metabolism]

Probab=95.42  E-value=0.011  Score=51.64  Aligned_cols=27  Identities=44%  Similarity=0.476  Sum_probs=24.1

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCChH
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDKDF  128 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~~~  128 (406)
                      ..+|+|-||=|+||||||+.+.++...
T Consensus         4 ~~~IvI~G~IG~GKSTLa~~La~~l~~   30 (216)
T COG1428           4 AMVIVIEGMIGAGKSTLAQALAEHLGF   30 (216)
T ss_pred             ccEEEEecccccCHHHHHHHHHHHhCC
Confidence            568999999999999999999887654

>cd03244 ABCC_MRP_domain2 Domain 2 of the ABC subfamily C

Probab=95.42  E-value=0.088  Score=47.05  Aligned_cols=24  Identities=29%  Similarity=0.349  Sum_probs=21.2

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ..+++|+|..|.|||||++.+...
T Consensus        30 Ge~~~i~G~nGsGKSTLl~~l~G~   53 (221)
T cd03244          30 GEKVGIVGRTGSGKSSLLLALFRL   53 (221)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHcC
Confidence            458999999999999999988754

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.

>PRK09361 radB DNA repair and recombination protein RadB; Provisional

Probab=95.42  E-value=0.04  Score=49.45  Aligned_cols=25  Identities=20%  Similarity=0.177  Sum_probs=21.8

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhc
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      +...++.|+|.+|+|||++|.+++.
T Consensus        21 ~~g~i~~i~G~~GsGKT~l~~~la~   45 (225)
T PRK09361         21 ERGTITQIYGPPGSGKTNICLQLAV   45 (225)
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHH
Confidence            5577999999999999999987764

>PRK10733 hflB ATP-dependent metalloprotease; Reviewed

Probab=95.42  E-value=0.014  Score=60.79  Aligned_cols=125  Identities=10%  Similarity=0.079  Sum_probs=66.9

Q ss_pred             EEEEEeeeCCCcHHHHHHHHhcCChHHHH----HHHHHHhcCCCCCCCCHHHHHHHHHhhccCcceeEEeeCCCCcCc--
Q 038234          103 KMISIVGMGGIGKITLAQMAYNDKDFRVA----KAIIAALGCETSNLGSLQSLVRCISESIEGKKYLVVLDDVWTDDY--  176 (406)
Q Consensus       103 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~----~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdvw~~~~--  176 (406)
                      +-|.|+|++|+|||++|+.+.+.....+.    .++.....     ......+...+.......+++|++|+++.-..  
T Consensus       186 ~gill~G~~G~GKt~~~~~~a~~~~~~f~~is~~~~~~~~~-----g~~~~~~~~~f~~a~~~~P~IifIDEiD~l~~~r  260 (644)
T PRK10733        186 KGVLMVGPPGTGKTLLAKAIAGEAKVPFFTISGSDFVEMFV-----GVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQR  260 (644)
T ss_pred             CcEEEECCCCCCHHHHHHHHHHHcCCCEEEEehHHhHHhhh-----cccHHHHHHHHHHHHhcCCcEEEehhHhhhhhcc
Confidence            44899999999999999999876543110    01111110     01122333344444456789999999843210  


Q ss_pred             --------cCc----chhhhccCCC--CCCcEEEEecCChHHHHH--hc---cCCccccCCCChHHHHHhhhhhc
Q 038234          177 --------TKW----EPFQRCSANG--QCGNNILVTTHKKTVARM--ME---STNFISIKELSTQECWSLFKQES  232 (406)
Q Consensus       177 --------~~~----~~l~~~l~~~--~~gs~IivTtR~~~v~~~--~~---~~~~~~l~~L~~~~a~~Lf~~~~  232 (406)
                              ..+    ..+...+...  ..+.-+|.||...+....  ..   -...+.+...+.++-.++++...
T Consensus       261 ~~~~~g~~~~~~~~ln~lL~~mdg~~~~~~vivIaaTN~p~~lD~Al~RpgRfdr~i~v~~Pd~~~R~~Il~~~~  335 (644)
T PRK10733        261 GAGLGGGHDEREQTLNQMLVEMDGFEGNEGIIVIAATNRPDVLDPALLRPGRFDRQVVVGLPDVRGREQILKVHM  335 (644)
T ss_pred             CCCCCCCchHHHHHHHHHHHhhhcccCCCCeeEEEecCChhhcCHHHhCCcccceEEEcCCCCHHHHHHHHHHHh
Confidence                    011    1111112211  234455557766543221  11   15667788888777777776544

>KOG0727 consensus 26S proteasome regulatory complex, ATPase RPT3 [Posttranslational modification, protein turnover, chaperones]

Probab=95.41  E-value=0.029  Score=50.19  Aligned_cols=53  Identities=25%  Similarity=0.296  Sum_probs=37.8

Q ss_pred             ceecchhhHHHHHHHHhcCCCC-------CCCCcEEEEEeeeCCCcHHHHHHHHhcCChH
Q 038234           76 EICGRDYKKNELLSKLLSDSSD-------QQKPIKMISIVGMGGIGKITLAQMAYNDKDF  128 (406)
Q Consensus        76 ~~vGR~~~~~~l~~~L~~~~~~-------~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~  128 (406)
                      ++=|.+-..+++.+...-.-.+       +-++++-|.++|++|.|||-||++|+++...
T Consensus       156 diggld~qkqeireavelplt~~~ly~qigidpprgvllygppg~gktml~kava~~t~a  215 (408)
T KOG0727|consen  156 DIGGLDVQKQEIREAVELPLTHADLYKQIGIDPPRGVLLYGPPGTGKTMLAKAVANHTTA  215 (408)
T ss_pred             ccccchhhHHHHHHHHhccchHHHHHHHhCCCCCcceEEeCCCCCcHHHHHHHHhhccch
Confidence            4446776677766654322111       2456788899999999999999999998765

>PRK00300 gmk guanylate kinase; Provisional

Probab=95.41  E-value=0.012  Score=51.97  Aligned_cols=26  Identities=27%  Similarity=0.332  Sum_probs=23.0

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          101 PIKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      +..+|+|+|++|+||||||+.++...
T Consensus         4 ~g~~i~i~G~sGsGKstl~~~l~~~~   29 (205)
T PRK00300          4 RGLLIVLSGPSGAGKSTLVKALLERD   29 (205)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhhC
Confidence            35689999999999999999998765

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

Probab=95.41  E-value=0.0091  Score=46.89  Aligned_cols=21  Identities=52%  Similarity=0.561  Sum_probs=17.9

Q ss_pred             EEEeeeCCCcHHHHHHHHhcC
Q 038234          105 ISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       105 i~I~G~gGiGKTtLA~~v~~~  125 (406)
                      |-|+|.+|+|||+||..++..
T Consensus         1 I~i~G~~G~GKS~l~~~l~~~   21 (107)
T PF00910_consen    1 IWIYGPPGIGKSTLAKELAKD   21 (107)
T ss_pred             CEEECCCCCCHHHHHHHHHHH
Confidence            458999999999999987654

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

>PRK14738 gmk guanylate kinase; Provisional

Probab=95.41  E-value=0.015  Score=51.64  Aligned_cols=27  Identities=19%  Similarity=0.245  Sum_probs=23.2

Q ss_pred             CCCcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234           99 QKPIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus        99 ~~~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ....+.+.|+|++|+|||||+..+.+.
T Consensus        10 ~~~~~~ivi~GpsG~GK~tl~~~L~~~   36 (206)
T PRK14738         10 PAKPLLVVISGPSGVGKDAVLARMRER   36 (206)
T ss_pred             CCCCeEEEEECcCCCCHHHHHHHHHhc
Confidence            345788999999999999999988754

>TIGR03375 type_I_sec_LssB type I secretion system ATPase, LssB family

Probab=95.40  E-value=0.018  Score=60.85  Aligned_cols=26  Identities=31%  Similarity=0.387  Sum_probs=22.3

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          101 PIKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      +...++|+|..|.|||||++.+..-+
T Consensus       490 ~G~~iaIvG~sGsGKSTLlklL~gl~  515 (694)
T TIGR03375       490 PGEKVAIIGRIGSGKSTLLKLLLGLY  515 (694)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            35689999999999999999887654

Type I protein secretion is a system in some Gram-negative bacteria to export proteins (often proteases) across both inner and outer membranes to the extracellular medium. This is one of three proteins of the type I secretion apparatus. Targeted proteins are not cleaved at the N-terminus, but rather carry signals located toward the extreme C-terminus to direct type I secretion. This model is related to models TIGR01842 and TIGR01846, and to bacteriocin ABC transporters that cleave their substrates during export.

>TIGR03263 guanyl_kin guanylate kinase

Probab=95.40  E-value=0.013  Score=50.63  Aligned_cols=24  Identities=33%  Similarity=0.547  Sum_probs=21.7

Q ss_pred             EEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          103 KMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       103 ~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      ++++|+|+.|+|||||++.+++..
T Consensus         2 ~ii~l~G~~GsGKsTl~~~L~~~~   25 (180)
T TIGR03263         2 LLIVISGPSGVGKSTLVKALLEED   25 (180)
T ss_pred             cEEEEECCCCCCHHHHHHHHHccC
Confidence            478999999999999999998864

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.

>TIGR00959 ffh signal recognition particle protein

Probab=95.38  E-value=0.07  Score=52.59  Aligned_cols=25  Identities=36%  Similarity=0.462  Sum_probs=20.0

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhc
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      .++.++.++|.+|+||||+|..++.
T Consensus        97 ~~p~vi~~vG~~GsGKTTtaakLA~  121 (428)
T TIGR00959        97 KPPTVILMVGLQGSGKTTTCGKLAY  121 (428)
T ss_pred             CCCEEEEEECCCCCcHHHHHHHHHH
Confidence            3468999999999999998755443

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.

>PRK00279 adk adenylate kinase; Reviewed

Probab=95.36  E-value=0.043  Score=48.92  Aligned_cols=25  Identities=24%  Similarity=0.287  Sum_probs=21.2

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcCChH
Q 038234          104 MISIVGMGGIGKITLAQMAYNDKDF  128 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~~~~  128 (406)
                      .|.|.|++|+||||+|+.+......
T Consensus         2 ~I~v~G~pGsGKsT~a~~la~~~~~   26 (215)
T PRK00279          2 RLILLGPPGAGKGTQAKFIAEKYGI   26 (215)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCC
Confidence            4889999999999999988876543

>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=95.34  E-value=0.01  Score=49.14  Aligned_cols=23  Identities=35%  Similarity=0.479  Sum_probs=20.2

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcCC
Q 038234          104 MISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      +|.|+|.+|+||||+|+.+....
T Consensus         1 ~I~i~G~~GsGKst~a~~la~~~   23 (147)
T cd02020           1 IIAIDGPAGSGKSTVAKLLAKKL   23 (147)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh
Confidence            58999999999999999888654

>TIGR03522 GldA_ABC_ATP gliding motility-associated ABC transporter ATP-binding subunit GldA

Probab=95.32  E-value=0.057  Score=50.90  Aligned_cols=25  Identities=20%  Similarity=0.324  Sum_probs=21.9

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          101 PIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      +..+++|+|+.|.|||||.+.+...
T Consensus        27 ~Gei~~l~G~NGaGKTTLl~~l~Gl   51 (301)
T TIGR03522        27 KGRIVGFLGPNGAGKSTTMKIITGY   51 (301)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHhCC
Confidence            3568999999999999999988765

Members of this protein family are exclusive to the Bacteroidetes phylum (previously Cytophaga-Flavobacteria-Bacteroides). GldA is an ABC transporter ATP-binding protein (pfam00005) linked to a type of rapid surface gliding motility found in certain Bacteroidetes, such as Flavobacterium johnsoniae and Cytophaga hutchinsonii. Knockouts of GldA abolish the gliding phenotype. Gliding motility appears closely linked to chitin utilization in the model species Flavobacterium johnsoniae. Bacteroidetes with members of this protein family appear to have all of the genes associated with gliding motility.

>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=95.31  E-value=0.011  Score=51.22  Aligned_cols=22  Identities=36%  Similarity=0.552  Sum_probs=19.4

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcC
Q 038234          104 MISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      +|+|.|.+|+||||||..+...
T Consensus         1 ii~i~G~sgsGKttla~~l~~~   22 (179)
T cd02028           1 VVGIAGPSGSGKTTFAKKLSNQ   22 (179)
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            5899999999999999887654

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

>PRK14737 gmk guanylate kinase; Provisional

Probab=95.28  E-value=0.018  Score=50.09  Aligned_cols=26  Identities=27%  Similarity=0.362  Sum_probs=23.1

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          101 PIKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      ..++|.|+|++|+|||||++.+.+..
T Consensus         3 ~~~~ivl~GpsG~GK~tl~~~l~~~~   28 (186)
T PRK14737          3 SPKLFIISSVAGGGKSTIIQALLEEH   28 (186)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHhcC
Confidence            46789999999999999999998764

>PRK03846 adenylylsulfate kinase; Provisional

Probab=95.27  E-value=0.016  Score=50.97  Aligned_cols=26  Identities=23%  Similarity=0.261  Sum_probs=22.4

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ....+|.|+|++|+||||||+.+...
T Consensus        22 ~~~~~i~i~G~~GsGKSTla~~l~~~   47 (198)
T PRK03846         22 HKGVVLWFTGLSGSGKSTVAGALEEA   47 (198)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            44679999999999999999887654

>PRK12339 2-phosphoglycerate kinase; Provisional

Probab=95.25  E-value=0.015  Score=51.13  Aligned_cols=25  Identities=20%  Similarity=0.368  Sum_probs=22.4

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      ..+|.|.|.+|+||||+|+.+....
T Consensus         3 ~~~i~i~G~~G~GKst~a~~l~~~~   27 (197)
T PRK12339          3 STIHFIGGIPGVGKTSISGYIARHR   27 (197)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHhc
Confidence            5689999999999999999988765

>TIGR03796 NHPM_micro_ABC1 NHPM bacteriocin system ABC transporter, peptidase/ATP-binding protein

Probab=95.24  E-value=0.021  Score=60.52  Aligned_cols=27  Identities=30%  Similarity=0.437  Sum_probs=22.8

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      ++...++|+|..|.|||||++.+..-.
T Consensus       503 ~~Ge~vaIvG~sGsGKSTLlklL~gl~  529 (710)
T TIGR03796       503 QPGQRVALVGGSGSGKSTIAKLVAGLY  529 (710)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            345689999999999999999887654

This protein describes an multidomain ABC transporter subunit that is one of three protein families associated with some regularity with a distinctive family of putative bacteriocins. It includes a bacteriocin-processing peptidase domain at the N-terminus. Model TIGR03793 describes a conserved propeptide region for this bacteriocin family, unusual because it shows obvious homology a region of the enzyme nitrile hydratase up to the classic Gly-Gly cleavage motif. This family is therefore predicted to be a subunit of a bacteriocin processing and export system characteristic to this system that we designate NHPM, Nitrile Hydratase Propeptide Microcin.

>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=95.23  E-value=0.0096  Score=47.92  Aligned_cols=23  Identities=30%  Similarity=0.472  Sum_probs=17.0

Q ss_pred             EEEeeeCCCcHHHHHHHHhcCCh
Q 038234          105 ISIVGMGGIGKITLAQMAYNDKD  127 (406)
Q Consensus       105 i~I~G~gGiGKTtLA~~v~~~~~  127 (406)
                      |.|+|.+|+|||++|+.+++...
T Consensus         2 vLleg~PG~GKT~la~~lA~~~~   24 (131)
T PF07726_consen    2 VLLEGVPGVGKTTLAKALARSLG   24 (131)
T ss_dssp             EEEES---HHHHHHHHHHHHHTT
T ss_pred             EeeECCCccHHHHHHHHHHHHcC
Confidence            67999999999999999877654

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.

>PRK04132 replication factor C small subunit; Provisional

Probab=95.23  E-value=0.016  Score=61.51  Aligned_cols=121  Identities=8%  Similarity=0.023  Sum_probs=71.7

Q ss_pred             eCCCcHHHHHHHHhcCChHHHHHHHHHHhcCCCCCCCCHHHHHHHHHhhc-----cC-cceeEEeeCCCCcCccCcchhh
Q 038234          110 MGGIGKITLAQMAYNDKDFRVAKAIIAALGCETSNLGSLQSLVRCISESI-----EG-KKYLVVLDDVWTDDYTKWEPFQ  183 (406)
Q Consensus       110 ~gGiGKTtLA~~v~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l-----~~-kr~LlVlDdvw~~~~~~~~~l~  183 (406)
                      +.++||||+|.+++++.-.+-...-...+.  ..+....+.+...+++..     .+ +.-++|||+++..+....+.|.
T Consensus       574 Ph~lGKTT~A~ala~~l~g~~~~~~~lElN--ASd~rgid~IR~iIk~~a~~~~~~~~~~KVvIIDEaD~Lt~~AQnALL  651 (846)
T PRK04132        574 PTVLHNTTAALALARELFGENWRHNFLELN--ASDERGINVIREKVKEFARTKPIGGASFKIIFLDEADALTQDAQQALR  651 (846)
T ss_pred             CCcccHHHHHHHHHHhhhcccccCeEEEEe--CCCcccHHHHHHHHHHHHhcCCcCCCCCEEEEEECcccCCHHHHHHHH
Confidence            678999999999987741100000000111  111123344444443322     22 4469999999877766777777


Q ss_pred             hccCCCCCCcEEEEecCC-hHHHHHh-ccCCccccCCCChHHHHHhhhhhc
Q 038234          184 RCSANGQCGNNILVTTHK-KTVARMM-ESTNFISIKELSTQECWSLFKQES  232 (406)
Q Consensus       184 ~~l~~~~~gs~IivTtR~-~~v~~~~-~~~~~~~l~~L~~~~a~~Lf~~~~  232 (406)
                      ..+-.....+++|++|.+ ..+...+ +....+.+.+++.++....+...+
T Consensus       652 k~lEep~~~~~FILi~N~~~kIi~tIrSRC~~i~F~~ls~~~i~~~L~~I~  702 (846)
T PRK04132        652 RTMEMFSSNVRFILSCNYSSKIIEPIQSRCAIFRFRPLRDEDIAKRLRYIA  702 (846)
T ss_pred             HHhhCCCCCeEEEEEeCChhhCchHHhhhceEEeCCCCCHHHHHHHHHHHH
Confidence            777654556667666555 3333332 336789999999998887776543

>TIGR01193 bacteriocin_ABC ABC-type bacteriocin transporter

Probab=95.23  E-value=0.022  Score=60.39  Aligned_cols=28  Identities=39%  Similarity=0.400  Sum_probs=23.1

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhcCCh
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYNDKD  127 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~  127 (406)
                      ++...++|+|..|.|||||++.+..-..
T Consensus       498 ~~G~~vaIvG~SGsGKSTLlklL~gl~~  525 (708)
T TIGR01193       498 KMNSKTTIVGMSGSGKSTLAKLLVGFFQ  525 (708)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhccCC
Confidence            3456899999999999999998876543

This model describes ABC-type bacteriocin transporter. The amino terminal domain (pfam03412) processes the N-terminal leader peptide from the bacteriocin while C-terminal domains resemble ABC transporter membrane protein and ATP-binding cassette domain. In general, bacteriocins are agents which are responsible for killing or inhibiting the closely related species or even different strains of the same species. Bacteriocins are usually encoded by bacterial plasmids. Bacteriocins are named after the species and hence in literature one encounters various names e.g., leucocin from Leuconostic geldium; pedicocin from Pedicoccus acidilactici; sakacin from Lactobacillus sake etc.

>PRK13947 shikimate kinase; Provisional

Probab=95.23  E-value=0.013  Score=50.14  Aligned_cols=24  Identities=25%  Similarity=0.390  Sum_probs=20.8

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcCCh
Q 038234          104 MISIVGMGGIGKITLAQMAYNDKD  127 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~~~  127 (406)
                      .|.|+|++|+||||+|+.+.+...
T Consensus         3 ~I~l~G~~GsGKst~a~~La~~lg   26 (171)
T PRK13947          3 NIVLIGFMGTGKTTVGKRVATTLS   26 (171)
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHhC
Confidence            488999999999999999887643

>PF00406 ADK: Adenylate kinase; InterPro: IPR000850 Adenylate kinases (ADK) are phosphotransferases that catalyse the reversible reaction AMP + MgATP = ADP + MgADP an essential reaction for many processes in living cells

Probab=95.22  E-value=0.038  Score=46.25  Aligned_cols=22  Identities=32%  Similarity=0.285  Sum_probs=19.1

Q ss_pred             EeeeCCCcHHHHHHHHhcCChH
Q 038234          107 IVGMGGIGKITLAQMAYNDKDF  128 (406)
Q Consensus       107 I~G~gGiGKTtLA~~v~~~~~~  128 (406)
                      |.|++|+||||+|+.++.....
T Consensus         1 i~G~PgsGK~t~~~~la~~~~~   22 (151)
T PF00406_consen    1 ILGPPGSGKGTQAKRLAKRYGL   22 (151)
T ss_dssp             EEESTTSSHHHHHHHHHHHHTS
T ss_pred             CcCCCCCChHHHHHHHHHhcCc
Confidence            6899999999999999887543

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 ....

>COG0464 SpoVK ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]

Probab=95.22  E-value=0.011  Score=59.74  Aligned_cols=132  Identities=14%  Similarity=0.057  Sum_probs=69.5

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhcCChHHHHHHHHHHhcCCCCCCCCHHHHHHHHHhhccCcceeEEeeCCCCc-----
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYNDKDFRVAKAIIAALGCETSNLGSLQSLVRCISESIEGKKYLVVLDDVWTD-----  174 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdvw~~-----  174 (406)
                      ...+.+.++|++|.|||.||+++++.....+..-....+.... -......+...+....+..++.|++|.+..-     
T Consensus       274 ~~~~giLl~GpPGtGKT~lAkava~~~~~~fi~v~~~~l~sk~-vGesek~ir~~F~~A~~~~p~iiFiDEiDs~~~~r~  352 (494)
T COG0464         274 RPPKGVLLYGPPGTGKTLLAKAVALESRSRFISVKGSELLSKW-VGESEKNIRELFEKARKLAPSIIFIDEIDSLASGRG  352 (494)
T ss_pred             CCCCeeEEECCCCCCHHHHHHHHHhhCCCeEEEeeCHHHhccc-cchHHHHHHHHHHHHHcCCCcEEEEEchhhhhccCC
Confidence            4566899999999999999999999554322211111111111 1122334445555555688999999998421     


Q ss_pred             Cc------cCcchhhhccCCC--CCCcEEEEecCChHHHHHh-----ccCCccccCCCChHHHHHhhhhhc
Q 038234          175 DY------TKWEPFQRCSANG--QCGNNILVTTHKKTVARMM-----ESTNFISIKELSTQECWSLFKQES  232 (406)
Q Consensus       175 ~~------~~~~~l~~~l~~~--~~gs~IivTtR~~~v~~~~-----~~~~~~~l~~L~~~~a~~Lf~~~~  232 (406)
                      +.      ....++...+...  ..+..||-||-........     .-...+.+.+-+.++..++|+...
T Consensus       353 ~~~~~~~~r~~~~lL~~~d~~e~~~~v~vi~aTN~p~~ld~a~lR~gRfd~~i~v~~pd~~~r~~i~~~~~  423 (494)
T COG0464         353 PSEDGSGRRVVGQLLTELDGIEKAEGVLVIAATNRPDDLDPALLRPGRFDRLIYVPLPDLEERLEIFKIHL  423 (494)
T ss_pred             CCCchHHHHHHHHHHHHhcCCCccCceEEEecCCCccccCHhhcccCccceEeecCCCCHHHHHHHHHHHh
Confidence            00      0111222222211  2232344444433322211     114566677777777777776543

>PRK11174 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed

Probab=95.21  E-value=0.027  Score=58.40  Aligned_cols=27  Identities=26%  Similarity=0.283  Sum_probs=22.9

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      ++...++|+|..|.|||||++.+....
T Consensus       374 ~~G~~vaIvG~SGsGKSTL~~lL~g~~  400 (588)
T PRK11174        374 PAGQRIALVGPSGAGKTSLLNALLGFL  400 (588)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            345689999999999999999887654

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

Probab=95.21  E-value=0.0069  Score=61.49  Aligned_cols=70  Identities=23%  Similarity=0.307  Sum_probs=42.8

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCChHHHHHHHHHHhcCCCCCCCCHHHHHHHHH----hhccCcceeEEeeCCC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDKDFRVAKAIIAALGCETSNLGSLQSLVRCIS----ESIEGKKYLVVLDDVW  172 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~----~~l~~kr~LlVlDdvw  172 (406)
                      ..-|.|.|..|+|||+||+++++....... ................+.+++.+.    +.+...+-+|||||+.
T Consensus       431 ~~~Ill~G~~GsGKT~L~kal~~~~~k~~~-~hv~~v~Cs~l~~~~~e~iQk~l~~vfse~~~~~PSiIvLDdld  504 (952)
T KOG0735|consen  431 HGNILLNGPKGSGKTNLVKALFDYYSKDLI-AHVEIVSCSTLDGSSLEKIQKFLNNVFSEALWYAPSIIVLDDLD  504 (952)
T ss_pred             cccEEEeCCCCCCHhHHHHHHHHHhccccc-eEEEEEechhccchhHHHHHHHHHHHHHHHHhhCCcEEEEcchh
Confidence            456889999999999999999887642100 000001111112233455555444    3456789999999984

>PRK11176 lipid transporter ATP-binding/permease protein; Provisional

Probab=95.19  E-value=0.02  Score=59.32  Aligned_cols=27  Identities=33%  Similarity=0.414  Sum_probs=22.7

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHhcCCh
Q 038234          101 PIKMISIVGMGGIGKITLAQMAYNDKD  127 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~~~~~  127 (406)
                      +...++|+|..|.|||||++.+.....
T Consensus       368 ~G~~~aIvG~sGsGKSTLl~ll~gl~~  394 (582)
T PRK11176        368 AGKTVALVGRSGSGKSTIANLLTRFYD  394 (582)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhccC
Confidence            356799999999999999998877543

>PRK12726 flagellar biosynthesis regulator FlhF; Provisional

Probab=95.19  E-value=0.045  Score=52.63  Aligned_cols=25  Identities=28%  Similarity=0.348  Sum_probs=21.3

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhc
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      .+.+++.++|+.|+||||++..++.
T Consensus       204 ~~~~ii~lvGptGvGKTTt~akLA~  228 (407)
T PRK12726        204 SNHRIISLIGQTGVGKTTTLVKLGW  228 (407)
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHH
Confidence            4578999999999999999877654

>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=95.16  E-value=0.017  Score=45.95  Aligned_cols=23  Identities=26%  Similarity=0.447  Sum_probs=20.1

Q ss_pred             EEEeeeCCCcHHHHHHHHhcCCh
Q 038234          105 ISIVGMGGIGKITLAQMAYNDKD  127 (406)
Q Consensus       105 i~I~G~gGiGKTtLA~~v~~~~~  127 (406)
                      |.|+|..|+|||||.+.+.....
T Consensus         2 I~V~G~~g~GKTsLi~~l~~~~~   24 (119)
T PF08477_consen    2 IVVLGDSGVGKTSLIRRLCGGEF   24 (119)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSS-
T ss_pred             EEEECcCCCCHHHHHHHHhcCCC
Confidence            78999999999999999887754

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.

>PRK13949 shikimate kinase; Provisional

Probab=95.15  E-value=0.014  Score=50.04  Aligned_cols=24  Identities=33%  Similarity=0.404  Sum_probs=21.0

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcCCh
Q 038234          104 MISIVGMGGIGKITLAQMAYNDKD  127 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~~~  127 (406)
                      .|.|+|++|+||||+++.+++...
T Consensus         3 ~I~liG~~GsGKstl~~~La~~l~   26 (169)
T PRK13949          3 RIFLVGYMGAGKTTLGKALARELG   26 (169)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcC
Confidence            589999999999999999887644

>PRK10751 molybdopterin-guanine dinucleotide biosynthesis protein B; Provisional

Probab=95.14  E-value=0.021  Score=48.85  Aligned_cols=25  Identities=28%  Similarity=0.390  Sum_probs=21.4

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          101 PIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ...+++|+|..|+|||||++.+...
T Consensus         5 ~~~ii~ivG~sgsGKTTLi~~li~~   29 (173)
T PRK10751          5 MIPLLAIAAWSGTGKTTLLKKLIPA   29 (173)
T ss_pred             CceEEEEECCCCChHHHHHHHHHHH
Confidence            4669999999999999999887644

>COG1703 ArgK Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]

Probab=95.14  E-value=0.024  Score=52.11  Aligned_cols=38  Identities=32%  Similarity=0.420  Sum_probs=29.2

Q ss_pred             HHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234           84 KNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus        84 ~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      -.+++..+...    .++..+|+|.|.||+||+||...+-..
T Consensus        37 a~~ll~~l~p~----tG~a~viGITG~PGaGKSTli~~L~~~   74 (323)
T COG1703          37 ARELLRALYPR----TGNAHVIGITGVPGAGKSTLIEALGRE   74 (323)
T ss_pred             HHHHHHHHhhc----CCCCcEEEecCCCCCchHHHHHHHHHH
Confidence            35666666654    567889999999999999998766443

>PRK12724 flagellar biosynthesis regulator FlhF; Provisional

Probab=95.13  E-value=0.047  Score=53.25  Aligned_cols=23  Identities=30%  Similarity=0.270  Sum_probs=20.2

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhc
Q 038234          102 IKMISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      ..++.++|++|+||||++.+++.
T Consensus       223 ~~vi~lvGptGvGKTTtaaKLA~  245 (432)
T PRK12724        223 RKVVFFVGPTGSGKTTSIAKLAA  245 (432)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            56899999999999999977764

>PF00158 Sigma54_activat: Sigma-54 interaction domain; InterPro: IPR002078 Some bacterial regulatory proteins activate the expression of genes from promoters recognised by core RNA polymerase associated with the alternative sigma-54 factor

Probab=95.13  E-value=0.019  Score=49.05  Aligned_cols=47  Identities=23%  Similarity=0.216  Sum_probs=33.6

Q ss_pred             eecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCCh
Q 038234           77 ICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKD  127 (406)
Q Consensus        77 ~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~  127 (406)
                      ++|....+.++++.+..-..   . ..-|.|+|..|+||+.+|+.+++...
T Consensus         1 liG~s~~m~~~~~~~~~~a~---~-~~pVlI~GE~GtGK~~lA~~IH~~s~   47 (168)
T PF00158_consen    1 LIGESPAMKRLREQAKRAAS---S-DLPVLITGETGTGKELLARAIHNNSP   47 (168)
T ss_dssp             SS--SHHHHHHHHHHHHHTT---S-TS-EEEECSTTSSHHHHHHHHHHCST
T ss_pred             CEeCCHHHHHHHHHHHHHhC---C-CCCEEEEcCCCCcHHHHHHHHHHhhh
Confidence            46778888888887765432   2 24567999999999999999998643

These have a conserved domain of about 230 residues involved in the ATP-dependent [, ] interaction with sigma-54. About half of the proteins in which this domain is found (algB, dcdT, flbD, hoxA, hupR1, hydG, ntrC, pgtA and pilR) belong to signal transduction two-component systems [] and possess a domain that can be phosphorylated by a sensor-kinase protein in their N-terminal section. Almost all of these proteins possess a helix-turn-helix DNA-binding domain in their C-terminal section. The domain which interacts with the sigma-54 factor has an ATPase activity. This may be required to promote a conformational change necessary for the interaction []. The domain contains an atypical ATP-binding motif A (P-loop) as well as a form of motif B. The two ATP-binding motifs are located in the N-terminal section of the domain.; GO: 0005524 ATP binding, 0008134 transcription factor binding, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 1NY6_K 3M0E_G 1NY5_A 1OJL_A 3DZD_B 2C9C_A 2C98_A 2C96_A 2BJV_A 2C99_A ....

>TIGR01192 chvA glucan exporter ATP-binding protein

Probab=95.10  E-value=0.03  Score=57.94  Aligned_cols=27  Identities=33%  Similarity=0.386  Sum_probs=22.4

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      ++...++|+|..|.|||||++.+....
T Consensus       359 ~~G~~~~ivG~sGsGKSTL~~ll~g~~  385 (585)
T TIGR01192       359 KAGQTVAIVGPTGAGKTTLINLLQRVY  385 (585)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHccCC
Confidence            345689999999999999999886543

This model describes glucan exporter ATP binding protein in bacteria. It belongs to the larger ABC transporter superfamily with the characteristic ATP binding motif. The In general, this protein is in some ways implicated in osmoregulation and suggested to participate in the export of glucan from the cytoplasm to periplasm. The cyclic beta-1,2-glucan in the bactrerial periplasmic space is suggested to confer the property of high osmolority. It has also been demonstrated that mutants in this loci have lost functions of virulence and motility. It is unclear as to how virulence and osmoadaptaion are related.

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

Probab=95.07  E-value=0.019  Score=47.44  Aligned_cols=23  Identities=30%  Similarity=0.466  Sum_probs=19.7

Q ss_pred             EEEEEeeeCCCcHHHHHHHHhcC
Q 038234          103 KMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       103 ~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ++|.|+|..|+|||||++.+.+.
T Consensus         1 pvv~VvG~~~sGKTTl~~~Li~~   23 (140)
T PF03205_consen    1 PVVQVVGPKNSGKTTLIRKLINE   23 (140)
T ss_dssp             -EEEEEESTTSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHH
Confidence            47999999999999999987654

>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional

Probab=95.05  E-value=0.11  Score=48.28  Aligned_cols=27  Identities=22%  Similarity=0.276  Sum_probs=23.4

Q ss_pred             CCCcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234           99 QKPIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus        99 ~~~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ..+..++.|+|.+|+|||||...+.+.
T Consensus       101 ~~~~~~v~l~G~pGsGKTTLl~~l~~~  127 (290)
T PRK10463        101 ARKQLVLNLVSSPGSGKTTLLTETLMR  127 (290)
T ss_pred             hcCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            356889999999999999999877765

>PRK11160 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed

Probab=95.03  E-value=0.028  Score=58.03  Aligned_cols=28  Identities=32%  Similarity=0.404  Sum_probs=23.5

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhcCCh
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYNDKD  127 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~  127 (406)
                      ++...++|+|..|.|||||++.+.....
T Consensus       364 ~~G~~~aivG~sGsGKSTL~~ll~g~~~  391 (574)
T PRK11160        364 KAGEKVALLGRTGCGKSTLLQLLTRAWD  391 (574)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcCCC
Confidence            3456899999999999999999887543

>PRK05022 anaerobic nitric oxide reductase transcription regulator; Provisional

Probab=95.03  E-value=0.022  Score=57.80  Aligned_cols=49  Identities=20%  Similarity=0.238  Sum_probs=39.7

Q ss_pred             CCceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234           74 ESEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus        74 ~~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      ...++|....+.++.+.+..-.    ....-|.|+|..|+|||++|+.+++..
T Consensus       186 ~~~iig~s~~~~~~~~~i~~~a----~~~~pVlI~Ge~GtGK~~~A~~ih~~s  234 (509)
T PRK05022        186 EGEMIGQSPAMQQLKKEIEVVA----ASDLNVLILGETGVGKELVARAIHAAS  234 (509)
T ss_pred             CCceeecCHHHHHHHHHHHHHh----CCCCcEEEECCCCccHHHHHHHHHHhC
Confidence            4568999999999988887653    234468899999999999999998753

>cd00071 GMPK Guanosine monophosphate kinase (GMPK, EC 2

Probab=95.02  E-value=0.016  Score=47.72  Aligned_cols=22  Identities=32%  Similarity=0.475  Sum_probs=20.0

Q ss_pred             EEEeeeCCCcHHHHHHHHhcCC
Q 038234          105 ISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       105 i~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      ++|+|+.|+|||||++.+.+..
T Consensus         2 i~i~GpsGsGKstl~~~L~~~~   23 (137)
T cd00071           2 IVLSGPSGVGKSTLLKRLLEEF   23 (137)
T ss_pred             EEEECCCCCCHHHHHHHHHhcC
Confidence            7899999999999999998764

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.

>PRK14530 adenylate kinase; Provisional

Probab=95.01  E-value=0.014  Score=52.15  Aligned_cols=24  Identities=25%  Similarity=0.241  Sum_probs=21.0

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcCCh
Q 038234          104 MISIVGMGGIGKITLAQMAYNDKD  127 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~~~  127 (406)
                      .|.|+|++|+||||+|+.+.+...
T Consensus         5 ~I~i~G~pGsGKsT~~~~La~~~~   28 (215)
T PRK14530          5 RILLLGAPGAGKGTQSSNLAEEFG   28 (215)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            689999999999999998876554

>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=95.00  E-value=0.035  Score=46.80  Aligned_cols=36  Identities=25%  Similarity=0.315  Sum_probs=30.3

Q ss_pred             hhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234           82 YKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus        82 ~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      +.+++|.+.|..         ++++++|..|+|||||...+....
T Consensus        24 ~g~~~l~~~l~~---------k~~vl~G~SGvGKSSLiN~L~~~~   59 (161)
T PF03193_consen   24 EGIEELKELLKG---------KTSVLLGQSGVGKSSLINALLPEA   59 (161)
T ss_dssp             TTHHHHHHHHTT---------SEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             cCHHHHHHHhcC---------CEEEEECCCCCCHHHHHHHHHhhc
Confidence            467888888852         589999999999999999988775

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.

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

Probab=94.99  E-value=0.022  Score=47.70  Aligned_cols=25  Identities=32%  Similarity=0.599  Sum_probs=20.8

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      .+++.|+|.+|+||||+.+.+.+..
T Consensus         4 ~kvvvitGVpGvGKTTVl~~~~~~l   28 (189)
T COG2019           4 RKVVVITGVPGVGKTTVLKIALKEL   28 (189)
T ss_pred             ceEEEEEcCCCCChHHHHHHHHHHH
Confidence            6799999999999999986665543

>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=94.99  E-value=0.017  Score=48.31  Aligned_cols=22  Identities=32%  Similarity=0.537  Sum_probs=19.5

Q ss_pred             EEEeeeCCCcHHHHHHHHhcCC
Q 038234          105 ISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       105 i~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      |.|+|++|.||||+|+.+....
T Consensus         2 i~l~G~~GsGKstla~~la~~l   23 (154)
T cd00464           2 IVLIGMMGAGKTTVGRLLAKAL   23 (154)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHh
Confidence            6899999999999999987654

Chorismic acid is a important intermediate in the synthesis of aromatic compounds, such as aromatic amino acids, p-aminobenzoic acid, folate and ubiquinone. Shikimate kinase catalyses the phosphorylation of the 3-hydroxyl group of shikimic acid using ATP.

>PRK10078 ribose 1,5-bisphosphokinase; Provisional

Probab=94.98  E-value=0.02  Score=49.79  Aligned_cols=24  Identities=29%  Similarity=0.397  Sum_probs=21.1

Q ss_pred             EEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          103 KMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       103 ~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      .++.|+|+.|+|||||++.+....
T Consensus         3 ~~i~l~G~sGsGKsTl~~~l~~~~   26 (186)
T PRK10078          3 KLIWLMGPSGSGKDSLLAALRQRE   26 (186)
T ss_pred             cEEEEECCCCCCHHHHHHHHhccC
Confidence            378999999999999999997664

>PRK14527 adenylate kinase; Provisional

Probab=94.95  E-value=0.019  Score=50.20  Aligned_cols=27  Identities=26%  Similarity=0.255  Sum_probs=23.0

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHhcCCh
Q 038234          101 PIKMISIVGMGGIGKITLAQMAYNDKD  127 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~~~~~  127 (406)
                      ...+|.|+|++|+||||+|+.+.+...
T Consensus         5 ~~~~i~i~G~pGsGKsT~a~~La~~~~   31 (191)
T PRK14527          5 KNKVVIFLGPPGAGKGTQAERLAQELG   31 (191)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHhC
Confidence            467899999999999999998876543

>TIGR03797 NHPM_micro_ABC2 NHPM bacteriocin system ABC transporter, ATP-binding protein

Probab=94.95  E-value=0.034  Score=58.77  Aligned_cols=28  Identities=32%  Similarity=0.496  Sum_probs=23.3

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhcCCh
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYNDKD  127 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~  127 (406)
                      ++...++|+|..|.|||||++.+..-..
T Consensus       477 ~~Ge~vaIvG~sGsGKSTLlklL~gl~~  504 (686)
T TIGR03797       477 EPGEFVAIVGPSGSGKSTLLRLLLGFET  504 (686)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCC
Confidence            3456899999999999999998877543

Members of this protein family are ABC transporter ATP-binding subunits, part of a three-gene putative bacteriocin transport operon. The other subunits include another ATP-binding subunit (TIGR03796), which has an N-terminal propeptide cleavage domain, and an HlyD homolog (TIGR03794). In a number of genomes, a conserved propeptide sequence with a classic Gly-Gly motif

>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=94.95  E-value=0.018  Score=49.24  Aligned_cols=22  Identities=36%  Similarity=0.501  Sum_probs=18.3

Q ss_pred             EEEeeeCCCcHHHHHHHHhcCC
Q 038234          105 ISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       105 i~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      |.|+|.+|+|||||++.+++..
T Consensus         2 i~iTG~pG~GKTTll~k~i~~l   23 (168)
T PF03266_consen    2 IFITGPPGVGKTTLLKKVIEEL   23 (168)
T ss_dssp             EEEES-TTSSHHHHHHHHHHHH
T ss_pred             EEEECcCCCCHHHHHHHHHHHh
Confidence            6899999999999999887654

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.

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

Probab=94.94  E-value=0.041  Score=55.22  Aligned_cols=125  Identities=12%  Similarity=0.159  Sum_probs=71.7

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCChHHHHH-----HHHHHhcCCCCCCCCHHHHHHHHHhhccCcceeEEeeCCCCc--
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDKDFRVAK-----AIIAALGCETSNLGSLQSLVRCISESIEGKKYLVVLDDVWTD--  174 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~~-----~i~~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdvw~~--  174 (406)
                      +.-|.+||++|.|||-||++|+|.....|..     -+-..++      .+...+....++.-..-++.|+||.+..-  
T Consensus       545 PsGvLL~GPPGCGKTLlAKAVANEag~NFisVKGPELlNkYVG------ESErAVR~vFqRAR~saPCVIFFDEiDaL~p  618 (802)
T KOG0733|consen  545 PSGVLLCGPPGCGKTLLAKAVANEAGANFISVKGPELLNKYVG------ESERAVRQVFQRARASAPCVIFFDEIDALVP  618 (802)
T ss_pred             CCceEEeCCCCccHHHHHHHHhhhccCceEeecCHHHHHHHhh------hHHHHHHHHHHHhhcCCCeEEEecchhhcCc
Confidence            5568899999999999999999987652210     0111111      22334444555555678999999988431  


Q ss_pred             ---CccCc------chhhhccCC--CCCCcEEEEecCChHHHHH--hcc---CCccccCCCChHHHHHhhhhhc
Q 038234          175 ---DYTKW------EPFQRCSAN--GQCGNNILVTTHKKTVARM--MES---TNFISIKELSTQECWSLFKQES  232 (406)
Q Consensus       175 ---~~~~~------~~l~~~l~~--~~~gs~IivTtR~~~v~~~--~~~---~~~~~l~~L~~~~a~~Lf~~~~  232 (406)
                         +...|      +++..-+..  ...|--||-.|-.+++..-  +.+   .+.+-++.-+.+|-..+++...
T Consensus       619 ~R~~~~s~~s~RvvNqLLtElDGl~~R~gV~viaATNRPDiIDpAiLRPGRlDk~LyV~lPn~~eR~~ILK~~t  692 (802)
T KOG0733|consen  619 RRSDEGSSVSSRVVNQLLTELDGLEERRGVYVIAATNRPDIIDPAILRPGRLDKLLYVGLPNAEERVAILKTIT  692 (802)
T ss_pred             ccCCCCchhHHHHHHHHHHHhcccccccceEEEeecCCCcccchhhcCCCccCceeeecCCCHHHHHHHHHHHh
Confidence               11122      233333332  2335556655554444321  122   5566677777777777777643

>COG1066 Sms Predicted ATP-dependent serine protease [Posttranslational modification, protein turnover, chaperones]

Probab=94.94  E-value=0.089  Score=50.54  Aligned_cols=70  Identities=30%  Similarity=0.297  Sum_probs=46.9

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHhcCChH-------------HHHHHHHHHhcCCCC-----CCCCHHHHHHHHHhhccCc
Q 038234          101 PIKMISIVGMGGIGKITLAQMAYNDKDF-------------RVAKAIIAALGCETS-----NLGSLQSLVRCISESIEGK  162 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~-------------~~~~~i~~~l~~~~~-----~~~~~~~~~~~l~~~l~~k  162 (406)
                      +-.+|.|-|-+|||||||..++..+...             .-.+--+..++....     ...+.+.+.+.+.+   .+
T Consensus        92 ~Gs~iLIgGdPGIGKSTLLLQva~~lA~~~~vLYVsGEES~~QiklRA~RL~~~~~~l~l~aEt~~e~I~~~l~~---~~  168 (456)
T COG1066          92 PGSVILIGGDPGIGKSTLLLQVAARLAKRGKVLYVSGEESLQQIKLRADRLGLPTNNLYLLAETNLEDIIAELEQ---EK  168 (456)
T ss_pred             cccEEEEccCCCCCHHHHHHHHHHHHHhcCcEEEEeCCcCHHHHHHHHHHhCCCccceEEehhcCHHHHHHHHHh---cC
Confidence            3568999999999999998777665432             223333445543322     23566666666665   68


Q ss_pred             ceeEEeeCCCC
Q 038234          163 KYLVVLDDVWT  173 (406)
Q Consensus       163 r~LlVlDdvw~  173 (406)
                      +-|+|+|-++.
T Consensus       169 p~lvVIDSIQT  179 (456)
T COG1066         169 PDLVVIDSIQT  179 (456)
T ss_pred             CCEEEEeccce
Confidence            89999998854

>PRK13975 thymidylate kinase; Provisional

Probab=94.90  E-value=0.018  Score=50.43  Aligned_cols=25  Identities=32%  Similarity=0.478  Sum_probs=22.0

Q ss_pred             EEEEEeeeCCCcHHHHHHHHhcCCh
Q 038234          103 KMISIVGMGGIGKITLAQMAYNDKD  127 (406)
Q Consensus       103 ~vi~I~G~gGiGKTtLA~~v~~~~~  127 (406)
                      ..|.|.|+.|+||||+|+.+.+...
T Consensus         3 ~~I~ieG~~GsGKtT~~~~L~~~l~   27 (196)
T PRK13975          3 KFIVFEGIDGSGKTTQAKLLAEKLN   27 (196)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhC
Confidence            5799999999999999999887654

>TIGR01313 therm_gnt_kin carbohydrate kinase, thermoresistant glucokinase family

Probab=94.90  E-value=0.015  Score=49.32  Aligned_cols=22  Identities=27%  Similarity=0.433  Sum_probs=18.9

Q ss_pred             EEEeeeCCCcHHHHHHHHhcCC
Q 038234          105 ISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       105 i~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      |.|+|++|+||||+|+.+.+..
T Consensus         1 i~l~G~~GsGKSTla~~l~~~l   22 (163)
T TIGR01313         1 FVLMGVAGSGKSTIASALAHRL   22 (163)
T ss_pred             CEEECCCCCCHHHHHHHHHHhc
Confidence            4689999999999999887654

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.

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

Probab=94.90  E-value=0.021  Score=50.93  Aligned_cols=25  Identities=36%  Similarity=0.399  Sum_probs=21.4

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          101 PIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ...+++|+|.+|.|||||++.+.--
T Consensus        32 ~Ge~lgivGeSGsGKSTL~r~l~Gl   56 (252)
T COG1124          32 RGETLGIVGESGSGKSTLARLLAGL   56 (252)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHhcc
Confidence            3558999999999999999988654

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

Probab=94.87  E-value=0.15  Score=46.50  Aligned_cols=27  Identities=26%  Similarity=0.235  Sum_probs=23.3

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHhcCCh
Q 038234          101 PIKMISIVGMGGIGKITLAQMAYNDKD  127 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~~~~~  127 (406)
                      ...+++|.|+.|+|||||.+.++.-..
T Consensus        27 ~G~i~~iiGpNG~GKSTLLk~l~g~l~   53 (258)
T COG1120          27 KGEITGILGPNGSGKSTLLKCLAGLLK   53 (258)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhccCC
Confidence            356899999999999999999988543

>TIGR02238 recomb_DMC1 meiotic recombinase Dmc1

Probab=94.86  E-value=0.097  Score=49.49  Aligned_cols=25  Identities=16%  Similarity=0.243  Sum_probs=21.2

Q ss_pred             CCCcEEEEEeeeCCCcHHHHHHHHh
Q 038234           99 QKPIKMISIVGMGGIGKITLAQMAY  123 (406)
Q Consensus        99 ~~~~~vi~I~G~gGiGKTtLA~~v~  123 (406)
                      =+...++-|+|.+|+|||+|+.+++
T Consensus        93 i~~G~iteI~G~~GsGKTql~lqla  117 (313)
T TIGR02238        93 IESMSITEVFGEFRCGKTQLSHTLC  117 (313)
T ss_pred             CcCCeEEEEECCCCCCcCHHHHHHH
Confidence            3557899999999999999997655

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.

>PLN02200 adenylate kinase family protein

Probab=94.83  E-value=0.022  Score=51.58  Aligned_cols=27  Identities=19%  Similarity=0.092  Sum_probs=23.0

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHhcCCh
Q 038234          101 PIKMISIVGMGGIGKITLAQMAYNDKD  127 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~~~~~  127 (406)
                      ...+|.|.|++|+||||+|+.+.+...
T Consensus        42 ~~~ii~I~G~PGSGKsT~a~~La~~~g   68 (234)
T PLN02200         42 TPFITFVLGGPGSGKGTQCEKIVETFG   68 (234)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHhC
Confidence            456899999999999999998876544

>COG0410 LivF ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]

Probab=94.82  E-value=0.096  Score=46.44  Aligned_cols=27  Identities=22%  Similarity=0.335  Sum_probs=23.4

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHhcCCh
Q 038234          101 PIKMISIVGMGGIGKITLAQMAYNDKD  127 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~~~~~  127 (406)
                      .-.++++.|..|+|||||.+.++....
T Consensus        28 ~Geiv~llG~NGaGKTTlLkti~Gl~~   54 (237)
T COG0410          28 RGEIVALLGRNGAGKTTLLKTIMGLVR   54 (237)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCC
Confidence            356899999999999999999987654

>PRK08972 fliI flagellum-specific ATP synthase; Validated

Probab=94.82  E-value=0.049  Score=53.39  Aligned_cols=25  Identities=20%  Similarity=0.271  Sum_probs=22.0

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      ...++|+|..|+|||||++.+.+..
T Consensus       162 GqrigI~G~sG~GKSTLL~~I~~~~  186 (444)
T PRK08972        162 GQRMGLFAGSGVGKSVLLGMMTRGT  186 (444)
T ss_pred             CCEEEEECCCCCChhHHHHHhccCC
Confidence            4578999999999999999998754

>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=94.80  E-value=0.1  Score=54.74  Aligned_cols=23  Identities=26%  Similarity=0.358  Sum_probs=19.5

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhc
Q 038234          102 IKMISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      ..+++++|+.|+||||++.+++.
T Consensus       185 g~Vi~lVGpnGvGKTTTiaKLA~  207 (767)
T PRK14723        185 GGVLALVGPTGVGKTTTTAKLAA  207 (767)
T ss_pred             CeEEEEECCCCCcHHHHHHHHHh
Confidence            57999999999999998766653

>CHL00206 ycf2 Ycf2; Provisional

Probab=94.80  E-value=0.089  Score=59.74  Aligned_cols=29  Identities=21%  Similarity=0.319  Sum_probs=25.6

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhcCChH
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYNDKDF  128 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~  128 (406)
                      ...+-|.++|++|.|||.||++++....+
T Consensus      1628 ~pPKGILLiGPPGTGKTlLAKALA~es~V 1656 (2281)
T CHL00206       1628 SPSRGILVIGSIGTGRSYLVKYLATNSYV 1656 (2281)
T ss_pred             CCCCceEEECCCCCCHHHHHHHHHHhcCC
Confidence            44678899999999999999999998776

>TIGR02902 spore_lonB ATP-dependent protease LonB

Probab=94.80  E-value=0.034  Score=56.62  Aligned_cols=43  Identities=26%  Similarity=0.362  Sum_probs=35.1

Q ss_pred             ceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhc
Q 038234           76 EICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus        76 ~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      +++|.+..++.+...+...      ...-+.|+|.+|+|||++|+.+++
T Consensus        66 ~iiGqs~~i~~l~~al~~~------~~~~vLi~Ge~GtGKt~lAr~i~~  108 (531)
T TIGR02902        66 EIIGQEEGIKALKAALCGP------NPQHVIIYGPPGVGKTAAARLVLE  108 (531)
T ss_pred             HeeCcHHHHHHHHHHHhCC------CCceEEEECCCCCCHHHHHHHHHH
Confidence            5899999999998877532      234568999999999999999875

Members of this protein are LonB, a paralog of the ATP-dependent protease La (LonA, TIGR00763). LonB proteins are found strictly, and almost universally, in endospore-forming bacteria. This protease was shown, in Bacillus subtilis, to be expressed specifically in the forespore, during sporulation, under control of sigma(F). The lonB gene, despite location immediately upstream of lonA, was shown to be monocistronic. LonB appears able to act on sigma(H) for post-translation control, but lonB mutation did not produce an obvious sporulation defect under the conditions tested. Note that additional paralogs of LonA and LonB occur in the Clostridium lineage and this model selects only one per species as the protein that corresponds to LonB in B. subtilis.

>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=94.79  E-value=0.029  Score=43.80  Aligned_cols=22  Identities=36%  Similarity=0.339  Sum_probs=19.6

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHh
Q 038234          102 IKMISIVGMGGIGKITLAQMAY  123 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~  123 (406)
                      -..++|+|++|.|||||+..+.
T Consensus        15 ge~v~I~GpSGsGKSTLl~~l~   36 (107)
T cd00820          15 KVGVLITGDSGIGKTELALELI   36 (107)
T ss_pred             CEEEEEEcCCCCCHHHHHHHhh
Confidence            4689999999999999998864

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

>COG0194 Gmk Guanylate kinase [Nucleotide transport and metabolism]

Probab=94.79  E-value=0.026  Score=48.31  Aligned_cols=25  Identities=32%  Similarity=0.476  Sum_probs=22.8

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      ..++.|.|++|+|||||+++++.+.
T Consensus         4 G~l~vlsgPSG~GKsTl~k~L~~~~   28 (191)
T COG0194           4 GLLIVLSGPSGVGKSTLVKALLEDD   28 (191)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhhc
Confidence            5688999999999999999998876

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

Probab=94.77  E-value=0.077  Score=48.11  Aligned_cols=28  Identities=32%  Similarity=0.383  Sum_probs=22.8

Q ss_pred             CCCcEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234           99 QKPIKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus        99 ~~~~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      ......|.++||+|.||||..+.++.+.
T Consensus        16 ~~~p~~ilVvGMAGSGKTTF~QrL~~hl   43 (366)
T KOG1532|consen   16 IQRPVIILVVGMAGSGKTTFMQRLNSHL   43 (366)
T ss_pred             ccCCcEEEEEecCCCCchhHHHHHHHHH
Confidence            3456688999999999999998877654

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

Probab=94.75  E-value=0.028  Score=52.06  Aligned_cols=36  Identities=33%  Similarity=0.371  Sum_probs=26.6

Q ss_pred             HHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234           84 KNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus        84 ~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      ...+++.+...       .+-+.++|+.|+|||++++...+..
T Consensus        22 ~~~ll~~l~~~-------~~pvLl~G~~GtGKT~li~~~l~~l   57 (272)
T PF12775_consen   22 YSYLLDLLLSN-------GRPVLLVGPSGTGKTSLIQNFLSSL   57 (272)
T ss_dssp             HHHHHHHHHHC-------TEEEEEESSTTSSHHHHHHHHHHCS
T ss_pred             HHHHHHHHHHc-------CCcEEEECCCCCchhHHHHhhhccC
Confidence            35566666643       4467899999999999998877543

>COG0703 AroK Shikimate kinase [Amino acid transport and metabolism]

Probab=94.74  E-value=0.046  Score=46.43  Aligned_cols=25  Identities=24%  Similarity=0.369  Sum_probs=21.2

Q ss_pred             EEEEEeeeCCCcHHHHHHHHhcCCh
Q 038234          103 KMISIVGMGGIGKITLAQMAYNDKD  127 (406)
Q Consensus       103 ~vi~I~G~gGiGKTtLA~~v~~~~~  127 (406)
                      +-|.++||.|+||||+.+.+++...
T Consensus         3 ~~IvLiG~mGaGKSTIGr~LAk~L~   27 (172)
T COG0703           3 MNIVLIGFMGAGKSTIGRALAKALN   27 (172)
T ss_pred             ccEEEEcCCCCCHhHHHHHHHHHcC
Confidence            3578999999999999999987544

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

Probab=94.74  E-value=0.021  Score=46.88  Aligned_cols=25  Identities=32%  Similarity=0.337  Sum_probs=21.1

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      ..-|.|.|.+|+|||||+..++...
T Consensus         7 ~PNILvtGTPG~GKstl~~~lae~~   31 (176)
T KOG3347|consen    7 RPNILVTGTPGTGKSTLAERLAEKT   31 (176)
T ss_pred             CCCEEEeCCCCCCchhHHHHHHHHh
Confidence            3458899999999999999998654

>PRK13948 shikimate kinase; Provisional

Probab=94.73  E-value=0.023  Score=49.20  Aligned_cols=27  Identities=19%  Similarity=0.390  Sum_probs=23.2

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      .+...|.++|+.|+||||+++.+.+..
T Consensus         8 ~~~~~I~LiG~~GsGKSTvg~~La~~l   34 (182)
T PRK13948          8 RPVTWVALAGFMGTGKSRIGWELSRAL   34 (182)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHHHc
Confidence            346789999999999999999988754

>TIGR00390 hslU ATP-dependent protease HslVU, ATPase subunit

Probab=94.73  E-value=0.035  Score=53.98  Aligned_cols=53  Identities=23%  Similarity=0.278  Sum_probs=36.7

Q ss_pred             CceecchhhHHHHHHHHhcC--------CCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCCh
Q 038234           75 SEICGRDYKKNELLSKLLSD--------SSDQQKPIKMISIVGMGGIGKITLAQMAYNDKD  127 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~--------~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~  127 (406)
                      .+++|.++.++.+.-.+...        ...+.-..+.|.++|++|+|||+||+.+.....
T Consensus        12 ~~IiGQ~eAkk~lsvAl~n~~~r~~~~~~~~~e~~p~~ILLiGppG~GKT~lAraLA~~l~   72 (441)
T TIGR00390        12 KYIIGQDNAKKSVAIALRNRYRRSQLNEELKDEVTPKNILMIGPTGVGKTEIARRLAKLAN   72 (441)
T ss_pred             hhccCHHHHHHHHHHHHHhhhhhhccccccccccCCceEEEECCCCCCHHHHHHHHHHHhC
Confidence            45788888888776555431        000112346789999999999999998877543

This model represents the ATPase subunit of HslVU, while the proteasome-related peptidase subunit is HslV. Residues 54-61 of the model contain a P-loop ATP-binding motif. Cys-287 of E. coli (position 308 in the seed alignment), studied in PubMed:98389714, is Ser in other members of the seed alignment.

>PF13521 AAA_28: AAA domain; PDB: 1LW7_A

Probab=94.73  E-value=0.021  Score=48.46  Aligned_cols=21  Identities=33%  Similarity=0.322  Sum_probs=17.2

Q ss_pred             EEEeeeCCCcHHHHHHHHhcC
Q 038234          105 ISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       105 i~I~G~gGiGKTtLA~~v~~~  125 (406)
                      |+|+|..|+|||||+..+...
T Consensus         2 I~i~G~~stGKTTL~~~L~~~   22 (163)
T PF13521_consen    2 IVITGGPSTGKTTLIEALAAR   22 (163)
T ss_dssp             EEEE--TTSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHc
Confidence            789999999999999988765

>PRK06067 flagellar accessory protein FlaH; Validated

Probab=94.71  E-value=0.06  Score=48.65  Aligned_cols=25  Identities=32%  Similarity=0.236  Sum_probs=21.6

Q ss_pred             CCCcEEEEEeeeCCCcHHHHHHHHh
Q 038234           99 QKPIKMISIVGMGGIGKITLAQMAY  123 (406)
Q Consensus        99 ~~~~~vi~I~G~gGiGKTtLA~~v~  123 (406)
                      =+...++.|+|.+|+|||+||.++.
T Consensus        22 ~~~g~~~~i~G~~GsGKt~l~~~~~   46 (234)
T PRK06067         22 IPFPSLILIEGDHGTGKSVLSQQFV   46 (234)
T ss_pred             CcCCcEEEEECCCCCChHHHHHHHH
Confidence            3557799999999999999998874

>cd04155 Arl3 Arl3 subfamily

Probab=94.69  E-value=0.028  Score=47.84  Aligned_cols=24  Identities=25%  Similarity=0.360  Sum_probs=21.1

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ...|+|+|.+|+|||||...+...
T Consensus        14 ~~~v~i~G~~g~GKStLl~~l~~~   37 (173)
T cd04155          14 EPRILILGLDNAGKTTILKQLASE   37 (173)
T ss_pred             ccEEEEEccCCCCHHHHHHHHhcC
Confidence            456899999999999999998765

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.

>TIGR02203 MsbA_lipidA lipid A export permease/ATP-binding protein MsbA

Probab=94.69  E-value=0.03  Score=57.74  Aligned_cols=26  Identities=31%  Similarity=0.413  Sum_probs=21.9

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          101 PIKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      +...++|+|..|.|||||++.+....
T Consensus       357 ~G~~v~IvG~sGsGKSTLl~lL~gl~  382 (571)
T TIGR02203       357 PGETVALVGRSGSGKSTLVNLIPRFY  382 (571)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhcc
Confidence            45689999999999999999886553

This family consists of a single polypeptide chain transporter in the ATP-binding cassette (ABC) transporter family, MsbA, which exports lipid A. It may also act in multidrug resistance. Lipid A, a part of lipopolysaccharide, is found in the outer leaflet of the outer membrane of most Gram-negative bacteria. Members of this family are restricted to the Proteobacteria (although lipid A is more broadly distributed) and often are clustered with lipid A biosynthesis genes.

>PRK05057 aroK shikimate kinase I; Reviewed

Probab=94.68  E-value=0.022  Score=48.90  Aligned_cols=25  Identities=28%  Similarity=0.304  Sum_probs=21.4

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      .+.|.|+|+.|+|||||++.+.+..
T Consensus         4 ~~~I~liG~~GaGKStl~~~La~~l   28 (172)
T PRK05057          4 KRNIFLVGPMGAGKSTIGRQLAQQL   28 (172)
T ss_pred             CCEEEEECCCCcCHHHHHHHHHHHc
Confidence            3468999999999999999998654

>PRK04182 cytidylate kinase; Provisional

Probab=94.67  E-value=0.023  Score=48.82  Aligned_cols=25  Identities=32%  Similarity=0.489  Sum_probs=22.0

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcCChH
Q 038234          104 MISIVGMGGIGKITLAQMAYNDKDF  128 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~~~~  128 (406)
                      +|.|.|+.|+||||+|+.+.+....
T Consensus         2 ~I~i~G~~GsGKstia~~la~~lg~   26 (180)
T PRK04182          2 IITISGPPGSGKTTVARLLAEKLGL   26 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcCC
Confidence            6899999999999999999876543

>PRK13236 nitrogenase reductase; Reviewed

Probab=94.66  E-value=0.028  Score=52.78  Aligned_cols=24  Identities=42%  Similarity=0.635  Sum_probs=20.3

Q ss_pred             CCCcEEEEEeeeCCCcHHHHHHHH
Q 038234           99 QKPIKMISIVGMGGIGKITLAQMA  122 (406)
Q Consensus        99 ~~~~~vi~I~G~gGiGKTtLA~~v  122 (406)
                      ++..+++++.|-|||||||+|..+
T Consensus         3 ~~~~~~~~~~GKGGVGKTt~a~NL   26 (296)
T PRK13236          3 DENIRQIAFYGKGGIGKSTTSQNT   26 (296)
T ss_pred             CcCceEEEEECCCcCCHHHHHHHH
Confidence            456799999999999999987554

>TIGR01287 nifH nitrogenase iron protein

Probab=94.66  E-value=0.022  Score=52.95  Aligned_cols=21  Identities=48%  Similarity=0.626  Sum_probs=17.5

Q ss_pred             EEEEEeeeCCCcHHHHHHHHh
Q 038234          103 KMISIVGMGGIGKITLAQMAY  123 (406)
Q Consensus       103 ~vi~I~G~gGiGKTtLA~~v~  123 (406)
                      +.|+|+|-||+||||++..++
T Consensus         1 ~~ia~~gKGGVGKTT~a~nLA   21 (275)
T TIGR01287         1 RQIAIYGKGGIGKSTTTQNIA   21 (275)
T ss_pred             CeeEEeCCCcCcHHHHHHHHH
Confidence            368999999999999886654

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.

>cd01878 HflX HflX subfamily

Probab=94.63  E-value=0.072  Score=46.89  Aligned_cols=25  Identities=28%  Similarity=0.372  Sum_probs=21.7

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      ...|+|+|.+|+|||||...+.+..
T Consensus        41 ~~~I~iiG~~g~GKStLl~~l~~~~   65 (204)
T cd01878          41 IPTVALVGYTNAGKSTLFNALTGAD   65 (204)
T ss_pred             CCeEEEECCCCCCHHHHHHHHhcch
Confidence            5688999999999999998887753

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.

>PRK09435 membrane ATPase/protein kinase; Provisional

Probab=94.62  E-value=0.051  Score=51.62  Aligned_cols=37  Identities=32%  Similarity=0.399  Sum_probs=27.5

Q ss_pred             HHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhc
Q 038234           84 KNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus        84 ~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      ...+.+.+...    ..+..+|+|.|.+|+|||||+..+..
T Consensus        42 ~~~l~~~~~~~----~~~~~~igi~G~~GaGKSTl~~~l~~   78 (332)
T PRK09435         42 AQELLDALLPH----TGNALRIGITGVPGVGKSTFIEALGM   78 (332)
T ss_pred             HHHHHHHHhhc----CCCcEEEEEECCCCCCHHHHHHHHHH
Confidence            34566665432    34578999999999999999977544

>COG4181 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]

Probab=94.62  E-value=0.2  Score=42.50  Aligned_cols=58  Identities=14%  Similarity=0.244  Sum_probs=36.0

Q ss_pred             HHHHhhccCcceeEEeeCCCCc-CccCcchhhhcc--CCCCCCcEEEEecCChHHHHHhcc
Q 038234          153 RCISESIEGKKYLVVLDDVWTD-DYTKWEPFQRCS--ANGQCGNNILVTTHKKTVARMMES  210 (406)
Q Consensus       153 ~~l~~~l~~kr~LlVlDdvw~~-~~~~~~~l~~~l--~~~~~gs~IivTtR~~~v~~~~~~  210 (406)
                      -.|.+.+...+-+|+-|.---+ |...-+.+...+  .+...|+-.++-|.++.+|..|..
T Consensus       155 VAiARAfa~~P~vLfADEPTGNLD~~Tg~~iaDLlF~lnre~G~TlVlVTHD~~LA~Rc~R  215 (228)
T COG4181         155 VALARAFAGRPDVLFADEPTGNLDRATGDKIADLLFALNRERGTTLVLVTHDPQLAARCDR  215 (228)
T ss_pred             HHHHHHhcCCCCEEeccCCCCCcchhHHHHHHHHHHHHhhhcCceEEEEeCCHHHHHhhhh
Confidence            3567777888889998854110 111112222222  134568889999999999998754

>TIGR00017 cmk cytidylate kinase

Probab=94.60  E-value=0.068  Score=47.72  Aligned_cols=25  Identities=32%  Similarity=0.408  Sum_probs=21.8

Q ss_pred             EEEEEeeeCCCcHHHHHHHHhcCCh
Q 038234          103 KMISIVGMGGIGKITLAQMAYNDKD  127 (406)
Q Consensus       103 ~vi~I~G~gGiGKTtLA~~v~~~~~  127 (406)
                      .+|+|.|+.|.||||+|+.+.....
T Consensus         3 ~~i~i~G~~GsGKst~~~~la~~~~   27 (217)
T TIGR00017         3 MIIAIDGPSGAGKSTVAKAVAEKLG   27 (217)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhC
Confidence            4799999999999999999986544

This family consists of cytidylate kinase, which catalyzes the phosphorylation of cytidine 5-monophosphate (dCMP) to cytidine 5 -diphosphate (dCDP) in the presence of ATP or GTP. UMP and dCMP can also act as acceptors.

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

Probab=94.60  E-value=0.058  Score=52.50  Aligned_cols=54  Identities=22%  Similarity=0.241  Sum_probs=38.1

Q ss_pred             CceecchhhHHHHHHHHhcC--------CCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChH
Q 038234           75 SEICGRDYKKNELLSKLLSD--------SSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDF  128 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~--------~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~  128 (406)
                      ..++|.+..++.+..++...        .....-..+.|.++|++|+|||+||+.+......
T Consensus        15 ~~IiGQe~AkkalavAl~~~~~r~~l~~~~~~e~~~~~ILliGp~G~GKT~LAr~LAk~l~~   76 (443)
T PRK05201         15 KYIIGQDDAKRAVAIALRNRWRRMQLPEELRDEVTPKNILMIGPTGVGKTEIARRLAKLANA   76 (443)
T ss_pred             cccCCHHHHHHHHHHHHHHHHHHhcCCcccccccCCceEEEECCCCCCHHHHHHHHHHHhCC
Confidence            45889988888887777431        0000112467899999999999999988776543

>KOG1051 consensus Chaperone HSP104 and related ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones]

Probab=94.59  E-value=0.11  Score=55.07  Aligned_cols=109  Identities=12%  Similarity=0.198  Sum_probs=61.4

Q ss_pred             ceecchhhHHHHHHHHhcCCCC-CC-CCcEEEEEeeeCCCcHHHHHHHHhcCC----hH-------HHHHHHHHHhcCCC
Q 038234           76 EICGRDYKKNELLSKLLSDSSD-QQ-KPIKMISIVGMGGIGKITLAQMAYNDK----DF-------RVAKAIIAALGCET  142 (406)
Q Consensus        76 ~~vGR~~~~~~l~~~L~~~~~~-~~-~~~~vi~I~G~gGiGKTtLA~~v~~~~----~~-------~~~~~i~~~l~~~~  142 (406)
                      .++|-++.+..+-+.+.....+ .+ .+.-.+.+.|+.|+|||-||++++...    ..       .+..  ...+....
T Consensus       563 ~V~gQ~eAv~aIa~AI~~sr~gl~~~~~~awflflGpdgvGKt~lAkaLA~~~Fgse~~~IriDmse~~e--vskligsp  640 (898)
T KOG1051|consen  563 RVIGQDEAVAAIAAAIRRSRAGLKDPNPDAWFLFLGPDGVGKTELAKALAEYVFGSEENFIRLDMSEFQE--VSKLIGSP  640 (898)
T ss_pred             hccchHHHHHHHHHHHHhhhcccCCCCCCeEEEEECCCchhHHHHHHHHHHHHcCCccceEEechhhhhh--hhhccCCC
Confidence            3556666677776666543221 12 246677899999999999987765533    21       2222  22222222


Q ss_pred             CCCCCHHHHHHHHHhhccCcce-eEEeeCCCCcCccCcchhhhccC
Q 038234          143 SNLGSLQSLVRCISESIEGKKY-LVVLDDVWTDDYTKWEPFQRCSA  187 (406)
Q Consensus       143 ~~~~~~~~~~~~l~~~l~~kr~-LlVlDdvw~~~~~~~~~l~~~l~  187 (406)
                      +..-. .+....|.+.++.++| +|.||||...+......+...+.
T Consensus       641 ~gyvG-~e~gg~LteavrrrP~sVVLfdeIEkAh~~v~n~llq~lD  685 (898)
T KOG1051|consen  641 PGYVG-KEEGGQLTEAVKRRPYSVVLFEEIEKAHPDVLNILLQLLD  685 (898)
T ss_pred             ccccc-chhHHHHHHHHhcCCceEEEEechhhcCHHHHHHHHHHHh
Confidence            21111 1223356666677776 77799997666555554555554

>PRK15453 phosphoribulokinase; Provisional

Probab=94.59  E-value=0.029  Score=51.60  Aligned_cols=25  Identities=20%  Similarity=0.333  Sum_probs=21.5

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhc
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      ....+|+|.|.+|+||||+|+.+.+
T Consensus         3 ~k~piI~ItG~SGsGKTTva~~l~~   27 (290)
T PRK15453          3 AKHPIIAVTGSSGAGTTTVKRAFEK   27 (290)
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHH
Confidence            3467999999999999999987764

>PRK07132 DNA polymerase III subunit delta'; Validated

Probab=94.57  E-value=0.06  Score=50.48  Aligned_cols=131  Identities=11%  Similarity=0.042  Sum_probs=78.8

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhcCChH--------HHHHHHHHHhcCCCCCCCCHHHHHHHHHhh----cc-CcceeE
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYNDKDF--------RVAKAIIAALGCETSNLGSLQSLVRCISES----IE-GKKYLV  166 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~--------~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~----l~-~kr~Ll  166 (406)
                      .-.++..++|..|.||+++|..+.+..-.        .....-...+.. .......+++...+...    .. +++-++
T Consensus        16 ~l~haYLf~G~eg~gk~~~a~~~a~~l~c~~~~~~~~~~~p~n~~~~d~-~g~~i~vd~Ir~l~~~~~~~~~~~~~~Kvv   94 (299)
T PRK07132         16 KISHSFLLKSNYNEDIDEKILYFLNKFNNLQITNLNEQELPANIILFDI-FDKDLSKSEFLSAINKLYFSSFVQSQKKIL   94 (299)
T ss_pred             CCCeEEEEeCCCCCCHHHHHHHHHHHHcCcCCCCCCCCCCCcceEEecc-CCCcCCHHHHHHHHHHhccCCcccCCceEE
Confidence            34667889999999999999876544200        000000000000 01112344544433333    12 577889


Q ss_pred             EeeCCCCcCccCcchhhhccCCCCCCcEEEEecCC-hHHHHH-hccCCccccCCCChHHHHHhhhhh
Q 038234          167 VLDDVWTDDYTKWEPFQRCSANGQCGNNILVTTHK-KTVARM-MESTNFISIKELSTQECWSLFKQE  231 (406)
Q Consensus       167 VlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTtR~-~~v~~~-~~~~~~~~l~~L~~~~a~~Lf~~~  231 (406)
                      |+|++...+....+.+...+..-+.++.+|++|.+ ..+... .....++++.+++.++....+...
T Consensus        95 II~~~e~m~~~a~NaLLK~LEEPp~~t~~il~~~~~~kll~TI~SRc~~~~f~~l~~~~l~~~l~~~  161 (299)
T PRK07132         95 IIKNIEKTSNSLLNALLKTIEEPPKDTYFLLTTKNINKVLPTIVSRCQVFNVKEPDQQKILAKLLSK  161 (299)
T ss_pred             EEecccccCHHHHHHHHHHhhCCCCCeEEEEEeCChHhChHHHHhCeEEEECCCCCHHHHHHHHHHc
Confidence            99999666655666777777766667777765544 444443 344788999999999988776653

>TIGR01846 type_I_sec_HlyB type I secretion system ABC transporter, HlyB family

Probab=94.56  E-value=0.037  Score=58.60  Aligned_cols=27  Identities=37%  Similarity=0.468  Sum_probs=22.9

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHhcCCh
Q 038234          101 PIKMISIVGMGGIGKITLAQMAYNDKD  127 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~~~~~  127 (406)
                      +...++|+|..|.|||||++.+.....
T Consensus       482 ~G~~vaivG~sGsGKSTL~~ll~g~~~  508 (694)
T TIGR01846       482 PGEFIGIVGPSGSGKSTLTKLLQRLYT  508 (694)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCCC
Confidence            356899999999999999999877543

Type I protein secretion is a system in some Gram-negative bacteria to export proteins (often proteases) across both inner and outer membranes to the extracellular medium. This is one of three proteins of the type I secretion apparatus. Targeted proteins are not cleaved at the N-terminus, but rather carry signals located toward the extreme C-terminus to direct type I secretion.

>TIGR02030 BchI-ChlI magnesium chelatase ATPase subunit I

Probab=94.55  E-value=0.044  Score=52.26  Aligned_cols=45  Identities=27%  Similarity=0.312  Sum_probs=34.5

Q ss_pred             CceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234           75 SEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ..+||.+..+..++-.+..      +...-+.|.|.+|+|||||++.+..-
T Consensus         4 ~~ivgq~~~~~al~~~~~~------~~~g~vli~G~~G~gKttl~r~~~~~   48 (337)
T TIGR02030         4 TAIVGQDEMKLALLLNVID------PKIGGVMVMGDRGTGKSTAVRALAAL   48 (337)
T ss_pred             cccccHHHHHHHHHHHhcC------CCCCeEEEEcCCCCCHHHHHHHHHHh
Confidence            3478988888887666653      23445779999999999999988643

This model represents one of two ATPase subunits of the trimeric magnesium chelatase responsible for insertion of magnesium ion into protoporphyrin IX. This is an essential step in the biosynthesis of both chlorophyll and bacteriochlorophyll. This subunit is found in green plants, photosynthetic algae, cyanobacteria and other photosynthetic bacteria.

>PRK13946 shikimate kinase; Provisional

Probab=94.55  E-value=0.023  Score=49.40  Aligned_cols=26  Identities=23%  Similarity=0.318  Sum_probs=22.5

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCCh
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDKD  127 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~~  127 (406)
                      .+.|.++|++|+||||+++.+.+...
T Consensus        10 ~~~I~l~G~~GsGKsti~~~LA~~Lg   35 (184)
T PRK13946         10 KRTVVLVGLMGAGKSTVGRRLATMLG   35 (184)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHcC
Confidence            45799999999999999999987643

>cd01121 Sms Sms (bacterial radA) DNA repair protein

Probab=94.54  E-value=0.16  Score=49.29  Aligned_cols=26  Identities=38%  Similarity=0.339  Sum_probs=21.7

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      .+..++.|.|.+|+|||||+.+++..
T Consensus        80 ~~GslvLI~G~pG~GKStLllq~a~~  105 (372)
T cd01121          80 VPGSVILIGGDPGIGKSTLLLQVAAR  105 (372)
T ss_pred             cCCeEEEEEeCCCCCHHHHHHHHHHH
Confidence            34679999999999999999877643

This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of branched DNA molecules.

>COG0488 Uup ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]

Probab=94.54  E-value=0.14  Score=51.96  Aligned_cols=60  Identities=15%  Similarity=0.272  Sum_probs=36.6

Q ss_pred             HHhhccCcceeEEeeCCCCc-CccCcchhhhccCCCCCCcEEEEecCChHHHHHhccCCccccC
Q 038234          155 ISESIEGKKYLVVLDDVWTD-DYTKWEPFQRCSANGQCGNNILVTTHKKTVARMMESTNFISIK  217 (406)
Q Consensus       155 l~~~l~~kr~LlVlDdvw~~-~~~~~~~l~~~l~~~~~gs~IivTtR~~~v~~~~~~~~~~~l~  217 (406)
                      +...+-.++-+||||.--+. |.+..+.+...+.... | .||+.|.++.....+. ..++.+.
T Consensus       450 La~ll~~~pNvLiLDEPTNhLDi~s~~aLe~aL~~f~-G-tvl~VSHDr~Fl~~va-~~i~~~~  510 (530)
T COG0488         450 LAKLLLQPPNLLLLDEPTNHLDIESLEALEEALLDFE-G-TVLLVSHDRYFLDRVA-TRIWLVE  510 (530)
T ss_pred             HHHHhccCCCEEEEcCCCccCCHHHHHHHHHHHHhCC-C-eEEEEeCCHHHHHhhc-ceEEEEc
Confidence            44445567889999976321 2234445555665443 4 5888999988877755 3444443

>COG0714 MoxR-like ATPases [General function prediction only]

Probab=94.52  E-value=0.052  Score=51.87  Aligned_cols=45  Identities=22%  Similarity=0.256  Sum_probs=36.0

Q ss_pred             CceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCCh
Q 038234           75 SEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKD  127 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~  127 (406)
                      ..++|.++.+..+...+....        -+.+.|.+|+|||+||+.+.....
T Consensus        24 ~~~~g~~~~~~~~l~a~~~~~--------~vll~G~PG~gKT~la~~lA~~l~   68 (329)
T COG0714          24 KVVVGDEEVIELALLALLAGG--------HVLLEGPPGVGKTLLARALARALG   68 (329)
T ss_pred             CeeeccHHHHHHHHHHHHcCC--------CEEEECCCCccHHHHHHHHHHHhC
Confidence            348898888888877776533        478999999999999999887654

>TIGR02173 cyt_kin_arch cytidylate kinase, putative

Probab=94.50  E-value=0.027  Score=47.98  Aligned_cols=24  Identities=33%  Similarity=0.483  Sum_probs=21.3

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcCCh
Q 038234          104 MISIVGMGGIGKITLAQMAYNDKD  127 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~~~  127 (406)
                      +|.|.|+.|+||||+|+.+.+...
T Consensus         2 iI~i~G~~GSGKstia~~la~~lg   25 (171)
T TIGR02173         2 IITISGPPGSGKTTVAKILAEKLS   25 (171)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcC
Confidence            789999999999999999987544

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.

>PRK05537 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Validated

Probab=94.50  E-value=0.052  Score=55.65  Aligned_cols=49  Identities=20%  Similarity=0.110  Sum_probs=33.9

Q ss_pred             CCceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234           74 ESEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus        74 ~~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      +|..+.|.+-.+.|.+.....    .....+|.|+|++|+||||+|+.++...
T Consensus       368 pP~~f~rpeV~~iL~~~~~~r----~~~g~~Ivl~Gl~GSGKSTia~~La~~L  416 (568)
T PRK05537        368 IPEWFSFPEVVAELRRTYPPR----HKQGFTVFFTGLSGAGKSTIAKALMVKL  416 (568)
T ss_pred             CChhhcHHHHHHHHHHHhccc----cCCCeEEEEECCCCChHHHHHHHHHHHh
Confidence            345556666566555444322    3446689999999999999999987654

>TIGR00750 lao LAO/AO transport system ATPase

Probab=94.46  E-value=0.05  Score=51.22  Aligned_cols=37  Identities=24%  Similarity=0.337  Sum_probs=26.9

Q ss_pred             HHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhc
Q 038234           84 KNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus        84 ~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      ...+++.+...    .....+|+|+|.+|+|||||+..+..
T Consensus        20 ~~~~~~~~~~~----~~~~~~i~i~G~~G~GKttl~~~l~~   56 (300)
T TIGR00750        20 AKQLLDRIMPY----TGNAHRVGITGTPGAGKSTLLEALGM   56 (300)
T ss_pred             HHHHHHhCCcc----cCCceEEEEECCCCCCHHHHHHHHHH
Confidence            34445544332    45688999999999999999987654

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.

>PRK13537 nodulation ABC transporter NodI; Provisional

Probab=94.46  E-value=0.093  Score=49.57  Aligned_cols=25  Identities=24%  Similarity=0.301  Sum_probs=21.9

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      ..+++|.|+.|.|||||.+.+..-.
T Consensus        33 Gei~gllGpNGaGKSTLl~~l~Gl~   57 (306)
T PRK13537         33 GECFGLLGPNGAGKTTTLRMLLGLT   57 (306)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhcCC
Confidence            4589999999999999999887753

>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=94.46  E-value=0.028  Score=50.06  Aligned_cols=21  Identities=48%  Similarity=0.632  Sum_probs=17.7

Q ss_pred             EEEEEeeeCCCcHHHHHHHHh
Q 038234          103 KMISIVGMGGIGKITLAQMAY  123 (406)
Q Consensus       103 ~vi~I~G~gGiGKTtLA~~v~  123 (406)
                      ++|+|.|-||+||||++..++
T Consensus         1 ~~iav~gKGGvGKTt~~~nLA   21 (212)
T cd02117           1 RQIAIYGKGGIGKSTTSQNLS   21 (212)
T ss_pred             CEEEEECCCcCcHHHHHHHHH
Confidence            468999999999999887653

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

>PRK13230 nitrogenase reductase-like protein; Reviewed

Probab=94.44  E-value=0.029  Score=52.25  Aligned_cols=21  Identities=33%  Similarity=0.420  Sum_probs=17.7

Q ss_pred             EEEEEeeeCCCcHHHHHHHHh
Q 038234          103 KMISIVGMGGIGKITLAQMAY  123 (406)
Q Consensus       103 ~vi~I~G~gGiGKTtLA~~v~  123 (406)
                      ++|+|+|-||+||||+|..+.
T Consensus         2 ~~i~~~gKGGVGKTT~a~nLA   22 (279)
T PRK13230          2 RKFCFYGKGGIGKSTTVCNIA   22 (279)
T ss_pred             cEEEEECCCCCcHHHHHHHHH
Confidence            478899999999999886654

>PRK14532 adenylate kinase; Provisional

Probab=94.44  E-value=0.026  Score=49.11  Aligned_cols=24  Identities=21%  Similarity=0.284  Sum_probs=20.8

Q ss_pred             EEEeeeCCCcHHHHHHHHhcCChH
Q 038234          105 ISIVGMGGIGKITLAQMAYNDKDF  128 (406)
Q Consensus       105 i~I~G~gGiGKTtLA~~v~~~~~~  128 (406)
                      |.|.|++|+||||+|+.+.+....
T Consensus         3 i~~~G~pGsGKsT~a~~la~~~g~   26 (188)
T PRK14532          3 LILFGPPAAGKGTQAKRLVEERGM   26 (188)
T ss_pred             EEEECCCCCCHHHHHHHHHHHcCC
Confidence            788999999999999999876543

>CHL00081 chlI Mg-protoporyphyrin IX chelatase

Probab=94.44  E-value=0.037  Score=52.91  Aligned_cols=45  Identities=24%  Similarity=0.314  Sum_probs=35.4

Q ss_pred             CceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234           75 SEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ..+||-++.+..|...+..      +...-|.|.|..|+||||+|+.+++-
T Consensus        17 ~~ivGq~~~k~al~~~~~~------p~~~~vli~G~~GtGKs~~ar~~~~~   61 (350)
T CHL00081         17 TAIVGQEEMKLALILNVID------PKIGGVMIMGDRGTGKSTTIRALVDL   61 (350)
T ss_pred             HHHhChHHHHHHHHHhccC------CCCCeEEEEcCCCCCHHHHHHHHHHH
Confidence            4588998877777776653      34556779999999999999988654

>TIGR01842 type_I_sec_PrtD type I secretion system ABC transporter, PrtD family

Probab=94.43  E-value=0.093  Score=53.83  Aligned_cols=27  Identities=30%  Similarity=0.379  Sum_probs=23.0

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      ++...++|+|..|.|||||++.+....
T Consensus       342 ~~G~~~~ivG~sGsGKSTL~~ll~g~~  368 (544)
T TIGR01842       342 QAGEALAIIGPSGSGKSTLARLIVGIW  368 (544)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            345689999999999999999887654

Type I protein secretion is a system in some Gram-negative bacteria to export proteins (often proteases) across both inner and outer membranes to the extracellular medium. This is one of three proteins of the type I secretion apparatus. Targeted proteins are not cleaved at the N-terminus, but rather carry signals located toward the extreme C-terminus to direct type I secretion.

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

Probab=94.43  E-value=0.076  Score=42.62  Aligned_cols=50  Identities=12%  Similarity=0.244  Sum_probs=32.9

Q ss_pred             ceecchhhHHHHHHHHhcCC-CCCCCCcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234           76 EICGRDYKKNELLSKLLSDS-SDQQKPIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus        76 ~~vGR~~~~~~l~~~L~~~~-~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      .++|-.-..+.+++.+...- ....+.+-|++.+|.+|+|||.+++.+++.
T Consensus        26 ~l~GQhla~~~v~~ai~~~l~~~~p~KpLVlSfHG~tGtGKn~v~~liA~~   76 (127)
T PF06309_consen   26 NLFGQHLAVEVVVNAIKGHLANPNPRKPLVLSFHGWTGTGKNFVSRLIAEH   76 (127)
T ss_pred             HccCcHHHHHHHHHHHHHHHcCCCCCCCEEEEeecCCCCcHHHHHHHHHHH
Confidence            46666555555555443211 112456789999999999999988777665

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

>COG1131 CcmA ABC-type multidrug transport system, ATPase component [Defense mechanisms]

Probab=94.42  E-value=0.11  Score=48.81  Aligned_cols=27  Identities=26%  Similarity=0.410  Sum_probs=22.9

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHhcCCh
Q 038234          101 PIKMISIVGMGGIGKITLAQMAYNDKD  127 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~~~~~  127 (406)
                      +..++++.|+.|.|||||.+.+.....
T Consensus        30 ~Gei~gllG~NGAGKTTllk~l~gl~~   56 (293)
T COG1131          30 PGEIFGLLGPNGAGKTTLLKILAGLLK   56 (293)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHhCCcC
Confidence            356899999999999999998887543

>COG0237 CoaE Dephospho-CoA kinase [Coenzyme metabolism]

Probab=94.42  E-value=0.033  Score=49.01  Aligned_cols=24  Identities=29%  Similarity=0.358  Sum_probs=21.5

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ..+|+|+|+.|+||||+|+.+.+.
T Consensus         2 ~~iIglTG~igsGKStva~~~~~~   25 (201)
T COG0237           2 MLIIGLTGGIGSGKSTVAKILAEL   25 (201)
T ss_pred             ceEEEEecCCCCCHHHHHHHHHHc
Confidence            468999999999999999988883

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=94.41  E-value=0.037  Score=51.21  Aligned_cols=25  Identities=32%  Similarity=0.441  Sum_probs=21.0

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhc
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      .+.+++.++|++|+||||++..++.
T Consensus        70 ~~~~vi~l~G~~G~GKTTt~akLA~   94 (272)
T TIGR00064        70 NKPNVILFVGVNGVGKTTTIAKLAN   94 (272)
T ss_pred             CCCeEEEEECCCCCcHHHHHHHHHH
Confidence            4578999999999999998876654

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.

>TIGR03574 selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal

Probab=94.41  E-value=0.024  Score=51.80  Aligned_cols=23  Identities=26%  Similarity=0.497  Sum_probs=19.6

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcCC
Q 038234          104 MISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      .|.++|++|+||||+|+.+.+..
T Consensus         1 LIvl~G~pGSGKST~a~~La~~l   23 (249)
T TIGR03574         1 LIILTGLPGVGKSTFSKELAKKL   23 (249)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHH
Confidence            37899999999999999887643

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.

>PRK08356 hypothetical protein; Provisional

Probab=94.39  E-value=0.035  Score=48.69  Aligned_cols=23  Identities=26%  Similarity=0.353  Sum_probs=20.1

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhc
Q 038234          102 IKMISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      ..+|+|+|++|+||||+|+.+.+
T Consensus         5 ~~~i~~~G~~gsGK~t~a~~l~~   27 (195)
T PRK08356          5 KMIVGVVGKIAAGKTTVAKFFEE   27 (195)
T ss_pred             cEEEEEECCCCCCHHHHHHHHHH
Confidence            35799999999999999998843

>PRK10790 putative multidrug transporter membrane\ATP-binding components; Provisional

Probab=94.39  E-value=0.047  Score=56.67  Aligned_cols=27  Identities=30%  Similarity=0.388  Sum_probs=22.9

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      ++...++|+|..|.|||||++.+....
T Consensus       365 ~~Ge~iaIvG~SGsGKSTLl~lL~gl~  391 (592)
T PRK10790        365 PSRGFVALVGHTGSGKSTLASLLMGYY  391 (592)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhccc
Confidence            345689999999999999999887754

>KOG0927 consensus Predicted transporter (ABC superfamily) [General function prediction only]

Probab=94.39  E-value=0.2  Score=49.76  Aligned_cols=25  Identities=20%  Similarity=0.294  Sum_probs=22.0

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      .+..+|+|.+|.||||+.+.++.+.
T Consensus       101 g~rygLiG~nG~Gkst~L~~i~~~e  125 (614)
T KOG0927|consen  101 GRRYGLIGPNGSGKSTFLRAIAGRE  125 (614)
T ss_pred             CceEEEEcCCCCcHhHHHHHHhcCC
Confidence            4578999999999999999998864

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

Probab=94.37  E-value=0.18  Score=52.21  Aligned_cols=90  Identities=16%  Similarity=0.227  Sum_probs=57.6

Q ss_pred             CceecchhhHHHHHHHHhcCCCC------CCCCcEEEEEeeeCCCcHHHHHHHHhcCChH--------HHHHHHHHHhcC
Q 038234           75 SEICGRDYKKNELLSKLLSDSSD------QQKPIKMISIVGMGGIGKITLAQMAYNDKDF--------RVAKAIIAALGC  140 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~------~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~--------~~~~~i~~~l~~  140 (406)
                      .++=|-++-+.+|.+-+.-.-..      +-.+..-|.++|++|.|||-||++|+-...-        +++..   .++ 
T Consensus       672 dDVGGLeevK~eIldTIqlPL~hpeLfssglrkRSGILLYGPPGTGKTLlAKAVATEcsL~FlSVKGPELLNM---YVG-  747 (953)
T KOG0736|consen  672 DDVGGLEEVKTEILDTIQLPLKHPELFSSGLRKRSGILLYGPPGTGKTLLAKAVATECSLNFLSVKGPELLNM---YVG-  747 (953)
T ss_pred             hcccCHHHHHHHHHHHhcCcccChhhhhccccccceeEEECCCCCchHHHHHHHHhhceeeEEeecCHHHHHH---Hhc-
Confidence            34557788788887766432100      1122446889999999999999999887643        22221   111 


Q ss_pred             CCCCCCCHHHHHHHHHhhccCcceeEEeeCCCC
Q 038234          141 ETSNLGSLQSLVRCISESIEGKKYLVVLDDVWT  173 (406)
Q Consensus       141 ~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdvw~  173 (406)
                           .+.+.+.+...+.=..++|.|.||.+.+
T Consensus       748 -----qSE~NVR~VFerAR~A~PCVIFFDELDS  775 (953)
T KOG0736|consen  748 -----QSEENVREVFERARSAAPCVIFFDELDS  775 (953)
T ss_pred             -----chHHHHHHHHHHhhccCCeEEEeccccc
Confidence                 2334455555555567999999999843

>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=94.37  E-value=0.03  Score=52.73  Aligned_cols=21  Identities=33%  Similarity=0.572  Sum_probs=18.0

Q ss_pred             EEEEEeeeCCCcHHHHHHHHh
Q 038234          103 KMISIVGMGGIGKITLAQMAY  123 (406)
Q Consensus       103 ~vi~I~G~gGiGKTtLA~~v~  123 (406)
                      +++.+.|-||+||||+|.+.+
T Consensus         2 r~~~~~GKGGVGKTT~aaA~A   22 (305)
T PF02374_consen    2 RILFFGGKGGVGKTTVAAALA   22 (305)
T ss_dssp             SEEEEEESTTSSHHHHHHHHH
T ss_pred             eEEEEecCCCCCcHHHHHHHH
Confidence            578999999999999996653

...

>PRK13232 nifH nitrogenase reductase; Reviewed

Probab=94.37  E-value=0.03  Score=51.98  Aligned_cols=21  Identities=48%  Similarity=0.624  Sum_probs=17.4

Q ss_pred             EEEEEeeeCCCcHHHHHHHHh
Q 038234          103 KMISIVGMGGIGKITLAQMAY  123 (406)
Q Consensus       103 ~vi~I~G~gGiGKTtLA~~v~  123 (406)
                      ++|+|+|-|||||||+|..+.
T Consensus         2 ~~iav~gKGGVGKTT~a~nLA   22 (273)
T PRK13232          2 RQIAIYGKGGIGKSTTTQNLT   22 (273)
T ss_pred             CEEEEECCCCCcHHHHHHHHH
Confidence            478888999999999886653

>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=94.36  E-value=0.11  Score=50.88  Aligned_cols=25  Identities=20%  Similarity=0.292  Sum_probs=20.5

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhc
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      ....+++++|..|+||||+...+..
T Consensus       189 ~~g~vi~lvGpnG~GKTTtlakLA~  213 (420)
T PRK14721        189 EQGGVYALIGPTGVGKTTTTAKLAA  213 (420)
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHH
Confidence            3457999999999999999875543

>PLN02318 phosphoribulokinase/uridine kinase

Probab=94.35  E-value=0.053  Score=54.95  Aligned_cols=28  Identities=21%  Similarity=0.376  Sum_probs=24.1

Q ss_pred             CCCcEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234           99 QKPIKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus        99 ~~~~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      .++..+|+|.|.+|.||||||+.+....
T Consensus        62 ~~~riIIGIaGpSGSGKTTLAk~LaglL   89 (656)
T PLN02318         62 NDGIILVGVAGPSGAGKTVFTEKVLNFM   89 (656)
T ss_pred             CCCeEEEEEECCCCCcHHHHHHHHHhhC
Confidence            3457899999999999999999987654

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

Probab=94.35  E-value=0.032  Score=49.62  Aligned_cols=24  Identities=38%  Similarity=0.565  Sum_probs=21.3

Q ss_pred             EEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          103 KMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       103 ~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      .-|+|+|++|+|||||+..+..+.
T Consensus         6 ~kivv~G~~g~GKTtl~~~l~~~~   29 (219)
T COG1100           6 FKIVVLGDGGVGKTTLLNRLVGDE   29 (219)
T ss_pred             EEEEEEcCCCccHHHHHHHHhcCc
Confidence            568999999999999999888764

>cd03287 ABC_MSH3_euk MutS3 homolog in eukaryotes

Probab=94.35  E-value=0.035  Score=49.70  Aligned_cols=106  Identities=13%  Similarity=0.057  Sum_probs=54.8

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCChH--------------HHHHHHHHHhcCCCCCCCC---HHHHHHHHHhhc--cCc
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDKDF--------------RVAKAIIAALGCETSNLGS---LQSLVRCISESI--EGK  162 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~~~--------------~~~~~i~~~l~~~~~~~~~---~~~~~~~l~~~l--~~k  162 (406)
                      .+++.|.|..|.||||+.+.+.-..-.              .+...++..++.......+   ...-...+...+  .++
T Consensus        31 g~~~~itG~N~~GKStll~~i~~~~~la~~G~~v~a~~~~~~~~~~i~~~~~~~d~~~~~~StF~~e~~~~~~il~~~~~  110 (222)
T cd03287          31 GYCQIITGPNMGGKSSYIRQVALITIMAQIGSFVPASSATLSIFDSVLTRMGASDSIQHGMSTFMVELSETSHILSNCTS  110 (222)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHHHhCCCEEEcCceEEeccceEEEEecCccccccccchHHHHHHHHHHHHHhCCC
Confidence            568899999999999998877542100              1111111112111111111   111112222222  257


Q ss_pred             ceeEEeeCCCCcCc--cCc---chhhhccCCCCCCcEEEEecCChHHHHHh
Q 038234          163 KYLVVLDDVWTDDY--TKW---EPFQRCSANGQCGNNILVTTHKKTVARMM  208 (406)
Q Consensus       163 r~LlVlDdvw~~~~--~~~---~~l~~~l~~~~~gs~IivTtR~~~v~~~~  208 (406)
                      +.|++||..-....  +..   ..+...+... .++.+|++|.+..++...
T Consensus       111 ~sLvllDE~~~gT~~~d~~~i~~~il~~l~~~-~~~~~i~~TH~~~l~~~~  160 (222)
T cd03287         111 RSLVILDELGRGTSTHDGIAIAYATLHYLLEE-KKCLVLFVTHYPSLGEIL  160 (222)
T ss_pred             CeEEEEccCCCCCChhhHHHHHHHHHHHHHhc-cCCeEEEEcccHHHHHHH
Confidence            89999999743221  111   1122223222 477899999998887654

The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal domain with a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding c

>PRK13407 bchI magnesium chelatase subunit I; Provisional

Probab=94.34  E-value=0.041  Score=52.39  Aligned_cols=45  Identities=22%  Similarity=0.254  Sum_probs=33.9

Q ss_pred             CceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234           75 SEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ..++|.+..++.+.-.+..      .+..-+.+.|.+|+||||+|+.+.+-
T Consensus         8 ~~i~Gq~~~~~~l~~~~~~------~~~~~vLl~G~pG~gKT~lar~la~l   52 (334)
T PRK13407          8 SAIVGQEEMKQAMVLTAID------PGIGGVLVFGDRGTGKSTAVRALAAL   52 (334)
T ss_pred             HHhCCHHHHHHHHHHHHhc------cCCCcEEEEcCCCCCHHHHHHHHHHH
Confidence            4578998888877754442      22345899999999999999988554

>TIGR00073 hypB hydrogenase accessory protein HypB

Probab=94.34  E-value=0.036  Score=49.10  Aligned_cols=27  Identities=19%  Similarity=0.364  Sum_probs=23.3

Q ss_pred             CCCcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234           99 QKPIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus        99 ~~~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ..++++|+++|..|+|||||..++.+.
T Consensus        19 ~~~~~~i~~~G~~gsGKTTli~~l~~~   45 (207)
T TIGR00073        19 KHGLVVLNFMSSPGSGKTTLIEKLIDN   45 (207)
T ss_pred             hcCcEEEEEECCCCCCHHHHHHHHHHH
Confidence            456999999999999999999887654

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

>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=94.33  E-value=0.027  Score=49.16  Aligned_cols=23  Identities=30%  Similarity=0.268  Sum_probs=20.4

Q ss_pred             EEEeeeCCCcHHHHHHHHhcCCh
Q 038234          105 ISIVGMGGIGKITLAQMAYNDKD  127 (406)
Q Consensus       105 i~I~G~gGiGKTtLA~~v~~~~~  127 (406)
                      |.|.|++|+||||+|+.+.....
T Consensus         2 I~i~G~pGsGKst~a~~La~~~~   24 (194)
T cd01428           2 ILLLGPPGSGKGTQAERLAKKYG   24 (194)
T ss_pred             EEEECCCCCCHHHHHHHHHHHcC
Confidence            78999999999999999987654

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

>PF00006 ATP-synt_ab: ATP synthase alpha/beta family, nucleotide-binding domain This Pfam entry corresponds to chains a,b,c,d,e and f; InterPro: IPR000194 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane

Probab=94.31  E-value=0.059  Score=47.93  Aligned_cols=26  Identities=38%  Similarity=0.501  Sum_probs=21.9

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCCh
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDKD  127 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~~  127 (406)
                      -..++|.|.+|+|||+|+..+.+...
T Consensus        15 Gqr~~I~g~~g~GKt~Ll~~i~~~~~   40 (215)
T PF00006_consen   15 GQRIGIFGGAGVGKTVLLQEIANNQD   40 (215)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHHCT
T ss_pred             CCEEEEEcCcccccchhhHHHHhccc
Confidence            45789999999999999998876554

ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. The F-ATPases (or F1F0-ATPases), V-ATPases (or V1V0-ATPases) and A-ATPases (or A1A0-ATPases) are composed of two linked complexes: the F1, V1 or A1 complex contains the catalytic core that synthesizes/hydrolyses ATP, and the F0, V0 or A0 complex that forms the membrane-spanning pore. The F-, V- and A-ATPases all contain rotary motors, one that drives proton translocation across the membrane and one that drives ATP synthesis/hydrolysis [, ]. In F-ATPases, there are three copies each of the alpha and beta subunits that form the catalytic core of the F1 complex, while the remaining F1 subunits (gamma, delta, epsilon) form part of the stalks. There is a substrate-binding site on each of the alpha and beta subunits, those on the beta subunits being catalytic, while those on the alpha subunits are regulatory. The alpha and beta subunits form a cylinder that is attached to the central stalk. The alpha/beta subunits undergo a sequence of conformational changes leading to the formation of ATP from ADP, which are induced by the rotation of the gamma subunit, itself driven by the movement of protons through the F0 complex C subunit []. In V- and A-ATPases, the alpha/A and beta/B subunits of the V1 or A1 complex are homologous to the alpha and beta subunits in the F1 complex of F-ATPases, except that the alpha subunit is catalytic and the beta subunit is regulatory. The structure of the alpha and beta subunits is almost identical. Each subunit consists of a N-terminal beta-barrel, a central domain containing the nucleotide-binding site and a C-terminal alpha bundle domain []. This entry represents the central domain. It is found in the alpha and beta subunits from F1, V1, and A1 complexes, as well as in flagellar ATPase and the termination factor Rho. ; GO: 0005524 ATP binding; PDB: 3OEE_N 2HLD_W 3FKS_N 3OE7_O 3OFN_M 2XOK_D 3OEH_V 2WPD_F 3ZRY_D 2OBL_A ....

>PRK10789 putative multidrug transporter membrane\ATP-binding components; Provisional

Probab=94.30  E-value=0.049  Score=56.19  Aligned_cols=27  Identities=37%  Similarity=0.475  Sum_probs=22.6

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      ++...++|+|..|.|||||++.+....
T Consensus       339 ~~G~~~~ivG~sGsGKSTLl~ll~g~~  365 (569)
T PRK10789        339 KPGQMLGICGPTGSGKSTLLSLIQRHF  365 (569)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhccc
Confidence            345689999999999999999887643

>KOG0731 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]

Probab=94.29  E-value=0.055  Score=56.22  Aligned_cols=153  Identities=13%  Similarity=0.100  Sum_probs=81.8

Q ss_pred             Cceecchh---hHHHHHHHHhcCCC---CCCCCcEEEEEeeeCCCcHHHHHHHHhcCChHHHH----HHHHHHhcCCCCC
Q 038234           75 SEICGRDY---KKNELLSKLLSDSS---DQQKPIKMISIVGMGGIGKITLAQMAYNDKDFRVA----KAIIAALGCETSN  144 (406)
Q Consensus        75 ~~~vGR~~---~~~~l~~~L~~~~~---~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~----~~i~~~l~~~~~~  144 (406)
                      .++.|-++   |++++++.|..+..   -+..-++-+.++|++|.|||-||++++-...+-|.    .++.+-+....  
T Consensus       311 kDVAG~deAK~El~E~V~fLKNP~~Y~~lGAKiPkGvLL~GPPGTGKTLLAKAiAGEAgVPF~svSGSEFvE~~~g~~--  388 (774)
T KOG0731|consen  311 KDVAGVDEAKEELMEFVKFLKNPEQYQELGAKIPKGVLLVGPPGTGKTLLAKAIAGEAGVPFFSVSGSEFVEMFVGVG--  388 (774)
T ss_pred             ccccCcHHHHHHHHHHHHHhcCHHHHHHcCCcCcCceEEECCCCCcHHHHHHHHhcccCCceeeechHHHHHHhcccc--
Confidence            35677766   55556666654310   12455778899999999999999999988766221    11111111111  


Q ss_pred             CCCHHHHHHHHHhhccCcceeEEeeCCCCcC---------------ccCcchhhhccCCCCCCc--EEEEecCChHHHHH
Q 038234          145 LGSLQSLVRCISESIEGKKYLVVLDDVWTDD---------------YTKWEPFQRCSANGQCGN--NILVTTHKKTVARM  207 (406)
Q Consensus       145 ~~~~~~~~~~l~~~l~~kr~LlVlDdvw~~~---------------~~~~~~l~~~l~~~~~gs--~IivTtR~~~v~~~  207 (406)
                         ...+.......=.+.++.+.+|++....               ...++++..-++....++  .+|-+|...++...
T Consensus       389 ---asrvr~lf~~ar~~aP~iifideida~~~~r~G~~~~~~~~e~e~tlnQll~emDgf~~~~~vi~~a~tnr~d~ld~  465 (774)
T KOG0731|consen  389 ---ASRVRDLFPLARKNAPSIIFIDEIDAVGRKRGGKGTGGGQDEREQTLNQLLVEMDGFETSKGVIVLAATNRPDILDP  465 (774)
T ss_pred             ---hHHHHHHHHHhhccCCeEEEecccccccccccccccCCCChHHHHHHHHHHHHhcCCcCCCcEEEEeccCCccccCH
Confidence               1112222233334678899998773211               011223333333332222  33445554444322


Q ss_pred             --hcc---CCccccCCCChHHHHHhhhhhc
Q 038234          208 --MES---TNFISIKELSTQECWSLFKQES  232 (406)
Q Consensus       208 --~~~---~~~~~l~~L~~~~a~~Lf~~~~  232 (406)
                        +.+   ...+.++.-+.....++|.-++
T Consensus       466 allrpGRfdr~i~i~~p~~~~r~~i~~~h~  495 (774)
T KOG0731|consen  466 ALLRPGRFDRQIQIDLPDVKGRASILKVHL  495 (774)
T ss_pred             HhcCCCccccceeccCCchhhhHHHHHHHh
Confidence              111   6677777777777777776655

>PRK05800 cobU adenosylcobinamide kinase/adenosylcobinamide-phosphate guanylyltransferase; Validated

Probab=94.29  E-value=0.089  Score=45.05  Aligned_cols=22  Identities=23%  Similarity=0.274  Sum_probs=19.6

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcC
Q 038234          104 MISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ++.|.|.+|+|||++|..+...
T Consensus         3 ~ili~G~~~sGKS~~a~~l~~~   24 (170)
T PRK05800          3 LILVTGGARSGKSRFAERLAAQ   24 (170)
T ss_pred             EEEEECCCCccHHHHHHHHHHH
Confidence            6899999999999999887755

>TIGR01425 SRP54_euk signal recognition particle protein SRP54

Probab=94.29  E-value=0.072  Score=52.30  Aligned_cols=25  Identities=28%  Similarity=0.317  Sum_probs=21.1

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhc
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      .+..+|.++|.+|+||||++..++.
T Consensus        98 ~~~~vi~lvG~~GvGKTTtaaKLA~  122 (429)
T TIGR01425        98 GKQNVIMFVGLQGSGKTTTCTKLAY  122 (429)
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHH
Confidence            3478999999999999998876653

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.

>TIGR00708 cobA cob(I)alamin adenosyltransferase

Probab=94.25  E-value=0.083  Score=45.11  Aligned_cols=48  Identities=17%  Similarity=0.186  Sum_probs=30.5

Q ss_pred             HHhhccCcc-eeEEeeCCCC---cCccCcchhhhccCCCCCCcEEEEecCCh
Q 038234          155 ISESIEGKK-YLVVLDDVWT---DDYTKWEPFQRCSANGQCGNNILVTTHKK  202 (406)
Q Consensus       155 l~~~l~~kr-~LlVlDdvw~---~~~~~~~~l~~~l~~~~~gs~IivTtR~~  202 (406)
                      .++.+...+ =|+|||.+-.   ...-..+.+...+.....+..||+|-|+.
T Consensus        89 a~~~l~~~~~DlvVLDEi~~A~~~gli~~~~v~~lL~~rp~~~evVlTGR~~  140 (173)
T TIGR00708        89 AKEMLADPELDLVLLDELTYALKYGYLDVEEVVEALQERPGHQHVIITGRGC  140 (173)
T ss_pred             HHHHHhcCCCCEEEehhhHHHHHCCCcCHHHHHHHHHhCCCCCEEEEECCCC
Confidence            344444444 4999998721   11223345666666666788999999985

Alternate name: corrinoid adenosyltransferase.

>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=94.25  E-value=0.046  Score=44.70  Aligned_cols=25  Identities=32%  Similarity=0.337  Sum_probs=21.7

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      ..+++|+|..|+|||||.+.++...
T Consensus        11 g~~~~i~G~nGsGKStLl~~l~g~~   35 (137)
T PF00005_consen   11 GEIVAIVGPNGSGKSTLLKALAGLL   35 (137)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEEccCCCccccceeeecccc
Confidence            4589999999999999999887664

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 ....

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

Probab=94.24  E-value=0.035  Score=51.30  Aligned_cols=21  Identities=48%  Similarity=0.624  Sum_probs=17.3

Q ss_pred             EEEEEeeeCCCcHHHHHHHHh
Q 038234          103 KMISIVGMGGIGKITLAQMAY  123 (406)
Q Consensus       103 ~vi~I~G~gGiGKTtLA~~v~  123 (406)
                      ++|+|.|-||+||||++..++
T Consensus         2 ~~iav~~KGGvGKTT~~~nLA   22 (270)
T cd02040           2 RQIAIYGKGGIGKSTTTQNLS   22 (270)
T ss_pred             cEEEEEeCCcCCHHHHHHHHH
Confidence            468888999999999886654

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.

>PHA02530 pseT polynucleotide kinase; Provisional

Probab=94.24  E-value=0.035  Score=52.23  Aligned_cols=24  Identities=38%  Similarity=0.418  Sum_probs=21.5

Q ss_pred             EEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          103 KMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       103 ~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      .+|.++|.+|+||||+|+.+.+..
T Consensus         3 ~liil~G~pGSGKSTla~~L~~~~   26 (300)
T PHA02530          3 KIILTVGVPGSGKSTWAREFAAKN   26 (300)
T ss_pred             EEEEEEcCCCCCHHHHHHHHHHHC
Confidence            578899999999999999998765

>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=94.24  E-value=0.043  Score=43.47  Aligned_cols=21  Identities=29%  Similarity=0.471  Sum_probs=19.2

Q ss_pred             EEEeeeCCCcHHHHHHHHhcC
Q 038234          105 ISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       105 i~I~G~gGiGKTtLA~~v~~~  125 (406)
                      |+|+|++|+|||||...+.+.
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            789999999999999999864

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 ....

>PRK10416 signal recognition particle-docking protein FtsY; Provisional

Probab=94.24  E-value=0.043  Score=51.98  Aligned_cols=26  Identities=31%  Similarity=0.392  Sum_probs=21.9

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      .+..+++++|++|+||||++..++..
T Consensus       112 ~~~~vi~lvGpnGsGKTTt~~kLA~~  137 (318)
T PRK10416        112 KKPFVILVVGVNGVGKTTTIGKLAHK  137 (318)
T ss_pred             CCCeEEEEECCCCCcHHHHHHHHHHH
Confidence            35789999999999999999776543

>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=94.23  E-value=0.065  Score=48.96  Aligned_cols=22  Identities=23%  Similarity=0.371  Sum_probs=19.0

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcC
Q 038234          104 MISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      +|+|.|.+|+||||+|+.+.+.
T Consensus         1 IIgItG~SGSGKTTv~~~l~~~   22 (277)
T cd02029           1 VIAVTGSSGAGTTTVKRAFEHI   22 (277)
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            5899999999999999877643

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.

>PRK13536 nodulation factor exporter subunit NodI; Provisional

Probab=94.22  E-value=0.12  Score=49.56  Aligned_cols=26  Identities=27%  Similarity=0.396  Sum_probs=22.4

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          101 PIKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      ...+++|+|+.|.|||||.+.+....
T Consensus        66 ~Gei~gLlGpNGaGKSTLl~~L~Gl~   91 (340)
T PRK13536         66 SGECFGLLGPNGAGKSTIARMILGMT   91 (340)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHcCC
Confidence            35689999999999999999887753

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

Probab=94.20  E-value=0.032  Score=42.14  Aligned_cols=21  Identities=43%  Similarity=0.654  Sum_probs=17.7

Q ss_pred             EEEEeeeCCCcHHHHHHHHhc
Q 038234          104 MISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      ++.+.|.+|+||||++..+..
T Consensus         1 ~~~~~g~~G~Gktt~~~~l~~   21 (99)
T cd01983           1 VIVVTGKGGVGKTTLAANLAA   21 (99)
T ss_pred             CEEEECCCCCCHHHHHHHHHH
Confidence            467899999999999987644

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

>PRK09825 idnK D-gluconate kinase; Provisional

Probab=94.19  E-value=0.038  Score=47.65  Aligned_cols=24  Identities=17%  Similarity=0.187  Sum_probs=21.1

Q ss_pred             EEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          103 KMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       103 ~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      .++.|+|..|.|||||++.+....
T Consensus         4 e~i~l~G~sGsGKSTl~~~la~~l   27 (176)
T PRK09825          4 ESYILMGVSGSGKSLIGSKIAALF   27 (176)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHhc
Confidence            478999999999999999987654

>cd04139 RalA_RalB RalA/RalB subfamily

Probab=94.19  E-value=0.038  Score=46.37  Aligned_cols=22  Identities=36%  Similarity=0.607  Sum_probs=19.2

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcC
Q 038234          104 MISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      .|+++|.+|+|||||+..+...
T Consensus         2 ki~~~G~~~~GKTsl~~~l~~~   23 (164)
T cd04139           2 KVIVVGAGGVGKSALTLQFMYD   23 (164)
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4789999999999999888754

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

>TIGR00176 mobB molybdopterin-guanine dinucleotide biosynthesis protein MobB

Probab=94.19  E-value=0.031  Score=47.11  Aligned_cols=22  Identities=32%  Similarity=0.407  Sum_probs=19.1

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcC
Q 038234          104 MISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      +++|+|..|+|||||+..+...
T Consensus         1 vi~i~G~~gsGKTtl~~~l~~~   22 (155)
T TIGR00176         1 VLQIVGPKNSGKTTLIERLVKA   22 (155)
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            5789999999999999887654

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.

>PRK08149 ATP synthase SpaL; Validated

Probab=94.19  E-value=0.077  Score=52.07  Aligned_cols=26  Identities=23%  Similarity=0.368  Sum_probs=22.5

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCCh
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDKD  127 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~~  127 (406)
                      ...++|+|..|+|||||+..+++...
T Consensus       151 Gq~i~I~G~sG~GKTTLl~~i~~~~~  176 (428)
T PRK08149        151 GQRMGIFASAGCGKTSLMNMLIEHSE  176 (428)
T ss_pred             CCEEEEECCCCCChhHHHHHHhcCCC
Confidence            45789999999999999999987654

>COG1132 MdlB ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]

Probab=94.14  E-value=0.052  Score=55.98  Aligned_cols=27  Identities=37%  Similarity=0.490  Sum_probs=22.6

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHhcCCh
Q 038234          101 PIKMISIVGMGGIGKITLAQMAYNDKD  127 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~~~~~  127 (406)
                      +...++|+|+.|.|||||++.+.+-++
T Consensus       354 ~Ge~vaiVG~sGsGKSTl~~LL~r~~~  380 (567)
T COG1132         354 PGEKVAIVGPSGSGKSTLIKLLLRLYD  380 (567)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhccCC
Confidence            355889999999999999998876544

>COG1123 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]

Probab=94.14  E-value=0.12  Score=51.80  Aligned_cols=107  Identities=21%  Similarity=0.205  Sum_probs=0.0

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhcCChH---------------------------------------------------
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYNDKDF---------------------------------------------------  128 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~---------------------------------------------------  128 (406)
                      .+..+++|+|.+|.||||+|..+..-...                                                   
T Consensus        33 ~~GE~lgIvGESGsGKSt~a~~i~gll~~~~~~~~G~I~~~g~dl~~l~~~~~r~~rg~~Ia~i~Q~p~~slnP~~tIg~  112 (539)
T COG1123          33 EPGEILGIVGESGSGKSTLALALMGLLPEGGRITSGEVILDGRDLLGLSEREMRKLRGKRIAMIFQDPMTSLNPVMTIGD  112 (539)
T ss_pred             cCCcEEEEEcCCCCCHHHHHHHHhccCCCCCcccceEEEECCcchhcCCHHHHHHhccccEEEEecCchhhcCchhhHHH


Q ss_pred             ------------------HHHHHHHHHhcCCCCCCC--------CHHHHHHHHHhhccCcceeEEee------CCCCcCc
Q 038234          129 ------------------RVAKAIIAALGCETSNLG--------SLQSLVRCISESIEGKKYLVVLD------DVWTDDY  176 (406)
Q Consensus       129 ------------------~~~~~i~~~l~~~~~~~~--------~~~~~~~~l~~~l~~kr~LlVlD------dvw~~~~  176 (406)
                                        .-..+++..++...+...        .-..-.-.+.-.|..++-|||.|      |+  ...
T Consensus       113 Qi~E~~~~h~~~~~~ea~~~a~elL~~Vgl~~~~~~~~yPheLSGG~rQRv~iAmALa~~P~LLIaDEPTTaLDv--t~q  190 (539)
T COG1123         113 QIREALRLHGKGSRAEARKRAVELLEQVGLPDPERRDRYPHQLSGGMRQRVMIAMALALKPKLLIADEPTTALDV--TTQ  190 (539)
T ss_pred             HHHHHHHHhccccHHHHHHHHHHHHHHcCCCChhhhccCCcccCchHHHHHHHHHHHhCCCCEEEECCCccccCH--HHH


Q ss_pred             cCcchhhhccCCCCCCcEEEEecCChHHHHHhc
Q 038234          177 TKWEPFQRCSANGQCGNNILVTTHKKTVARMME  209 (406)
Q Consensus       177 ~~~~~l~~~l~~~~~gs~IivTtR~~~v~~~~~  209 (406)
                      .+.-.+...+.... |..+|++|.+-.|...+.
T Consensus       191 ~qIL~llk~l~~e~-g~a~l~ITHDl~Vva~~a  222 (539)
T COG1123         191 AQILDLLKDLQREL-GMAVLFITHDLGVVAELA  222 (539)
T ss_pred             HHHHHHHHHHHHHc-CcEEEEEcCCHHHHHHhc

>PLN02348 phosphoribulokinase

Probab=94.12  E-value=0.045  Score=52.81  Aligned_cols=27  Identities=19%  Similarity=0.203  Sum_probs=23.0

Q ss_pred             CCCcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234           99 QKPIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus        99 ~~~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      .+..-+|+|.|.+|.||||+|+.+.+.
T Consensus        46 ~~~p~IIGIaG~SGSGKSTfA~~L~~~   72 (395)
T PLN02348         46 DDGTVVIGLAADSGCGKSTFMRRLTSV   72 (395)
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            345789999999999999999887754

>COG0283 Cmk Cytidylate kinase [Nucleotide transport and metabolism]

Probab=94.12  E-value=0.1  Score=45.83  Aligned_cols=54  Identities=26%  Similarity=0.284  Sum_probs=35.0

Q ss_pred             EEEEEeeeCCCcHHHHHHHHhcCChH------HHHHHHHHHhcCCCCCCCCHHHHHHHHH
Q 038234          103 KMISIVGMGGIGKITLAQMAYNDKDF------RVAKAIIAALGCETSNLGSLQSLVRCIS  156 (406)
Q Consensus       103 ~vi~I~G~gGiGKTtLA~~v~~~~~~------~~~~~i~~~l~~~~~~~~~~~~~~~~l~  156 (406)
                      .+|+|=|++|.||+|+|+.++.....      .+++.+.........+..+.+.+...+.
T Consensus         5 ~~IAIDGPagsGKsTvak~lA~~Lg~~yldTGamYRa~a~~~l~~~~~~~d~~~~~~l~~   64 (222)
T COG0283           5 IIIAIDGPAGSGKSTVAKILAEKLGFHYLDTGAMYRAVALAALKHGVDLDDEDALVALAK   64 (222)
T ss_pred             eEEEEeCCCccChHHHHHHHHHHhCCCeecccHHHHHHHHHHHHcCCCCccHHHHHHHHH
Confidence            68999999999999999999988765      3344433333223334444444444433

>PRK06731 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=94.11  E-value=0.18  Score=46.56  Aligned_cols=24  Identities=25%  Similarity=0.396  Sum_probs=20.0

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHhc
Q 038234          101 PIKMISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      +..+++++|.+|+||||++..+..
T Consensus        74 ~~~~i~~~G~~g~GKTtl~~~l~~   97 (270)
T PRK06731         74 EVQTIALIGPTGVGKTTTLAKMAW   97 (270)
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHH
Confidence            346999999999999998876644

>PRK06761 hypothetical protein; Provisional

Probab=94.11  E-value=0.036  Score=51.29  Aligned_cols=25  Identities=40%  Similarity=0.498  Sum_probs=22.1

Q ss_pred             EEEEEeeeCCCcHHHHHHHHhcCCh
Q 038234          103 KMISIVGMGGIGKITLAQMAYNDKD  127 (406)
Q Consensus       103 ~vi~I~G~gGiGKTtLA~~v~~~~~  127 (406)
                      ++|.|.|++|+||||+++.+++...
T Consensus         4 ~lIvI~G~~GsGKTTla~~L~~~L~   28 (282)
T PRK06761          4 KLIIIEGLPGFGKSTTAKMLNDILS   28 (282)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHhcC
Confidence            5899999999999999999987653

>TIGR02204 MsbA_rel ABC transporter, permease/ATP-binding protein

Probab=94.10  E-value=0.042  Score=56.75  Aligned_cols=27  Identities=33%  Similarity=0.463  Sum_probs=22.5

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      ++...++|+|..|.|||||++.+....
T Consensus       364 ~~Ge~i~IvG~sGsGKSTLlklL~gl~  390 (576)
T TIGR02204       364 RPGETVALVGPSGAGKSTLFQLLLRFY  390 (576)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHhcc
Confidence            345689999999999999999887643

This protein is related to a Proteobacterial ATP transporter that exports lipid A and to eukaryotic P-glycoproteins.

>COG0003 ArsA Predicted ATPase involved in chromosome partitioning [Cell division and chromosome partitioning]

Probab=94.09  E-value=0.042  Score=51.89  Aligned_cols=21  Identities=33%  Similarity=0.699  Sum_probs=18.5

Q ss_pred             cEEEEEeeeCCCcHHHHHHHH
Q 038234          102 IKMISIVGMGGIGKITLAQMA  122 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v  122 (406)
                      .+++.+.|.|||||||+|.+.
T Consensus         2 ~riv~f~GKGGVGKTT~aaA~   22 (322)
T COG0003           2 TRIVFFTGKGGVGKTTIAAAT   22 (322)
T ss_pred             cEEEEEecCCcccHHHHHHHH
Confidence            578999999999999999763

>COG2401 ABC-type ATPase fused to a predicted acetyltransferase domain [General function prediction only]

Probab=94.09  E-value=0.059  Score=51.77  Aligned_cols=60  Identities=13%  Similarity=0.294  Sum_probs=34.4

Q ss_pred             HHHhhccCcceeEEeeCCCCcCccCcc--hhhhccCCC--CCCcEEEEecCChHHHHHhccCCcc
Q 038234          154 CISESIEGKKYLVVLDDVWTDDYTKWE--PFQRCSANG--QCGNNILVTTHKKTVARMMESTNFI  214 (406)
Q Consensus       154 ~l~~~l~~kr~LlVlDdvw~~~~~~~~--~l~~~l~~~--~~gs~IivTtR~~~v~~~~~~~~~~  214 (406)
                      .|.+++..+.-+++.|..... .+..-  .+...+.+.  ..|+-+++.|+.+++...+.++.++
T Consensus       517 KLAkllaerpn~~~iDEF~Ah-LD~~TA~rVArkiselaRe~giTlivvThrpEv~~AL~PD~li  580 (593)
T COG2401         517 KLAKLLAERPNVLLIDEFAAH-LDELTAVRVARKISELAREAGITLIVVTHRPEVGNALRPDTLI  580 (593)
T ss_pred             HHHHHHhcCCCcEEhhhhhhh-cCHHHHHHHHHHHHHHHHHhCCeEEEEecCHHHHhccCCceeE
Confidence            466677778889999976321 01111  111222221  2477788888888888877664443

>PRK03731 aroL shikimate kinase II; Reviewed

Probab=94.08  E-value=0.036  Score=47.37  Aligned_cols=23  Identities=26%  Similarity=0.312  Sum_probs=20.3

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcCC
Q 038234          104 MISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      .|.|+|++|+||||+|+.+.+..
T Consensus         4 ~i~~~G~~GsGKst~~~~la~~l   26 (171)
T PRK03731          4 PLFLVGARGCGKTTVGMALAQAL   26 (171)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Confidence            57889999999999999998754

>PF13245 AAA_19: Part of AAA domain

Probab=94.07  E-value=0.046  Score=39.94  Aligned_cols=20  Identities=25%  Similarity=0.316  Sum_probs=15.8

Q ss_pred             cEEEEEeeeCCCcHHHHHHH
Q 038234          102 IKMISIVGMGGIGKITLAQM  121 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~  121 (406)
                      .+++.|.|.+|.|||+++..
T Consensus        10 ~~~~vv~g~pGtGKT~~~~~   29 (76)
T PF13245_consen   10 SPLFVVQGPPGTGKTTTLAA   29 (76)
T ss_pred             CCeEEEECCCCCCHHHHHHH
Confidence            44778899999999966544

>PRK08927 fliI flagellum-specific ATP synthase; Validated

Probab=94.06  E-value=0.11  Score=51.13  Aligned_cols=26  Identities=27%  Similarity=0.362  Sum_probs=22.5

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCCh
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDKD  127 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~~  127 (406)
                      ...++|+|..|+|||||++.+++...
T Consensus       158 Gqri~I~G~sG~GKTtLL~~I~~~~~  183 (442)
T PRK08927        158 GQRMGIFAGSGVGKSVLLSMLARNAD  183 (442)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhccC
Confidence            55789999999999999999987644

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

Probab=94.04  E-value=0.043  Score=48.69  Aligned_cols=19  Identities=47%  Similarity=0.833  Sum_probs=16.8

Q ss_pred             EEEEeeeCCCcHHHHHHHH
Q 038234          104 MISIVGMGGIGKITLAQMA  122 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v  122 (406)
                      .|+|+|-||+||||+|..+
T Consensus         2 kIaI~GKGG~GKTtiaall   20 (255)
T COG3640           2 KIAITGKGGVGKTTIAALL   20 (255)
T ss_pred             eEEEecCCCccHHHHHHHH
Confidence            6899999999999998663

>smart00534 MUTSac ATPase domain of DNA mismatch repair MUTS family

Probab=94.03  E-value=0.042  Score=47.76  Aligned_cols=104  Identities=17%  Similarity=0.159  Sum_probs=52.6

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcCChH--------------HHHHHHHHHhcCCCCC---CCCHHHHHHHHHhhccC--cce
Q 038234          104 MISIVGMGGIGKITLAQMAYNDKDF--------------RVAKAIIAALGCETSN---LGSLQSLVRCISESIEG--KKY  164 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~~~~--------------~~~~~i~~~l~~~~~~---~~~~~~~~~~l~~~l~~--kr~  164 (406)
                      ++.|+|..|.||||+.+.+.-....              .....++..++.....   ......-...+...+..  ++-
T Consensus         1 ~~~ltG~N~~GKst~l~~i~~~~~la~~G~~v~a~~~~~~~~d~il~~~~~~d~~~~~~s~fs~~~~~l~~~l~~~~~~~   80 (185)
T smart00534        1 VVIITGPNMGGKSTYLRQVGLIVIMAQIGSFVPAESAELPVFDRIFTRIGASDSLAQGLSTFMVEMKETANILKNATENS   80 (185)
T ss_pred             CEEEECCCCCcHHHHHHHHHHHHHHHHhCCCeeehheEecccceEEEEeCCCCchhccccHHHHHHHHHHHHHHhCCCCe
Confidence            4679999999999999888622110              0111111111111000   11122222234444444  889


Q ss_pred             eEEeeCCCCcC-ccCcch----hhhccCCCCCCcEEEEecCChHHHHHh
Q 038234          165 LVVLDDVWTDD-YTKWEP----FQRCSANGQCGNNILVTTHKKTVARMM  208 (406)
Q Consensus       165 LlVlDdvw~~~-~~~~~~----l~~~l~~~~~gs~IivTtR~~~v~~~~  208 (406)
                      |+++|..-... ...-..    +...+.. ..++.+|++|.+.++...+
T Consensus        81 llllDEp~~g~d~~~~~~~~~~~l~~l~~-~~~~~iii~TH~~~l~~~~  128 (185)
T smart00534       81 LVLLDELGRGTSTYDGVAIAAAVLEYLLE-KIGALTLFATHYHELTKLA  128 (185)
T ss_pred             EEEEecCCCCCCHHHHHHHHHHHHHHHHh-cCCCeEEEEecHHHHHHHh
Confidence            99999884321 111111    1122221 1367899999998877654

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

Probab=94.02  E-value=0.034  Score=48.04  Aligned_cols=21  Identities=33%  Similarity=0.472  Sum_probs=19.0

Q ss_pred             EEEEeeeCCCcHHHHHHHHhc
Q 038234          104 MISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      +|+|+|+.|+||||+++.+.+
T Consensus         1 ii~itG~~gsGKst~~~~l~~   21 (179)
T cd02022           1 IIGLTGGIGSGKSTVAKLLKE   21 (179)
T ss_pred             CEEEECCCCCCHHHHHHHHHH
Confidence            489999999999999998876

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

>cd01858 NGP_1 NGP-1

Probab=94.00  E-value=0.1  Score=43.94  Aligned_cols=25  Identities=16%  Similarity=0.317  Sum_probs=21.0

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      ...++++|++|+|||||...+..+.
T Consensus       102 ~~~v~~~G~~nvGKStliN~l~~~~  126 (157)
T cd01858         102 QISVGFIGYPNVGKSSIINTLRSKK  126 (157)
T ss_pred             ceEEEEEeCCCCChHHHHHHHhcCC
Confidence            4567899999999999999887653

Autoantigen NGP-1 (Nucleolar G-protein gene 1) has been shown to localize in the nucleolus and nucleolar organizers in all cell types analyzed, which is indicative of a function in ribosomal assembly. NGP-1 and its homologs show a circular permutation of the GTPase signature motifs so that the C-terminal strands 5, 6, and 7 (strand 6 contains the G4 box with NKXD motif) are relocated to the N terminus.

>PRK14531 adenylate kinase; Provisional

Probab=93.99  E-value=0.041  Score=47.70  Aligned_cols=24  Identities=25%  Similarity=0.214  Sum_probs=20.7

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcCCh
Q 038234          104 MISIVGMGGIGKITLAQMAYNDKD  127 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~~~  127 (406)
                      .|.|+|++|+||||+++.+.+...
T Consensus         4 ~i~i~G~pGsGKsT~~~~la~~~g   27 (183)
T PRK14531          4 RLLFLGPPGAGKGTQAARLCAAHG   27 (183)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            588999999999999998876653

>cd01394 radB RadB

Probab=93.98  E-value=0.079  Score=47.25  Aligned_cols=26  Identities=19%  Similarity=0.217  Sum_probs=22.1

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ....++.|.|.+|+||||||.+++..
T Consensus        17 ~~g~i~~i~G~~GsGKT~l~~~~a~~   42 (218)
T cd01394          17 ERGTVTQVYGPPGTGKTNIAIQLAVE   42 (218)
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            45789999999999999999887543

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

>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=93.98  E-value=0.038  Score=48.22  Aligned_cols=23  Identities=30%  Similarity=0.482  Sum_probs=20.3

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcCC
Q 038234          104 MISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      +|+|.|+.|+||||+++.+.+..
T Consensus         2 ~I~ieG~~GsGKtT~~~~L~~~l   24 (200)
T cd01672           2 FIVFEGIDGAGKTTLIELLAERL   24 (200)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            68999999999999999887654

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

>PRK01184 hypothetical protein; Provisional

Probab=93.97  E-value=0.042  Score=47.59  Aligned_cols=22  Identities=36%  Similarity=0.614  Sum_probs=18.2

Q ss_pred             EEEEEeeeCCCcHHHHHHHHhcC
Q 038234          103 KMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       103 ~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      .+|+|+|++|+||||+|+ +++.
T Consensus         2 ~~i~l~G~~GsGKsT~a~-~~~~   23 (184)
T PRK01184          2 KIIGVVGMPGSGKGEFSK-IARE   23 (184)
T ss_pred             cEEEEECCCCCCHHHHHH-HHHH
Confidence            479999999999999987 4443

>COG1117 PstB ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=93.97  E-value=0.33  Score=42.68  Aligned_cols=25  Identities=28%  Similarity=0.386  Sum_probs=21.5

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhc
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      +...|.++.|++|.||||+.+.+-+
T Consensus        31 ~~~~VTAlIGPSGcGKST~LR~lNR   55 (253)
T COG1117          31 PKNKVTALIGPSGCGKSTLLRCLNR   55 (253)
T ss_pred             cCCceEEEECCCCcCHHHHHHHHHh
Confidence            4567999999999999999987654

>TIGR01650 PD_CobS cobaltochelatase, CobS subunit

Probab=93.97  E-value=0.12  Score=48.68  Aligned_cols=49  Identities=14%  Similarity=0.111  Sum_probs=32.8

Q ss_pred             cccCCCceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCCh
Q 038234           70 FFIDESEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKD  127 (406)
Q Consensus        70 ~~~~~~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~  127 (406)
                      |..++.+.+ ..+....++..+..        .+.|.|.|.+|+||||+|+.++....
T Consensus        41 p~~d~~y~f-~~~~~~~vl~~l~~--------~~~ilL~G~pGtGKTtla~~lA~~l~   89 (327)
T TIGR01650        41 PDIDPAYLF-DKATTKAICAGFAY--------DRRVMVQGYHGTGKSTHIEQIAARLN   89 (327)
T ss_pred             CCCCCCccC-CHHHHHHHHHHHhc--------CCcEEEEeCCCChHHHHHHHHHHHHC
Confidence            334433333 33455666766653        23589999999999999999877543

This model describes the aerobic cobalamin pathway Pseudomonas denitrificans CobS gene product, which is a cobalt chelatase subunit, with a MW ~37 kDa. The aerobic pathway cobalt chelatase is a heterotrimeric, ATP-dependent enzyme that catalyzes cobalt insertion during cobalamin biosynthesis. The other two subunits are the P. denitrificans CobT (TIGR01651) and CobN (pfam02514 CobN/Magnesium Chelatase) proteins. To avoid potential confusion with the nonhomologous Salmonella typhimurium/E.coli cobS gene product, the P. denitrificans gene symbol is not used in the name of this model.

>smart00173 RAS Ras subfamily of RAS small GTPases

Probab=93.97  E-value=0.044  Score=46.14  Aligned_cols=22  Identities=27%  Similarity=0.523  Sum_probs=19.0

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcC
Q 038234          104 MISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      -|+|+|.+|+|||||+..+.+.
T Consensus         2 ki~v~G~~~~GKTsli~~~~~~   23 (164)
T smart00173        2 KLVVLGSGGVGKSALTIQFVQG   23 (164)
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4789999999999999988654

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

>PRK13768 GTPase; Provisional

Probab=93.96  E-value=0.046  Score=50.13  Aligned_cols=22  Identities=27%  Similarity=0.475  Sum_probs=18.7

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHh
Q 038234          102 IKMISIVGMGGIGKITLAQMAY  123 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~  123 (406)
                      ..++.|.|.||+||||++..+.
T Consensus         2 ~~~i~v~G~~G~GKTt~~~~~~   23 (253)
T PRK13768          2 MYIVFFLGTAGSGKTTLTKALS   23 (253)
T ss_pred             cEEEEEECCCCccHHHHHHHHH
Confidence            3578999999999999997753

>cd04119 RJL RJL (RabJ-Like) subfamily

Probab=93.96  E-value=0.046  Score=46.04  Aligned_cols=22  Identities=18%  Similarity=0.394  Sum_probs=19.3

Q ss_pred             EEEeeeCCCcHHHHHHHHhcCC
Q 038234          105 ISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       105 i~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      |.++|.+|+|||||+..+....
T Consensus         3 i~~vG~~~vGKTsli~~l~~~~   24 (168)
T cd04119           3 VISMGNSGVGKSCIIKRYCEGR   24 (168)
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            7899999999999999887653

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.

>PLN02165 adenylate isopentenyltransferase

Probab=93.96  E-value=0.045  Score=51.74  Aligned_cols=29  Identities=24%  Similarity=0.195  Sum_probs=24.0

Q ss_pred             CCCcEEEEEeeeCCCcHHHHHHHHhcCCh
Q 038234           99 QKPIKMISIVGMGGIGKITLAQMAYNDKD  127 (406)
Q Consensus        99 ~~~~~vi~I~G~gGiGKTtLA~~v~~~~~  127 (406)
                      +....+++|+|+.|+|||+||..++....
T Consensus        40 ~~~g~iivIiGPTGSGKStLA~~LA~~l~   68 (334)
T PLN02165         40 NCKDKVVVIMGATGSGKSRLSVDLATRFP   68 (334)
T ss_pred             CCCCCEEEEECCCCCcHHHHHHHHHHHcC
Confidence            34456999999999999999998877643

>PRK00023 cmk cytidylate kinase; Provisional

Probab=93.96  E-value=0.099  Score=46.99  Aligned_cols=26  Identities=31%  Similarity=0.339  Sum_probs=22.5

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCCh
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDKD  127 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~~  127 (406)
                      ..+|+|.|++|+||||+|+.+.+...
T Consensus         4 ~~~i~i~g~~gsGksti~~~la~~~~   29 (225)
T PRK00023          4 AIVIAIDGPAGSGKGTVAKILAKKLG   29 (225)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHhC
Confidence            36899999999999999998877653

>cd03285 ABC_MSH2_euk MutS2 homolog in eukaryotes

Probab=93.95  E-value=0.36  Score=43.27  Aligned_cols=23  Identities=22%  Similarity=0.131  Sum_probs=20.4

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHh
Q 038234          101 PIKMISIVGMGGIGKITLAQMAY  123 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~  123 (406)
                      +.+++.|+|+.|.||||+.+.+.
T Consensus        29 ~~~~~~l~G~n~~GKstll~~i~   51 (222)
T cd03285          29 KSRFLIITGPNMGGKSTYIRQIG   51 (222)
T ss_pred             CCeEEEEECCCCCChHHHHHHHH
Confidence            46799999999999999988876

The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal domain with a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding c

>cd01120 RecA-like_NTPases RecA-like NTPases

Probab=93.93  E-value=0.035  Score=46.52  Aligned_cols=22  Identities=36%  Similarity=0.412  Sum_probs=18.7

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcC
Q 038234          104 MISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ++.|+|.+|+|||+++..+...
T Consensus         1 ~~~i~G~~G~GKT~l~~~i~~~   22 (165)
T cd01120           1 LILVFGPTGSGKTTLALQLALN   22 (165)
T ss_pred             CeeEeCCCCCCHHHHHHHHHHH
Confidence            3689999999999999887554

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.

>PRK13233 nifH nitrogenase reductase; Reviewed

Probab=93.93  E-value=0.044  Score=50.86  Aligned_cols=20  Identities=50%  Similarity=0.710  Sum_probs=17.0

Q ss_pred             EEEEEeeeCCCcHHHHHHHH
Q 038234          103 KMISIVGMGGIGKITLAQMA  122 (406)
Q Consensus       103 ~vi~I~G~gGiGKTtLA~~v  122 (406)
                      ++|+|.|-|||||||+|..+
T Consensus         3 ~vIav~~KGGVGKTT~a~nL   22 (275)
T PRK13233          3 RKIAIYGKGGIGKSTTTQNT   22 (275)
T ss_pred             eEEEEEcCCCCcHHHHHHHH
Confidence            58888899999999988643

>TIGR00455 apsK adenylylsulfate kinase (apsK)

Probab=93.93  E-value=0.055  Score=46.92  Aligned_cols=26  Identities=27%  Similarity=0.339  Sum_probs=22.2

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ....++.|.|.+|.||||+|+.+...
T Consensus        16 ~~~~~i~i~G~~GsGKstla~~l~~~   41 (184)
T TIGR00455        16 HRGVVIWLTGLSGSGKSTIANALEKK   41 (184)
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            34679999999999999999887654

Important residue (active site in E.coli) is residue 100 of the seed alignment.

>PRK12338 hypothetical protein; Provisional

Probab=93.92  E-value=0.045  Score=51.45  Aligned_cols=26  Identities=31%  Similarity=0.272  Sum_probs=23.2

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCCh
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDKD  127 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~~  127 (406)
                      +.+|.|.|.+|+||||+|+.+.....
T Consensus         4 p~ii~i~G~sGsGKST~a~~la~~l~   29 (319)
T PRK12338          4 PYVILIGSASGIGKSTIASELARTLN   29 (319)
T ss_pred             cEEEEEECCCCCCHHHHHHHHHHHCC
Confidence            56899999999999999999988754

>TIGR01663 PNK-3'Pase polynucleotide 5'-kinase 3'-phosphatase

Probab=93.91  E-value=0.092  Score=53.05  Aligned_cols=63  Identities=21%  Similarity=0.399  Sum_probs=39.0

Q ss_pred             CCCcEEEEEeeeCCCcHHHHHHHHhcCChH-HHHHHHHHHhcCCCCCCCCHHHHHHHHHhhccCcceeEEeeCCC
Q 038234           99 QKPIKMISIVGMGGIGKITLAQMAYNDKDF-RVAKAIIAALGCETSNLGSLQSLVRCISESIEGKKYLVVLDDVW  172 (406)
Q Consensus        99 ~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~-~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdvw  172 (406)
                      .....+|.++|.+|.||||+|+.++..... .+-.+.+          ...+.......+.|...+- +|+|+..
T Consensus       366 ~~~p~LVil~G~pGSGKST~A~~l~~~~g~~~vn~D~l----------g~~~~~~~~a~~~L~~G~s-VVIDaTn  429 (526)
T TIGR01663       366 DAPCEMVIAVGFPGAGKSHFCKKFFQPAGYKHVNADTL----------GSTQNCLTACERALDQGKR-CAIDNTN  429 (526)
T ss_pred             CCCceEEEEECCCCCCHHHHHHHHHHHcCCeEECcHHH----------HHHHHHHHHHHHHHhCCCc-EEEECCC
Confidence            356789999999999999999988764321 1111111          1123344555666665544 5779884

Note that the EC number for the kinase function is: 2.7.1.78

>PRK08099 bifunctional DNA-binding transcriptional repressor/ NMN adenylyltransferase; Provisional

Probab=93.91  E-value=0.037  Score=54.15  Aligned_cols=28  Identities=25%  Similarity=0.221  Sum_probs=24.1

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhcCCh
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYNDKD  127 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~  127 (406)
                      .-.+.|+|+|..|.|||||++++++...
T Consensus       217 ~~~~~IvI~G~~gsGKTTL~~~La~~~g  244 (399)
T PRK08099        217 FFVRTVAILGGESSGKSTLVNKLANIFN  244 (399)
T ss_pred             CCCcEEEEEcCCCCCHHHHHHHHHHHhC
Confidence            4478899999999999999999887643

>COG1119 ModF ABC-type molybdenum transport system, ATPase component/photorepair protein PhrA [Inorganic ion transport and metabolism]

Probab=93.91  E-value=0.13  Score=46.10  Aligned_cols=22  Identities=36%  Similarity=0.505  Sum_probs=18.9

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcC
Q 038234          104 MISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      --.|+|+.|.|||||.+.+.-+
T Consensus        59 ~W~I~G~NGsGKTTLL~ll~~~   80 (257)
T COG1119          59 HWAIVGPNGAGKTTLLSLLTGE   80 (257)
T ss_pred             cEEEECCCCCCHHHHHHHHhcc
Confidence            4579999999999999887654

>PRK02496 adk adenylate kinase; Provisional

Probab=93.89  E-value=0.042  Score=47.64  Aligned_cols=23  Identities=26%  Similarity=0.219  Sum_probs=20.1

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcCC
Q 038234          104 MISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      .+.|.|++|+||||+|+.+....
T Consensus         3 ~i~i~G~pGsGKst~a~~la~~~   25 (184)
T PRK02496          3 RLIFLGPPGAGKGTQAVVLAEHL   25 (184)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            48899999999999999887654

>PLN02796 D-glycerate 3-kinase

Probab=93.89  E-value=0.091  Score=49.93  Aligned_cols=27  Identities=30%  Similarity=0.174  Sum_probs=22.6

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      ...-+|+|.|..|.|||||++.+....
T Consensus        98 ~~pliIGI~G~sGSGKSTLa~~L~~lL  124 (347)
T PLN02796         98 IPPLVIGISAPQGCGKTTLVFALVYLF  124 (347)
T ss_pred             CCCEEEEEECCCCCcHHHHHHHHHHHh
Confidence            356789999999999999998876543

>PRK13235 nifH nitrogenase reductase; Reviewed

Probab=93.89  E-value=0.042  Score=51.02  Aligned_cols=21  Identities=43%  Similarity=0.645  Sum_probs=17.5

Q ss_pred             EEEEEeeeCCCcHHHHHHHHh
Q 038234          103 KMISIVGMGGIGKITLAQMAY  123 (406)
Q Consensus       103 ~vi~I~G~gGiGKTtLA~~v~  123 (406)
                      ++|+|+|-||+||||++..+.
T Consensus         2 ~~iav~~KGGVGKTT~~~nLA   22 (274)
T PRK13235          2 RKVAIYGKGGIGKSTTTQNTV   22 (274)
T ss_pred             CEEEEeCCCCccHHHHHHHHH
Confidence            478888999999999886543

>cd04163 Era Era subfamily

Probab=93.85  E-value=0.057  Score=45.08  Aligned_cols=24  Identities=29%  Similarity=0.410  Sum_probs=21.0

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ..+|+++|..|+|||||+..+...
T Consensus         3 ~~~i~~~G~~g~GKttl~~~l~~~   26 (168)
T cd04163           3 SGFVAIVGRPNVGKSTLLNALVGQ   26 (168)
T ss_pred             eeEEEEECCCCCCHHHHHHHHhCC
Confidence            457999999999999999998754

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.

>PRK10522 multidrug transporter membrane component/ATP-binding component; Provisional

Probab=93.84  E-value=0.16  Score=52.07  Aligned_cols=27  Identities=30%  Similarity=0.321  Sum_probs=22.8

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      ++...++|+|..|.|||||++.+....
T Consensus       347 ~~G~~~aivG~sGsGKSTL~~ll~g~~  373 (547)
T PRK10522        347 KRGELLFLIGGNGSGKSTLAMLLTGLY  373 (547)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            345689999999999999999887654

>TIGR01351 adk adenylate kinases

Probab=93.80  E-value=0.04  Score=48.92  Aligned_cols=23  Identities=26%  Similarity=0.271  Sum_probs=20.2

Q ss_pred             EEEeeeCCCcHHHHHHHHhcCCh
Q 038234          105 ISIVGMGGIGKITLAQMAYNDKD  127 (406)
Q Consensus       105 i~I~G~gGiGKTtLA~~v~~~~~  127 (406)
                      |.|.|++|+||||+|+.+.....
T Consensus         2 I~i~G~pGsGKsT~a~~La~~~g   24 (210)
T TIGR01351         2 LVLLGPPGSGKGTQAKRIAEKYG   24 (210)
T ss_pred             EEEECCCCCCHHHHHHHHHHHcC
Confidence            67999999999999999887654

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.

>cd01862 Rab7 Rab7 subfamily

Probab=93.77  E-value=0.051  Score=46.10  Aligned_cols=22  Identities=32%  Similarity=0.517  Sum_probs=19.3

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcC
Q 038234          104 MISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      -|+|+|.+|+|||||+..+.+.
T Consensus         2 ki~viG~~~~GKSsl~~~l~~~   23 (172)
T cd01862           2 KVIILGDSGVGKTSLMNQYVNK   23 (172)
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            3789999999999999888765

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-

>KOG1970 consensus Checkpoint RAD17-RFC complex, RAD17/RAD24 component [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=93.76  E-value=0.19  Score=49.96  Aligned_cols=46  Identities=17%  Similarity=0.254  Sum_probs=33.4

Q ss_pred             hhHHHHHHHHh--cCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChH
Q 038234           82 YKKNELLSKLL--SDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDF  128 (406)
Q Consensus        82 ~~~~~l~~~L~--~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~  128 (406)
                      +.+.++..||.  ..-. ..-+.+++.|+|++|+||||..+.++.....
T Consensus        89 kKI~eVk~WL~~~~~~~-~~l~~~iLLltGPsGcGKSTtvkvLskelg~  136 (634)
T KOG1970|consen   89 KKISEVKQWLKQVAEFT-PKLGSRILLLTGPSGCGKSTTVKVLSKELGY  136 (634)
T ss_pred             HhHHHHHHHHHHHHHhc-cCCCceEEEEeCCCCCCchhHHHHHHHhhCc
Confidence            45777888887  1110 1345679999999999999999888776544

>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=93.74  E-value=0.054  Score=45.79  Aligned_cols=23  Identities=39%  Similarity=0.536  Sum_probs=20.1

Q ss_pred             EEEEEeeeCCCcHHHHHHHHhcC
Q 038234          103 KMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       103 ~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ++++|+|..|+|||||+..+...
T Consensus         2 ~vi~i~G~~gsGKTTli~~L~~~   24 (159)
T cd03116           2 KVIGFVGYSGSGKTTLLEKLIPA   24 (159)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            58999999999999999887653

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.

>PRK14526 adenylate kinase; Provisional

Probab=93.73  E-value=0.13  Score=45.64  Aligned_cols=22  Identities=32%  Similarity=0.460  Sum_probs=19.1

Q ss_pred             EEEeeeCCCcHHHHHHHHhcCC
Q 038234          105 ISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       105 i~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      +.|+|++|+||||+|+.+....
T Consensus         3 i~l~G~pGsGKsT~a~~La~~~   24 (211)
T PRK14526          3 LVFLGPPGSGKGTIAKILSNEL   24 (211)
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            6799999999999999887543

>cd01130 VirB11-like_ATPase Type IV secretory pathway component VirB11, and related ATPases

Probab=93.72  E-value=0.085  Score=45.86  Aligned_cols=36  Identities=28%  Similarity=0.159  Sum_probs=25.9

Q ss_pred             hHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234           83 KKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus        83 ~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      +..+++......       ...+.|+|..|.|||||++.+...
T Consensus        13 ~~~~~l~~~v~~-------g~~i~I~G~tGSGKTTll~aL~~~   48 (186)
T cd01130          13 LQAAYLWLAVEA-------RKNILISGGTGSGKTTLLNALLAF   48 (186)
T ss_pred             HHHHHHHHHHhC-------CCEEEEECCCCCCHHHHHHHHHhh
Confidence            445555555432       458999999999999999886543

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.

>PRK14528 adenylate kinase; Provisional

Probab=93.72  E-value=0.044  Score=47.72  Aligned_cols=24  Identities=33%  Similarity=0.329  Sum_probs=20.6

Q ss_pred             EEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          103 KMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       103 ~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      +.|.|.|++|+||||+|+.+.+..
T Consensus         2 ~~i~i~G~pGsGKtt~a~~la~~~   25 (186)
T PRK14528          2 KNIIFMGPPGAGKGTQAKILCERL   25 (186)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHh
Confidence            358899999999999999887654

>TIGR02237 recomb_radB DNA repair and recombination protein RadB

Probab=93.71  E-value=0.061  Score=47.60  Aligned_cols=26  Identities=19%  Similarity=0.203  Sum_probs=22.1

Q ss_pred             CCCcEEEEEeeeCCCcHHHHHHHHhc
Q 038234           99 QKPIKMISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus        99 ~~~~~vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      =+...++.|+|.+|+|||+++.++..
T Consensus         9 i~~g~i~~i~G~~GsGKT~l~~~~~~   34 (209)
T TIGR02237         9 VERGTITQIYGPPGSGKTNICMILAV   34 (209)
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHH
Confidence            35578999999999999999987654

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

>PF01078 Mg_chelatase: Magnesium chelatase, subunit ChlI; InterPro: IPR000523 Magnesium-chelatase is a three-component enzyme that catalyses the insertion of Mg2+ into protoporphyrin IX

Probab=93.71  E-value=0.1  Score=45.87  Aligned_cols=42  Identities=26%  Similarity=0.307  Sum_probs=29.0

Q ss_pred             CceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhc
Q 038234           75 SEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      .+++|.+..+..+.-....        .+-+.++|.+|+|||+||+.+..
T Consensus         3 ~dI~GQe~aKrAL~iAAaG--------~h~lLl~GppGtGKTmlA~~l~~   44 (206)
T PF01078_consen    3 SDIVGQEEAKRALEIAAAG--------GHHLLLIGPPGTGKTMLARRLPS   44 (206)
T ss_dssp             CCSSSTHHHHHHHHHHHHC--------C--EEEES-CCCTHHHHHHHHHH
T ss_pred             hhhcCcHHHHHHHHHHHcC--------CCCeEEECCCCCCHHHHHHHHHH
Confidence            3567877666666555542        34789999999999999998754

This is the first unique step in the synthesis of (bacterio)chlorophyll. As a result, it is thought that Mg-chelatase has an important role in channeling intermediates into the (bacterio)chlorophyll branch in response to conditions suitable for photosynthetic growth. ChlI and BchD have molecular weights between 38-42 kDa.; GO: 0016851 magnesium chelatase activity, 0015979 photosynthesis, 0015995 chlorophyll biosynthetic process; PDB: 2X31_J 1G8P_A 3K1J_B.

>PF03215 Rad17: Rad17 cell cycle checkpoint protein

Probab=93.70  E-value=0.053  Score=54.78  Aligned_cols=53  Identities=25%  Similarity=0.300  Sum_probs=39.6

Q ss_pred             CceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChH
Q 038234           75 SEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDF  128 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~  128 (406)
                      .+++--.+.++++..||...-. +....+++.+.|++|+||||.++.+++....
T Consensus        19 ~eLavhkkKv~eV~~wl~~~~~-~~~~~~iLlLtGP~G~GKtttv~~La~elg~   71 (519)
T PF03215_consen   19 DELAVHKKKVEEVRSWLEEMFS-GSSPKRILLLTGPSGCGKTTTVKVLAKELGF   71 (519)
T ss_pred             HHhhccHHHHHHHHHHHHHHhc-cCCCcceEEEECCCCCCHHHHHHHHHHHhCC
Confidence            3455556778899999875322 1334669999999999999999999887654

>PTZ00494 tuzin-like protein; Provisional

Probab=93.69  E-value=1.1  Score=43.99  Aligned_cols=154  Identities=12%  Similarity=0.159  Sum_probs=93.6

Q ss_pred             cCCCceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChH-----------HHHHHHHHHhcC
Q 038234           72 IDESEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDF-----------RVAKAIIAALGC  140 (406)
Q Consensus        72 ~~~~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~-----------~~~~~i~~~l~~  140 (406)
                      ....++|.|+.+-.-+.+.|..-.   ...++++.+.|.-|.||++|.+........           +-+..+.+.++-
T Consensus       368 a~~~~~V~R~~eE~~vRqvL~qld---~aHPRIvV~TG~~GcGKSslcRsAvrkE~~paV~VDVRg~EDtLrsVVKALgV  444 (664)
T PTZ00494        368 AAEAFEVRREDEEALVRSVLTQMA---PSHPRIVALAGGSGGGRCVPCRRAVRVEGVALVHVDVGGTEDTLRSVVRALGV  444 (664)
T ss_pred             cccccccchhhHHHHHHHHHhhcc---CCCCcEEEEecCCCCCchHHHHHHHHHcCCCeEEEEecCCcchHHHHHHHhCC
Confidence            445678999988887777776543   466899999999999999999887776543           667788888876


Q ss_pred             CCCCC-CC-HHHHHHHHH---hhccCcceeEEeeCCCCcC--ccCcchhhhccCCCCCCcEEEEecCChHHHHHhc---c
Q 038234          141 ETSNL-GS-LQSLVRCIS---ESIEGKKYLVVLDDVWTDD--YTKWEPFQRCSANGQCGNNILVTTHKKTVARMME---S  210 (406)
Q Consensus       141 ~~~~~-~~-~~~~~~~l~---~~l~~kr~LlVlDdvw~~~--~~~~~~l~~~l~~~~~gs~IivTtR~~~v~~~~~---~  210 (406)
                      ...+. .+ ++.+.+...   ....|+.-+||+-=- +-+  ...++.. ..|.....-|.|++.--.+.+....-   .
T Consensus       445 ~nve~CGDlLdFI~ea~~~A~~~~~g~~P~lVlkLR-EGssL~RVYnE~-vaLacDrRlCHvv~EVplESLT~~n~~LPR  522 (664)
T PTZ00494        445 SNVEVCGDLLGFVEEAMRGATVKASDGVPFLVMRLR-EGSDLGRVYGEV-VSLVSDCQACHIVLAVPMKALTPLNVSSRR  522 (664)
T ss_pred             CChhhhccHHHHHHHHHHHHHHhcCCCCCEEEEEec-cCCcHHHHHHHH-HHHHccchhheeeeechHhhhchhhccCcc
Confidence            54332 12 233333322   234567777777421 110  0011111 11223334567776655444333221   2


Q ss_pred             CCccccCCCChHHHHHhhhh
Q 038234          211 TNFISIKELSTQECWSLFKQ  230 (406)
Q Consensus       211 ~~~~~l~~L~~~~a~~Lf~~  230 (406)
                      ...|-+.+++.++|.+.-.+
T Consensus       523 LDFy~VPnFSr~QAf~YtqH  542 (664)
T PTZ00494        523 LDFYCIPPFSRRQAFAYAEH  542 (664)
T ss_pred             ceeEecCCcCHHHHHHHHhc
Confidence            56788899999998876555

>COG2074 2-phosphoglycerate kinase [Carbohydrate transport and metabolism]

Probab=93.69  E-value=0.21  Score=44.93  Aligned_cols=50  Identities=20%  Similarity=0.216  Sum_probs=35.1

Q ss_pred             HHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChH------HHHHHHHHHhc
Q 038234           85 NELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDF------RVAKAIIAALG  139 (406)
Q Consensus        85 ~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~------~~~~~i~~~l~  139 (406)
                      -.++..+..     -..+.+|.|=|.+|+||||+|..++++...      +..++++..+-
T Consensus        77 Y~lwR~ir~-----~~~p~IILIGGasGVGkStIA~ElA~rLgI~~visTD~IREvlR~ii  132 (299)
T COG2074          77 YLLWRRIRK-----MKRPLIILIGGASGVGKSTIAGELARRLGIRSVISTDSIREVLRKII  132 (299)
T ss_pred             HHHHHHHhc-----cCCCeEEEecCCCCCChhHHHHHHHHHcCCceeecchHHHHHHHHhC
Confidence            344555543     244779999999999999999999988754      44555555443

>TIGR01420 pilT_fam pilus retraction protein PilT

Probab=93.69  E-value=0.059  Score=51.79  Aligned_cols=101  Identities=14%  Similarity=0.115  Sum_probs=54.9

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCCh----H---------HHHHHHHHHhcCCCCCCCCHHHHHHHHHhhccCcceeEEe
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDKD----F---------RVAKAIIAALGCETSNLGSLQSLVRCISESIEGKKYLVVL  168 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~~----~---------~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVl  168 (406)
                      ...+.|.|+.|.||||+...+.+...    .         ++...-...+..+.............++..|...+=.|++
T Consensus       122 ~g~ili~G~tGSGKTT~l~al~~~i~~~~~~~i~tiEdp~E~~~~~~~~~i~q~evg~~~~~~~~~l~~~lr~~pd~i~v  201 (343)
T TIGR01420       122 RGLILVTGPTGSGKSTTLASMIDYINKNAAGHIITIEDPIEYVHRNKRSLINQREVGLDTLSFANALRAALREDPDVILI  201 (343)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHhhCcCCCCEEEEEcCChhhhccCccceEEccccCCCCcCHHHHHHHhhccCCCEEEE
Confidence            45899999999999999988765321    1         1110000000000000111223556677778888999999


Q ss_pred             eCCCCcCccCcchhhhccCCCCCCcEEEEecCChHHHHH
Q 038234          169 DDVWTDDYTKWEPFQRCSANGQCGNNILVTTHKKTVARM  207 (406)
Q Consensus       169 Ddvw~~~~~~~~~l~~~l~~~~~gs~IivTtR~~~v~~~  207 (406)
                      |.+.  +.+.+......   ...|..|+.|.........
T Consensus       202 gEir--d~~~~~~~l~a---a~tGh~v~~T~Ha~~~~~~  235 (343)
T TIGR01420       202 GEMR--DLETVELALTA---AETGHLVFGTLHTNSAAQT  235 (343)
T ss_pred             eCCC--CHHHHHHHHHH---HHcCCcEEEEEcCCCHHHH
Confidence            9994  33334332222   2335556666666555443

This model represents the PilT subfamily of proteins related to GspE, a protein involved in type II secretion (also called the General Secretion Pathway). PilT is an apparent cytosolic ATPase associated with type IV pilus systems. It is not required for pilin biogenesis, but is required for twitching motility and social gliding behaviors, shown in some species, powered by pilus retraction. Members of this family may be found in some species that type IV pili but have related structures for DNA uptake and natural transformation.

>TIGR01618 phage_P_loop phage nucleotide-binding protein

Probab=93.69  E-value=0.048  Score=48.59  Aligned_cols=23  Identities=26%  Similarity=0.265  Sum_probs=20.0

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhc
Q 038234          102 IKMISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      ...+.|+|.+|+||||+|+.+..
T Consensus        12 ~~~~liyG~~G~GKtt~a~~~~~   34 (220)
T TIGR01618        12 PNMYLIYGKPGTGKTSTIKYLPG   34 (220)
T ss_pred             CcEEEEECCCCCCHHHHHHhcCC
Confidence            45699999999999999998754

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.

>TIGR00231 small_GTP small GTP-binding protein domain

Probab=93.68  E-value=0.056  Score=44.52  Aligned_cols=23  Identities=39%  Similarity=0.456  Sum_probs=19.9

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcCC
Q 038234          104 MISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      -|+++|.+|+|||||+..+....
T Consensus         3 ki~~~G~~~~GKstl~~~l~~~~   25 (161)
T TIGR00231         3 KIVIVGDPNVGKSTLLNRLLGNK   25 (161)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            47899999999999998887653

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.

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

Probab=93.67  E-value=0.13  Score=49.49  Aligned_cols=69  Identities=23%  Similarity=0.312  Sum_probs=38.9

Q ss_pred             CcEEEEEeeeCCCcHHH-HHHHHhcCC------hH-------------HHHHHHHHHhcCCCCCCCCHHHHHHHHHhhcc
Q 038234          101 PIKMISIVGMGGIGKIT-LAQMAYNDK------DF-------------RVAKAIIAALGCETSNLGSLQSLVRCISESIE  160 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTt-LA~~v~~~~------~~-------------~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~  160 (406)
                      +.++|.++|+.|||||| ||+..++..      ++             +-++....-++.......+..++...+... .
T Consensus       202 ~~~vi~LVGPTGVGKTTTlAKLAar~~~~~~~~kVaiITtDtYRIGA~EQLk~Ya~im~vp~~vv~~~~el~~ai~~l-~  280 (407)
T COG1419         202 QKRVIALVGPTGVGKTTTLAKLAARYVMLKKKKKVAIITTDTYRIGAVEQLKTYADIMGVPLEVVYSPKELAEAIEAL-R  280 (407)
T ss_pred             cCcEEEEECCCCCcHHHHHHHHHHHHHhhccCcceEEEEeccchhhHHHHHHHHHHHhCCceEEecCHHHHHHHHHHh-h
Confidence            47899999999999996 554443322      11             334444555555444445555555554433 2


Q ss_pred             CcceeEEeeCC
Q 038234          161 GKKYLVVLDDV  171 (406)
Q Consensus       161 ~kr~LlVlDdv  171 (406)
                      +. =+|.+|-+
T Consensus       281 ~~-d~ILVDTa  290 (407)
T COG1419         281 DC-DVILVDTA  290 (407)
T ss_pred             cC-CEEEEeCC
Confidence            22 34455654

>cd03284 ABC_MutS1 MutS1 homolog in eukaryotes

Probab=93.67  E-value=0.042  Score=49.04  Aligned_cols=21  Identities=24%  Similarity=0.267  Sum_probs=19.3

Q ss_pred             EEEEEeeeCCCcHHHHHHHHh
Q 038234          103 KMISIVGMGGIGKITLAQMAY  123 (406)
Q Consensus       103 ~vi~I~G~gGiGKTtLA~~v~  123 (406)
                      .+++|+|+.|.||||+.+.+.
T Consensus        31 ~~~~l~Gpn~sGKstllr~i~   51 (216)
T cd03284          31 QILLITGPNMAGKSTYLRQVA   51 (216)
T ss_pred             eEEEEECCCCCChHHHHHHHH
Confidence            789999999999999998874

The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal domain with a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding clam

>PF00142 Fer4_NifH: 4Fe-4S iron sulfur cluster binding proteins, NifH/frxC family; InterPro: IPR000392 This entry represents members of the NifH/BchL/ChlL family

Probab=93.63  E-value=0.064  Score=48.66  Aligned_cols=21  Identities=48%  Similarity=0.607  Sum_probs=17.8

Q ss_pred             EEEEEeeeCCCcHHHHHHHHh
Q 038234          103 KMISIVGMGGIGKITLAQMAY  123 (406)
Q Consensus       103 ~vi~I~G~gGiGKTtLA~~v~  123 (406)
                      +.|+|+|-|||||||.+..+.
T Consensus         1 r~IAiYGKGGIGKST~~~Nls   21 (273)
T PF00142_consen    1 RKIAIYGKGGIGKSTTASNLS   21 (273)
T ss_dssp             EEEEEEESTTSSHHHHHHHHH
T ss_pred             CeEEEEcCCCcccChhhhHHH
Confidence            468999999999999886553

Nitrogen fixing bacteria possess a nitrogenase enzyme complex that catalyses the reduction of molecular nitrogen to ammonia [, , ]. The nitrogenase enzyme complex consists of two components: Component I is nitrogenase MoFe protein or dinitrogenase, which contains 2 molecules each of 2 non-identical subunits. Component II is nitrogenase Fe protein or dinitrogenase reductase, which is a homodimer. The monomer is encoded by the nifH gene []. Component II has 2 ATP-binding domains and one 4Fe-4S cluster per homodimer: it supplies energy by ATP hydrolysis, and transfers electrons from reduced ferredoxin or flavodoxin to component I for the reduction of molecular nitrogen to ammonia []. There are a number of conserved regions in the sequence of these proteins: in the N-terminal section there is an ATP-binding site motif 'A' (P-loop) IPR001687 from INTERPRO and in the central section there are two conserved cysteines which have been shown, in nifH, to be the ligands of the 4Fe-4S cluster. Protochlorophyllide reductase is involved in light-independent chlorophyll biosynthesis. The light-independent reaction uses Mg-ATP and reduced ferredoxin to reduce ring D of protochlorophyllide (Pchlide) to form chlorophyllide a (Chlide). This enzyme complex is composed of three subunits: ChlL, ChlN and ChlB. ChlL is present as a homodimer, and binds one 4Fe-4S cluster per dimer. The conserved domains, including the ATP-binding motif and the Fe-S binding motif found in the three subunits, are similar to those in nitrogenases []. ; GO: 0005524 ATP binding, 0016491 oxidoreductase activity, 0055114 oxidation-reduction process; PDB: 1CP2_A 2AFI_F 1N2C_F 1FP6_C 2AFK_G 1M34_M 1XD8_A 1NIP_A 1M1Y_N 1G21_H ....

>TIGR03498 FliI_clade3 flagellar protein export ATPase FliI

Probab=93.63  E-value=0.14  Score=50.32  Aligned_cols=26  Identities=31%  Similarity=0.404  Sum_probs=22.4

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCCh
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDKD  127 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~~  127 (406)
                      ...++|.|..|+|||||++.+.....
T Consensus       140 Gq~i~I~G~sG~GKTtLl~~I~~~~~  165 (418)
T TIGR03498       140 GQRLGIFAGSGVGKSTLLSMLARNTD  165 (418)
T ss_pred             CcEEEEECCCCCChHHHHHHHhCCCC
Confidence            45789999999999999998887643

Members of this protein family are the FliI protein of bacterial flagellum systems. This protein acts to drive protein export for flagellar biosynthesis. The most closely related family is the YscN family of bacterial type III secretion systems. This model represents one (of three) segment of the FliI family tree. These have been modeled separately in order to exclude the type III secretion ATPases more effectively.

>PRK05986 cob(I)alamin adenolsyltransferase/cobinamide ATP-dependent adenolsyltransferase; Validated

Probab=93.62  E-value=0.11  Score=45.05  Aligned_cols=48  Identities=17%  Similarity=0.142  Sum_probs=30.8

Q ss_pred             HHhhccC-cceeEEeeCCCC---cCccCcchhhhccCCCCCCcEEEEecCCh
Q 038234          155 ISESIEG-KKYLVVLDDVWT---DDYTKWEPFQRCSANGQCGNNILVTTHKK  202 (406)
Q Consensus       155 l~~~l~~-kr~LlVlDdvw~---~~~~~~~~l~~~l~~~~~gs~IivTtR~~  202 (406)
                      .++.+.. +-=|+|||.+-.   ...-..+.+...+.....+.-||+|-|+.
T Consensus       107 a~~~l~~~~ydlvVLDEi~~Al~~gli~~eevi~~L~~rp~~~evVlTGR~~  158 (191)
T PRK05986        107 AKRMLADESYDLVVLDELTYALKYGYLDVEEVLEALNARPGMQHVVITGRGA  158 (191)
T ss_pred             HHHHHhCCCCCEEEEehhhHHHHCCCccHHHHHHHHHcCCCCCEEEEECCCC
Confidence            3444444 445999998721   11223455666666666788999999985

>PF07724 AAA_2: AAA domain (Cdc48 subfamily); InterPro: IPR013093 ATPases Associated to a variety of cellular Activities (AAA) are a family distinguished by a highly conserved module of 230 amino acids []

Probab=93.61  E-value=0.063  Score=46.02  Aligned_cols=26  Identities=27%  Similarity=0.350  Sum_probs=20.9

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          101 PIKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      +..++.+.|+.|+|||.||+.+.+..
T Consensus         2 p~~~~ll~GpsGvGKT~la~~la~~l   27 (171)
T PF07724_consen    2 PKSNFLLAGPSGVGKTELAKALAELL   27 (171)
T ss_dssp             -SEEEEEESSTTSSHHHHHHHHHHHH
T ss_pred             CEEEEEEECCCCCCHHHHHHHHHHHh
Confidence            35688999999999999998776543

The highly conserved nature of this module across taxa suggests that it has a key cellular role. Members of the family are involved in diverse cellular functions including gene expression, peroxisome assembly and vesicle mediated transport. Although the role of ATPase AAA-2 domain is not, as yet, clear, the AAA+ superfamily of proteins to which the AAA ATPases belong has a chaperone-like function in the assembly, operation or disassembly of proteins []. Some of these ATPases function as a chaperone subunit of a proteasome-like degradation complex. This ATPase family includes some proteins not detected by IPR003959 from INTERPRO.; GO: 0005524 ATP binding; PDB: 1R6B_X 1KSF_X 3PXI_C 1KYI_T 1G3I_S 1OFH_B 1OFI_A 1G41_A 1IM2_A 1HQY_E ....

>cd04138 H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily

Probab=93.61  E-value=0.056  Score=45.16  Aligned_cols=22  Identities=32%  Similarity=0.613  Sum_probs=18.9

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcC
Q 038234          104 MISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      -|.++|.+|+|||||...+.+.
T Consensus         3 ki~iiG~~~vGKTsl~~~~~~~   24 (162)
T cd04138           3 KLVVVGAGGVGKSALTIQLIQN   24 (162)
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            3688999999999999888754

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.

>smart00072 GuKc Guanylate kinase homologues

Probab=93.60  E-value=0.06  Score=46.71  Aligned_cols=25  Identities=28%  Similarity=0.332  Sum_probs=22.2

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      .+.|.|+|++|+||+||+..+.+..
T Consensus         2 ~r~ivl~Gpsg~GK~tl~~~L~~~~   26 (184)
T smart00072        2 RRPIVLSGPSGVGKGTLLAELIQEI   26 (184)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHhcC
Confidence            4579999999999999999998774

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.

>cd02032 Bchl_like This family of proteins contains bchL and chlL

Probab=93.59  E-value=0.05  Score=50.25  Aligned_cols=20  Identities=35%  Similarity=0.586  Sum_probs=17.0

Q ss_pred             EEEEeeeCCCcHHHHHHHHh
Q 038234          104 MISIVGMGGIGKITLAQMAY  123 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~  123 (406)
                      +|+|.|-||+||||+|..+.
T Consensus         2 ~i~v~gKGGvGKTT~a~nLA   21 (267)
T cd02032           2 VLAVYGKGGIGKSTTSSNLS   21 (267)
T ss_pred             EEEEecCCCCCHHHHHHHHH
Confidence            68899999999999886653

Protochlorophyllide reductase catalyzes the reductive formation of chlorophyllide from protochlorophyllide during biosynthesis of chlorophylls and bacteriochlorophylls. Three genes, bchL, bchN and bchB, are involved in light-independent protochlorophyllide reduction in bacteriochlorophyll biosynthesis. In cyanobacteria, algae, and gymnosperms, three similar genes, chlL, chlN and chlB are involved in protochlorophyllide reduction during chlorophylls biosynthesis. BchL/chlL, bchN/chlN and bchB/chlB exhibit significant sequence similarity to the nifH, nifD and nifK subunits of nitrogenase, respectively. Nitrogenase catalyzes the reductive formation of ammonia from dinitrogen.

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

Probab=93.56  E-value=0.057  Score=49.98  Aligned_cols=23  Identities=39%  Similarity=0.549  Sum_probs=19.8

Q ss_pred             EEEEEeeeCCCcHHHHHHHHhcC
Q 038234          103 KMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       103 ~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ++|+|+|.+|+|||||+..+...
T Consensus         2 ~~i~i~G~~gSGKTTLi~~Li~~   24 (274)
T PRK14493          2 KVLSIVGYKATGKTTLVERLVDR   24 (274)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHH
Confidence            47999999999999999876543

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

Probab=93.56  E-value=0.057  Score=44.50  Aligned_cols=24  Identities=42%  Similarity=0.573  Sum_probs=20.8

Q ss_pred             EEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          103 KMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       103 ~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      +.|.++|..|.|||||++.+-...
T Consensus         2 krimliG~~g~GKTTL~q~L~~~~   25 (143)
T PF10662_consen    2 KRIMLIGPSGSGKTTLAQALNGEE   25 (143)
T ss_pred             ceEEEECCCCCCHHHHHHHHcCCC
Confidence            468899999999999999987754

Both pathways require coenzyme B12 (adenosylcobalamin, AdoCbl). Bacteria that harbour these pathways can use ethanolamine as a source of carbon and nitrogen, or propanediol as a sole carbon and energy source, respectively. The exact roles of the EutP and PduV proteins in these respective pathways are not yet determined. Members of this family contain P-loop consensus motifs in the N-terminal part, and are distantly related to various GTPases and ATPases, including ATPase components of transport systems. Propanediol degradation is thought to be important for the natural Salmonella populations, since propanediol is produced by the fermentation of the common plant sugars rhamnose and fucose [, ]. More than 1% of the Salmonella enterica genome is devoted to the utilisation of propanediol and cobalamin biosynthesis. In vivo expression technology has indicated that propanediol utilisation (pdu) genes may be important for growth in host tissues, and competitive index studies with mice have shown that pdu mutations confer a virulence defect [, ]. The pdu operon is contiguous and co-regulated with the cobalamin (B12) biosynthesis cob operon, indicating that propanediol catabolism may be the primary reason for de novo B12 synthesis in Salmonella [, , ]. Please see IPR003207 from INTERPRO, IPR003208 from INTERPRO, IPR009204 from INTERPRO, IPR009191 from INTERPRO, IPR009192 from INTERPRO for more details on the propanediol utilisation pathway and the pdu operon.; GO: 0005524 ATP binding, 0006576 cellular biogenic amine metabolic process

>smart00175 RAB Rab subfamily of small GTPases

Probab=93.55  E-value=0.061  Score=45.15  Aligned_cols=22  Identities=32%  Similarity=0.514  Sum_probs=19.3

Q ss_pred             EEEeeeCCCcHHHHHHHHhcCC
Q 038234          105 ISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       105 i~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      |+++|.+|+|||||+..+.+..
T Consensus         3 v~v~G~~~~GKTtli~~l~~~~   24 (164)
T smart00175        3 IILIGDSGVGKSSLLSRFTDGK   24 (164)
T ss_pred             EEEECCCCCCHHHHHHHHhcCC
Confidence            7899999999999999887553

Rab GTPases are implicated in vesicle trafficking.

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

Probab=93.54  E-value=0.18  Score=46.34  Aligned_cols=25  Identities=20%  Similarity=0.134  Sum_probs=21.2

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      -..++|.|-.|+|||+|+..+.++.
T Consensus        69 GQR~gIfgg~GvGKt~L~~~i~~~~   93 (276)
T cd01135          69 GQKIPIFSGSGLPHNELAAQIARQA   93 (276)
T ss_pred             CCEEEeecCCCCChhHHHHHHHHhh
Confidence            4578999999999999998777665

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

>TIGR00041 DTMP_kinase thymidylate kinase

Probab=93.54  E-value=0.058  Score=47.11  Aligned_cols=25  Identities=32%  Similarity=0.311  Sum_probs=21.2

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      ...|+|.|..|+||||+++.+.+..
T Consensus         3 g~~IvieG~~GsGKsT~~~~L~~~l   27 (195)
T TIGR00041         3 GMFIVIEGIDGAGKTTQANLLKKLL   27 (195)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHH
Confidence            3579999999999999999886543

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.

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

Probab=93.53  E-value=0.063  Score=47.60  Aligned_cols=25  Identities=32%  Similarity=0.360  Sum_probs=21.5

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          101 PIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      +..+++|+|..|.|||||++.++..
T Consensus        26 ~G~~~~l~G~nGsGKSTLl~~l~G~   50 (211)
T cd03225          26 KGEFVLIVGPNGSGKSTLLRLLNGL   50 (211)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhcC
Confidence            3568999999999999999988654

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.

>PF00154 RecA: recA bacterial DNA recombination protein; InterPro: IPR013765 The recA gene product is a multifunctional enzyme that plays a role in homologous recombination, DNA repair and induction of the SOS response []

Probab=93.53  E-value=0.13  Score=48.43  Aligned_cols=73  Identities=23%  Similarity=0.259  Sum_probs=43.9

Q ss_pred             CCCcEEEEEeeeCCCcHHHHHHHHhcCChH------------HHHHHHHHHhcCCCC-----CCCCHHHHHHHHHhhcc-
Q 038234           99 QKPIKMISIVGMGGIGKITLAQMAYNDKDF------------RVAKAIIAALGCETS-----NLGSLQSLVRCISESIE-  160 (406)
Q Consensus        99 ~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~------------~~~~~i~~~l~~~~~-----~~~~~~~~~~~l~~~l~-  160 (406)
                      -+..+++-|+|..|+||||||..+......            .+....+..++.+..     .++..++....+..+++ 
T Consensus        50 ~p~G~ivEi~G~~ssGKttLaL~~ia~~q~~g~~~a~ID~e~~ld~~~a~~lGvdl~rllv~~P~~~E~al~~~e~lirs  129 (322)
T PF00154_consen   50 LPRGRIVEIYGPESSGKTTLALHAIAEAQKQGGICAFIDAEHALDPEYAESLGVDLDRLLVVQPDTGEQALWIAEQLIRS  129 (322)
T ss_dssp             EETTSEEEEEESTTSSHHHHHHHHHHHHHHTT-EEEEEESSS---HHHHHHTT--GGGEEEEE-SSHHHHHHHHHHHHHT
T ss_pred             cccCceEEEeCCCCCchhhhHHHHHHhhhcccceeEEecCcccchhhHHHhcCccccceEEecCCcHHHHHHHHHHHhhc
Confidence            355779999999999999999776654322            455666666665432     23344555555555554 


Q ss_pred             CcceeEEeeCC
Q 038234          161 GKKYLVVLDDV  171 (406)
Q Consensus       161 ~kr~LlVlDdv  171 (406)
                      +..-++|+|-|
T Consensus       130 g~~~lVVvDSv  140 (322)
T PF00154_consen  130 GAVDLVVVDSV  140 (322)
T ss_dssp             TSESEEEEE-C
T ss_pred             ccccEEEEecC
Confidence            34458899987

In homologous recombination, the protein functions as a DNA-dependent ATPase, promoting synapsis, heteroduplex formation and strand exchange between homologous DNAs []. RecA also acts as a protease cofactor that promotes autodigestion of the lexA product and phage repressors. The proteolytic inactivation of the lexA repressor by an activated form of recA may cause a derepression of the 20 or so genes involved in the SOS response, which regulates DNA repair, induced mutagenesis, delayed cell division and prophage induction in response to DNA damage []. RecA is a protein of about 350 amino-acid residues. Its sequence is very well conserved [, , ] among eubacterial species. It is also found in the chloroplast of plants []. RecA-like proteins are found in archaea and diverse eukaryotic organisms, like fission yeast, mouse or human. In the filament visualised by X-ray crystallography, beta-strand 3, the loop C-terminal to beta-strand 2, and alpha-helix D of the core domain form one surface that packs against alpha-helix A and beta-strand 0 (the N-terminal domain) of an adjacent monomer during polymerisation []. The core ATP-binding site domain is well conserved, with 14 invariant residues. It contains the nucleotide binding loop between beta-strand 1 and alpha-helix C. The Escherichia coli sequence GPESSGKT matches the consensus sequence of amino acids (G/A)XXXXGK(T/S) for the Walker A box (also referred to as the P-loop) found in a number of nucleoside triphosphate (NTP)-binding proteins. Another nucleotide binding motif, the Walker B box is found at beta-strand 4 in the RecA structure. The Walker B box is characterised by four hydrophobic amino acids followed by an acidic residue (usually aspartate). Nucleotide specificity and additional ATP binding interactions are contributed by the amino acid residues at beta-strand 2 and the loop C-terminal to that strand, all of which are greater than 90% conserved among bacterial RecA proteins.; GO: 0003697 single-stranded DNA binding, 0005524 ATP binding, 0006281 DNA repair; PDB: 2IN0_A 1MO3_A 3IFJ_A 2IN8_A 2IMZ_B 1G18_A 1MO4_A 3IGD_A 2L8L_A 2IN9_A ....

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

Probab=93.52  E-value=0.057  Score=45.53  Aligned_cols=24  Identities=33%  Similarity=0.506  Sum_probs=20.7

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      .++++|+|..|+|||||...+...
T Consensus         2 ~~Il~ivG~k~SGKTTLie~lv~~   25 (161)
T COG1763           2 MKILGIVGYKNSGKTTLIEKLVRK   25 (161)
T ss_pred             CcEEEEEecCCCChhhHHHHHHHH
Confidence            469999999999999999887554

>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=93.51  E-value=0.061  Score=47.97  Aligned_cols=24  Identities=33%  Similarity=0.376  Sum_probs=21.2

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ..+++|+|..|.|||||++.++..
T Consensus        30 G~~~~l~G~nGsGKSTLl~~i~Gl   53 (218)
T cd03255          30 GEFVAIVGPSGSGKSTLLNILGGL   53 (218)
T ss_pred             CCEEEEEcCCCCCHHHHHHHHhCC
Confidence            558999999999999999988655

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.

>PRK13231 nitrogenase reductase-like protein; Reviewed

Probab=93.51  E-value=0.06  Score=49.62  Aligned_cols=23  Identities=43%  Similarity=0.523  Sum_probs=19.5

Q ss_pred             EEEEEeeeCCCcHHHHHHHHhcC
Q 038234          103 KMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       103 ~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ++|+|.|-||+||||++..+...
T Consensus         3 ~~iav~~KGGvGKTT~a~nLA~~   25 (264)
T PRK13231          3 KKIAIYGKGGIGKSTTVSNMAAA   25 (264)
T ss_pred             eEEEEECCCCCcHHHHHHHHhcc
Confidence            57888899999999998776654

---

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	406
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	9e-61
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	2e-54
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	6e-35
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	1e-05

>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 =  205 bits (524), Expect = 9e-61
 Identities = 56/417 (13%), Positives = 108/417 (25%), Gaps = 84/417 (20%)

Query: 11  SFFPTSCFRVKRVFLRHDIALKIKAINEKFDDIAKQKDLFNFNVNITKRIET--PGRVQS 68
                        F    +    K +     D        +   +++           + 
Sbjct: 58  KMILKKDNDSYVSFYNALLHEGYKDLAALLHDGIPVVSSSSGKDSVSGITSYVRTVLCEG 117

Query: 69  IFFIDESEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYND--- 125
                      R    N +  KL     +       ++I GM G GK  LA  A  D   
Sbjct: 118 GVPQRPVVFVTRKKLVNAIQQKLSKLKGE----PGWVTIHGMAGCGKSVLAAEAVRDHSL 173

Query: 126 --------------------KDFRVAKAIIAALGCETS-------NLGSLQSLVRCISES 158
                                     + +   L  + S       N+   +  +R I   
Sbjct: 174 LEGCFPGGVHWVSVGKQDKSGLLMKLQNLCTRLDQDESFSQRLPLNIEEAKDRLR-ILML 232

Query: 159 IEGKKYLVVLDDVWTDDYTKWEPFQRCSANGQCGNNILVTTHKKTVARMMESTNFIS--I 216
            +  + L++LDDVW     K                IL+TT  K+V   +    ++    
Sbjct: 233 RKHPRSLLILDDVWDSWVLKA---------FDSQCQILLTTRDKSVTDSVMGPKYVVPVE 283

Query: 217 KELSTQECWSLFKQESSAKPCLL-------LQKLLGVSCALKEL--EMSGK--------N 259
             L  ++   +     + K   L       +++  G    +  +   +            
Sbjct: 284 SSLGKEKGLEILSLFVNMKKADLPEQAHSIIKECKGSPLVVSLIGALLRDFPNRWEYYLK 343

Query: 260 SLDSELWQLQELEK-----DLFSLLLLNYYDLPYRIKQCFRYCFISPKDSCIWKEDLIKL 314
            L ++ ++            L   + ++   L   IK  +    I  KD  +  + L  L
Sbjct: 344 QLQNKQFKRIRKSSSYDYEALDEAMSISVEMLREDIKDYYTDLSILQKDVKVPTKVLCIL 403

Query: 315 WIAQSFIEAKENKEMEIIDEEYFDYLTARSFFQEFHKGSDDIITECKMHDIVHDFAQ 371
           W  +               E+       +S         +       +HD+  DF  
Sbjct: 404 WDME-----------TEEVEDILQEFVNKSLLF---CDRNGKSFRYYLHDLQVDFLT 446

>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 =  187 bits (477), Expect = 2e-54
 Identities = 66/431 (15%), Positives = 119/431 (27%), Gaps = 76/431 (17%)

Query: 24  FLRHDIALKIKAINEKFDDIAKQKDLFNFNVNITKRIETPGRVQSIF---FIDESEICGR 80
           F  ++    +    E + D A  +      V I  +       + +       +     R
Sbjct: 74  FFNYNNQSHLADFLEDYIDFAINEPDLLRPVVIAPQFSRQMLDRKLLLGNVPKQMTCYIR 133

Query: 81  DYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKD------------- 127
           +Y  + ++ KL             + + G  G GK  +A  A +  D             
Sbjct: 134 EYHVDRVIKKLDEMCDLDSF---FLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWL 190

Query: 128 ----------FRVAKAIIAALGCETSNLG--------SLQSLVRCISESIEGKKYLVVLD 169
                     F +   I+  L  E   L         S+       +  I+    L V D
Sbjct: 191 KDSGTAPKSTFDLFTDILLMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVFD 250

Query: 170 DVWTDDYTKWEPFQRCSANGQCGNNILVTTHKKTVARMMEST-NFISIKELSTQECWSLF 228
           DV  ++  +W    R           LVTT    ++     T  FI +  L   EC+   
Sbjct: 251 DVVQEETIRWAQELRLR--------CLVTTRDVEISNAASQTCEFIEVTSLEIDECYDFL 302

Query: 229 KQESSAKPCLLLQ------------------KLLGVSCALKELE-------MSGKNSLDS 263
           +      P    +                   +   SC  K  E             L  
Sbjct: 303 EAYGMPMPVGEKEEDVLNKTIELSSGNPATLMMFFKSCEPKTFEKMAQLNNKLESRGLVG 362

Query: 264 ELWQLQELEKDLFSLLLLNYYDLPYRIKQCFRYCFISPKDSCIWKEDLIKLWIAQSFIEA 323
                    K L   L      L    +    +  + P    I  +    +      I +
Sbjct: 363 VECITPYSYKSLAMALQRCVEVLSDEDRSALAFAVVMPPGVDIPVKLWSCVIPV--DICS 420

Query: 324 KENKEMEIIDEEYFDYLTARSFFQEFHKGSDDIITECKMHDIVHDFAQFLRKNQCLSIEV 383
            E ++++    +    L+ R        G    +   K+  I+H F + +   Q ++  +
Sbjct: 421 NEEEQLDDEVADRLKRLSKRGALL---SGKRMPVLTFKIDHIIHMFLKHVVDAQTIANGI 477

Query: 384 NSPNQSLTNIS 394
           +   Q L  I 
Sbjct: 478 SILEQRLLEIG 488

>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 =  136 bits (343), Expect = 6e-35
 Identities = 87/482 (18%), Positives = 156/482 (32%), Gaps = 119/482 (24%)

Query: 14  PTSCFRVKRVFLRHDIAL-KIKAINEKFDDIAKQKDLFNFNVNITKRIETPGRVQSIFFI 72
             +     R+F      L K + + +KF +   + + + F   +   I+T  R  S+   
Sbjct: 58  KDAVSGTLRLF---WTLLSKQEEMVQKFVEEVLRIN-YKF---LMSPIKTEQRQPSMMTR 110

Query: 73  DESEICGRDYKKNELLSKL----------LSDSSDQQKPIKMISIVGMGGIGKITLAQMA 122
              E   R Y  N++ +K           L  +  + +P K + I G+ G GK  +A   
Sbjct: 111 MYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDV 170

Query: 123 YNDK------DFRVAKAIIAALGCETSNLGSLQSLVRCISES------------------ 158
                     DF++    +       + L  LQ L+  I  +                  
Sbjct: 171 CLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSI 230

Query: 159 -------IEGKKY---LVVLDDVWTDDYTKWEPFQRCSANGQCGNNILVTTHKKTVARMM 208
                  ++ K Y   L+VL +V   +   W  F     N  C   IL+TT  K V   +
Sbjct: 231 QAELRRLLKSKPYENCLLVLLNVQ--NAKAWNAF-----NLSC--KILLTTRFKQVTDFL 281

Query: 209 --ESTNFISIKELSTQECWSLFKQESSAKPCLLLQKLLGVSCALKEL--EMSGKN----S 260
              +T  IS+   S     +L   E  +    LL K L      ++L  E+   N    S
Sbjct: 282 SAATTTHISLDHHS----MTLTPDEVKS----LLLKYLDCRP--QDLPREVLTTNPRRLS 331

Query: 261 LDSEL----------WQLQELEKDLFSLLLLNYYDL-PYRIKQCFRYCFISPKDSCIWKE 309
           + +E           W+    +K L +++  +   L P   ++ F    + P  + I   
Sbjct: 332 IIAESIRDGLATWDNWKHVNCDK-LTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTI 390

Query: 310 DLIKLWIAQSFIE--------------AKENKEMEI-IDEEYFDYLTARSFFQEFHK--- 351
            L  +W      +               K+ KE  I I   Y +           H+   
Sbjct: 391 LLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIV 450

Query: 352 GSDDIITECKMHDIVHD-----FAQFL---RKNQCLSIEVNSPNQSLTNISW--EKLQHS 401
              +I       D++       F   +    KN      +        +  +  +K++H 
Sbjct: 451 DHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKIRHD 510

Query: 402 TL 403
           + 
Sbjct: 511 ST 512

>3sfz_A APAF-1, apoptotic peptidase activating factor 1; apoptosis, caspase activation, cytochrome C, procaspase-9, A nucleotide, cytosol; HET: ADP; 3.00A {Mus musculus} PDB: 3shf_A* 3iyt_A* 3iza_A* Length = 1249

 Score = 46.7 bits (111), Expect = 1e-05
 Identities = 54/337 (16%), Positives = 100/337 (29%), Gaps = 76/337 (22%)

Query: 86  ELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDF----------------R 129
           +L+  +             ++I GM G GK  LA  A  D                   +
Sbjct: 131 KLVHAIQQKLWKLNGEPGWVTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWVSIGKQ 190

Query: 130 VAKAIIAALGCETSNLGSLQSLVRCISESIEGKKY-------------LVVLDDVWTDDY 176
               ++  L      L   +S  + +  +IE  K              L++LDDVW    
Sbjct: 191 DKSGLLMKLQNLCMRLDQEESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDVWDPWV 250

Query: 177 TKWEPFQRCSANGQCGNNILVTT-HKKTVARMMESTNFISIKE-LSTQECWSLF------ 228
            K    Q           IL+TT  K     +M   + + ++  L  ++   +       
Sbjct: 251 LKAFDNQCQ---------ILLTTRDKSVTDSVMGPKHVVPVESGLGREKGLEILSLFVNM 301

Query: 229 -KQESSAKPCLLLQKLLGVSCALK---------------ELEMSGKNSLDSELWQLQELE 272
            K++  A+   ++++  G    +                 L                   
Sbjct: 302 KKEDLPAEAHSIIKECKGSPLVVSLIGALLRDFPNRWAYYLRQLQNKQFKRIRKSSSYDY 361

Query: 273 KDLFSLLLLNYYDLPYRIKQCFRYCFISPKDSCIWKEDLIKLWIAQSFIEAKENKEMEII 332
           + L   + ++   L   IK  +    I  KD  +  + L  LW      + +  +  +I+
Sbjct: 362 EALDEAMSISVEMLREDIKDYYTDLSILQKDVKVPTKVLCVLW------DLETEEVEDIL 415

Query: 333 DEEYFDYLTARSFFQEFHKGSDDIITECKMHDIVHDF 369
            E        +S       G         +HD+  DF
Sbjct: 416 QE-----FVNKSLLFCNRNGKSFCYY---LHDLQVDF 444

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	406
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	100.0
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	100.0
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	100.0
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	100.0
2qen_A	350	Walker-type ATPase; unknown function; HET: ADP; 2.	99.56
1w5s_A	412	Origin recognition complex subunit 2 ORC2; replica	99.54
2fna_A	357	Conserved hypothetical protein; structural genomic	99.48
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	99.29
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	99.24
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	99.23
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	99.02
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	99.01
2chg_A	226	Replication factor C small subunit; DNA-binding pr	98.95
1sxj_B	323	Activator 1 37 kDa subunit; clamp loader, processi	98.88
1hqc_A	324	RUVB; extended AAA-ATPase domain, complex with nuc	98.74
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	98.69
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	98.6
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	98.59
1jr3_A	373	DNA polymerase III subunit gamma; processivity, pr	98.53
2chq_A	319	Replication factor C small subunit; DNA-binding pr	98.53
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	98.3
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	98.24
3pvs_A	447	Replication-associated recombination protein A; ma	98.24
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	98.22
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	98.21
3bos_A	242	Putative DNA replication factor; P-loop containing	98.21
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	98.17
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	98.16
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	98.13
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	98.12
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	98.1
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	98.09
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	98.06
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	98.06
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	98.0
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	97.98
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	97.95
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	97.93
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	97.9
3pxg_A	468	Negative regulator of genetic competence CLPC/MEC;	97.89
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	97.88
3co5_A	143	Putative two-component system transcriptional RES	97.86
2gno_A	305	DNA polymerase III, gamma subunit-related protein;	97.84
1a5t_A	334	Delta prime, HOLB; zinc finger, DNA replication; 2	97.82
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	97.81
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	97.81
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	97.78
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	97.76
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	97.75
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	97.67
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	97.63
2bjv_A	265	PSP operon transcriptional activator; AAA, transcr	97.62
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	97.59
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	97.58
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	97.54
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	97.52
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	97.51
1ojl_A	304	Transcriptional regulatory protein ZRAR; response	97.49
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	97.47
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	97.43
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	97.27
4b4t_J	405	26S protease regulatory subunit 8 homolog; hydrola	97.2
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	97.17
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	97.13
2qgz_A	308	Helicase loader, putative primosome component; str	97.09
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	97.01
3m6a_A	543	ATP-dependent protease LA 1; alpha, beta, ATP-bind	96.97
1um8_A	376	ATP-dependent CLP protease ATP-binding subunit CL;	96.9
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	96.83
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	96.8
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	96.78
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	96.78
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	96.77
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	96.76
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	96.7
2c9o_A	456	RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-	96.7
2vhj_A	331	Ntpase P4, P4; non- hydrolysable ATP analogue, hyd	96.69
4b4t_H	467	26S protease regulatory subunit 7 homolog; hydrola	96.65
4b4t_I	437	26S protease regulatory subunit 4 homolog; hydrola	96.39
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	96.31
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	96.28
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	96.14
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	96.1
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	96.09
2cvh_A	220	DNA repair and recombination protein RADB; filamen	96.06
2r44_A	331	Uncharacterized protein; putative ATPase, structur	96.04
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	96.03
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	96.0
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	95.97
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	95.96
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	95.95
2b8t_A	223	Thymidine kinase; deoxyribonucleoside kinase, zinc	95.89
3hws_A	363	ATP-dependent CLP protease ATP-binding subunit CL;	95.88
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	95.88
3fwy_A	314	Light-independent protochlorophyllide reductase I	95.83
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	95.83
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	95.82
3tqc_A	321	Pantothenate kinase; biosynthesis of cofactors, pr	95.79
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	95.79
3nbx_X	500	ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structu	95.78
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	95.77
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	95.74
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	95.74
2ga8_A	359	Hypothetical 39.9 kDa protein; YFR007W, YFH7, unkn	95.7
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	95.69
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	95.68
1g5t_A	196	COB(I)alamin adenosyltransferase; P-loop protein,	95.67
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	95.66
1uf9_A	203	TT1252 protein; P-loop, nucleotide binding domain,	95.63
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	95.62
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	95.6
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	95.59
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	95.55
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	95.54
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	95.54
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	95.53
1uj2_A	252	Uridine-cytidine kinase 2; alpha/beta mononucleoti	95.52
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	95.52
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	95.51
3sr0_A	206	Adenylate kinase; phosphoryl transfer analogue, AL	95.5
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	95.49
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	95.48
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	95.48
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	95.48
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	95.46
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	95.45
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	95.45
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	95.44
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	95.43
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	95.41
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	95.39
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	95.38
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	95.38
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	95.36
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	95.34
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	95.33
1g8p_A	350	Magnesium-chelatase 38 kDa subunit; parallel beta	95.29
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	95.29
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	95.29
1via_A	175	Shikimate kinase; structural genomics, transferase	95.28
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	95.28
3hr8_A	356	Protein RECA; alpha and beta proteins (A/B, A+B),	95.28
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	95.25
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	95.22
1jjv_A	206	Dephospho-COA kinase; P-loop nucleotide-binding fo	95.22
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	95.22
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	95.21
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	95.21
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	95.2
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	95.18
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	95.16
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	95.16
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	95.15
1sq5_A	308	Pantothenate kinase; P-loop, transferase; HET: PAU	95.14
3tui_C	366	Methionine import ATP-binding protein METN; ABC-tr	95.11
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	95.11
2hf9_A	226	Probable hydrogenase nickel incorporation protein	95.08
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	95.08
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	95.08
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	95.07
2vli_A	183	Antibiotic resistance protein; transferase, tunica	95.06
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	95.05
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	95.03
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	95.0
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	94.97
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	94.97
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	94.97
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	94.96
2grj_A	192	Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosp	94.96
1tue_A	212	Replication protein E1; helicase, replication, E1E	94.96
1gtv_A	214	TMK, thymidylate kinase; transferase, transferase	94.93
3umf_A	217	Adenylate kinase; rossmann fold, transferase; 2.05	94.89
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	94.88
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	94.88
2f6r_A	281	COA synthase, bifunctional coenzyme A synthase; 18	94.88
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	94.84
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	94.83
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	94.83
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	94.79
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	94.77
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	94.73
1m7g_A	211	Adenylylsulfate kinase; APS kinase, transferase, s	94.72
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	94.72
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	94.7
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	94.7
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	94.69
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	94.65
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	94.62
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	94.6
2z0h_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	94.58
1vht_A	218	Dephospho-COA kinase; structural genomics, transfe	94.56
3r20_A	233	Cytidylate kinase; structural genomics, seattle st	94.56
2ged_A	193	SR-beta, signal recognition particle receptor beta	94.53
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	94.52
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	94.52
4a74_A	231	DNA repair and recombination protein RADA; hydrola	94.46
1xp8_A	366	RECA protein, recombinase A; recombination, radior	94.45
3end_A	307	Light-independent protochlorophyllide reductase ir	94.35
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	94.35
1zu4_A	320	FTSY; GTPase, signal recognition particle, SRP, re	94.35
1jr3_D	343	DNA polymerase III, delta subunit; processivity, p	94.32
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	94.3
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	94.29
1sky_E	473	F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alp	94.28
3ake_A	208	Cytidylate kinase; CMP kinase, CMP complex, open c	94.23
2xxa_A	433	Signal recognition particle protein; protein trans	94.22
3a8t_A	339	Adenylate isopentenyltransferase; rossmann fold pr	94.19
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	94.18
2f1r_A	171	Molybdopterin-guanine dinucleotide biosynthesis pr	94.13
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	94.12
3lnc_A	231	Guanylate kinase, GMP kinase; ALS collaborative cr	94.1
3io5_A	333	Recombination and repair protein; storage dimer, i	94.09
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	94.09
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	94.03
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	94.02
1e4v_A	214	Adenylate kinase; transferase(phosphotransferase);	94.0
3d3q_A	340	TRNA delta(2)-isopentenylpyrophosphate transferase	93.94
2i3b_A	189	HCR-ntpase, human cancer-related ntpase; AAA, ross	93.94
3b5x_A	582	Lipid A export ATP-binding/permease protein MSBA;	93.92
3zvl_A	416	Bifunctional polynucleotide phosphatase/kinase; hy	93.91
2xb4_A	223	Adenylate kinase; ATP-binding, nucleotide-binding,	93.88
1ltq_A	301	Polynucleotide kinase; phosphatase, alpha/beta, P-	93.88
3tif_A	235	Uncharacterized ABC transporter ATP-binding prote;	93.87
2onk_A	240	Molybdate/tungstate ABC transporter, ATP-binding p	93.85
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	93.85
1g41_A	444	Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dep	93.84
1np6_A	174	Molybdopterin-guanine dinucleotide biosynthesis pr	93.83
3exa_A	322	TRNA delta(2)-isopentenylpyrophosphate transferase	93.8
2pcj_A	224	ABC transporter, lipoprotein-releasing system ATP-	93.79
2dhr_A	499	FTSH; AAA+ protein, hexameric Zn metalloprotease,	93.79
2og2_A	359	Putative signal recognition particle receptor; nuc	93.76
1a7j_A	290	Phosphoribulokinase; transferase, calvin cycle; 2.	93.73
3k1j_A	604	LON protease, ATP-dependent protease LON; ATP-bind	93.72
3crm_A	323	TRNA delta(2)-isopentenylpyrophosphate transferase	93.71
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	93.67
2wji_A	165	Ferrous iron transport protein B homolog; membrane	93.67
2cbz_A	237	Multidrug resistance-associated protein 1; ABC pro	93.67
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	93.66
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	93.65
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	93.63
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	93.62
3e1s_A	574	Exodeoxyribonuclease V, subunit RECD; alpha and be	93.59
2vp4_A	230	Deoxynucleoside kinase; ATP-binding, DNA synthesis	93.59
1q3t_A	236	Cytidylate kinase; nucleotide monophosphate kinase	93.58
1mv5_A	243	LMRA, multidrug resistance ABC transporter ATP-bin	93.58
2qmh_A	205	HPR kinase/phosphorylase; V267F mutation, ATP-bind	93.58
3foz_A	316	TRNA delta(2)-isopentenylpyrophosphate transferas;	93.56
3gmt_A	230	Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucle	93.56
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	93.56
1b0u_A	262	Histidine permease; ABC transporter, transport pro	93.54
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	93.49
1cp2_A	269	CP2, nitrogenase iron protein; oxidoreductase; 1.9	93.4
4a1f_A	338	DNAB helicase, replicative DNA helicase; hydrolase	93.37
2olj_A	263	Amino acid ABC transporter; ABC domain, ATPase, hy	93.35
3b85_A	208	Phosphate starvation-inducible protein; PHOH2, ATP	93.35
4eaq_A	229	DTMP kinase, thymidylate kinase; structural genomi	93.32
3gfo_A	275	Cobalt import ATP-binding protein CBIO 1; structur	93.32
2v3c_C	432	SRP54, signal recognition 54 kDa protein; nucleoti	93.31
2afh_E	289	Nitrogenase iron protein 1; nitrogen fixation, iro	93.28
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	93.27
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	93.25
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	93.24
2zu0_C	267	Probable ATP-dependent transporter SUFC; iron-sulf	93.22
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	93.21
4g1u_C	266	Hemin import ATP-binding protein HMUV; membrane tr	93.2
2ghi_A	260	Transport protein; multidrug resistance protein, M	93.2
1vpl_A	256	ABC transporter, ATP-binding protein; TM0544, stru	93.2
1ls1_A	295	Signal recognition particle protein; FFH, SRP54, S	93.19
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	93.18
1ji0_A	240	ABC transporter; ATP binding protein, structural g	93.15
2ocp_A	241	DGK, deoxyguanosine kinase; protein-nucleotide com	93.15
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	93.15
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	93.15
2ixe_A	271	Antigen peptide transporter 1; ABC ATPase, hydrola	93.14
2d2e_A	250	SUFC protein; ABC-ATPase, SUF protein, 310-helix,	93.13
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	93.13
2eyu_A	261	Twitching motility protein PILT; pilus retraction	93.12
1g6h_A	257	High-affinity branched-chain amino acid transport	93.12
2pze_A	229	Cystic fibrosis transmembrane conductance regulat;	93.1
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	93.09
2ff7_A	247	Alpha-hemolysin translocation ATP-binding protein	93.04
1u0j_A	267	DNA replication protein; AAA+ protein, P-loop atpa	93.02
1sgw_A	214	Putative ABC transporter; structural genomics, P p	93.02
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	92.98
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	92.97
2yz2_A	266	Putative ABC transporter ATP-binding protein TM_0;	92.96
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	92.9
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	92.89
2aka_B	299	Dynamin-1; fusion protein, GTPase domain, myosin,	92.84
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	92.8
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	92.8
3eph_A	409	TRNA isopentenyltransferase; transferase, alternat	92.79
2qi9_C	249	Vitamin B12 import ATP-binding protein BTUD; inner	92.78
3vkw_A	446	Replicase large subunit; alpha/beta domain, helica	92.75
2nq2_C	253	Hypothetical ABC transporter ATP-binding protein H	92.74
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	92.73
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	92.67
2ihy_A	279	ABC transporter, ATP-binding protein; ATPase, ABC	92.67
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	92.65
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	92.64
2cxx_A	190	Probable GTP-binding protein ENGB; structural geno	92.63
1p5z_B	263	DCK, deoxycytidine kinase; nucleoside kinase, P-lo	92.6
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	92.56
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	92.55
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	92.54
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	92.52
3sop_A	270	Neuronal-specific septin-3; hydrolase; HET: GDP; 2	92.52
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	92.5
1nrj_B	218	SR-beta, signal recognition particle receptor beta	92.5
1nij_A	318	Hypothetical protein YJIA; structural genomics, P-	92.48
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	92.46
3ch4_B	202	Pmkase, phosphomevalonate kinase; parallel beta-sh	92.46
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	92.44
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	92.44
2p67_A	341	LAO/AO transport system kinase; ARGK, structural G	92.43
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	92.43
3nh6_A	306	ATP-binding cassette SUB-family B member 6, mitoc;	92.39
3qf4_A	587	ABC transporter, ATP-binding protein; multidrug tr	92.39
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	92.37
3kta_A	182	Chromosome segregation protein SMC; structural mai	92.34
3f9v_A	595	Minichromosome maintenance protein MCM; replicativ	92.34
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	92.33
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	92.31
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	92.3
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	92.29
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	92.28
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	92.27
4bas_A	199	ADP-ribosylation factor, putative (small GTPase, p	92.27
2bbs_A	290	Cystic fibrosis transmembrane conductance regulato	92.23
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	92.2
3llu_A	196	RAS-related GTP-binding protein C; structural geno	92.2
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	92.18
2axn_A	520	6-phosphofructo-2-kinase/fructose-2,6- biphosphata	92.18
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	92.16
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	92.15
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	92.13
2pjz_A	263	Hypothetical protein ST1066; ATP binding protein,	92.12
1pui_A	210	ENGB, probable GTP-binding protein ENGB; structura	92.08
4f4c_A	1321	Multidrug resistance protein PGP-1; ABC transporte	92.06
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	92.03
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	92.02
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	92.0
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	92.0
2qu8_A	228	Putative nucleolar GTP-binding protein 1; GTPase,	91.99
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	91.98
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	91.98
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	91.97
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	91.97
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	91.82
1g8f_A	511	Sulfate adenylyltransferase; alpha-beta protein, b	91.8
2r8r_A	228	Sensor protein; KDPD, PFAM02702, MCSG, structural	91.79
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	91.79
3fvq_A	359	Fe(3+) IONS import ATP-binding protein FBPC; nucle	91.78
1j8m_F	297	SRP54, signal recognition 54 kDa protein; signalin	91.77
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	91.74
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	91.69
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	91.69
2h92_A	219	Cytidylate kinase; rossmann fold, transferase; HET	91.66
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	91.66
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	91.66
2zts_A	251	Putative uncharacterized protein PH0186; KAIC like	91.63
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	91.62
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	91.62
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	91.59
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	91.56
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	91.55
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	91.54
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	91.54
2zr9_A	349	Protein RECA, recombinase A; recombination, RECA m	91.53
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	91.53
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	91.52
3def_A	262	T7I23.11 protein; chloroplast, TOC33, GTPase, hydr	91.5
1lw7_A	365	Transcriptional regulator NADR; NMN, NMN adenylyl	91.5
2ck3_D	482	ATP synthase subunit beta\, mitochondrial; hydrola	91.49
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	91.46
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	91.45
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	91.44
2qnr_A	301	Septin-2, protein NEDD5; structural genomics conso	91.43
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	91.43
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	91.43
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	91.41
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	91.39
3kjh_A	254	CO dehydrogenase/acetyl-COA synthase complex, acce	91.39
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	91.38
2orw_A	184	Thymidine kinase; TMTK, TP4A, transferase; HET: 4T	91.37
2ffh_A	425	Protein (FFH); SRP54, signal recognition particle,	91.37
3lxx_A	239	GTPase IMAP family member 4; structural genomics c	91.36
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	91.35
4f4c_A	1321	Multidrug resistance protein PGP-1; ABC transporte	91.32
4dzz_A	206	Plasmid partitioning protein PARF; deviant walker	91.32
1bif_A	469	6-phosphofructo-2-kinase/ fructose-2,6-bisphospha;	91.3
1h65_A	270	Chloroplast outer envelope protein OEP34; GTPase,	91.3
1m8p_A	573	Sulfate adenylyltransferase; rossmann fold, phosph	91.3
3tqf_A	181	HPR(Ser) kinase; transferase, hydrolase; 2.80A {Co	91.29
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	91.28
3k53_A	271	Ferrous iron transport protein B; GTPase fold, hel	91.28
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	91.25
3ld9_A	223	DTMP kinase, thymidylate kinase; ssgcid, NIH, niai	91.25
3iev_A	308	GTP-binding protein ERA; ERA, GTPase, KH domain, a	91.25
3fkq_A	373	NTRC-like two-domain protein; RER070207001320, str	91.2
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	91.2
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	91.19
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	91.19
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	91.16
3ea0_A	245	ATPase, para family; alpha-beta-alpha sandwich, st	91.16
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	91.16
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	91.14
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	91.14
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	91.12
2yyz_A	359	Sugar ABC transporter, ATP-binding protein; sugar	91.11
1z47_A	355	CYSA, putative ABC-transporter ATP-binding protein	91.1
3fdi_A	201	Uncharacterized protein; cytidylate kinase like pr	91.1
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	91.1
1tq4_A	413	IIGP1, interferon-inducible GTPase; interferon gam	91.09
2it1_A	362	362AA long hypothetical maltose/maltodextrin trans	91.08
2ewv_A	372	Twitching motility protein PILT; pilus retraction	91.08
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	91.07
3rlf_A	381	Maltose/maltodextrin import ATP-binding protein M;	91.07
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	91.05
3bh0_A	315	DNAB-like replicative helicase; ATPase, replicatio	91.02
4dkx_A	216	RAS-related protein RAB-6A; GTP binding fold, memb	91.0
2fh5_B	214	SR-beta, signal recognition particle receptor beta	90.99
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	90.97
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	90.96
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	90.96
1p9r_A	418	General secretion pathway protein E; bacterial typ	90.95
3cr8_A	552	Sulfate adenylyltranferase, adenylylsulfate kinase	90.92
3upu_A	459	ATP-dependent DNA helicase DDA; RECA-like domain,	90.92
1ega_A	301	Protein (GTP-binding protein ERA); GTPase, RNA-bin	90.91
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	90.89
1v43_A	372	Sugar-binding transport ATP-binding protein; ATPas	90.86
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	90.86
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	90.82
1v5w_A	343	DMC1, meiotic recombination protein DMC1/LIM15 hom	90.81
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	90.8
1jwy_B	315	Dynamin A GTPase domain; dynamin, GTPase, GDP, myo	90.78
1u94_A	356	RECA protein, recombinase A; homologous recombinat	90.75
4edh_A	213	DTMP kinase, thymidylate kinase; structural genomi	90.74
3lda_A	400	DNA repair protein RAD51; DNA binding protein, ATP	90.74
3io3_A	348	DEHA2D07832P; chaperone, membrane traffic, ATPase;	90.72
3d31_A	348	Sulfate/molybdate ABC transporter, ATP-binding pro	90.69
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	90.68
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	90.67
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	90.66
1g29_1	372	MALK, maltose transport protein MALK; ATPase, acti	90.64
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	90.62
2gza_A	361	Type IV secretion system protein VIRB11; ATPase, h	90.55
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	90.55
2xtp_A	260	GTPase IMAP family member 2; immune system, G prot	90.48
2h57_A	190	ADP-ribosylation factor-like protein 6; GTP, GTPas	90.46
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	90.45
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	90.44
3gd7_A	390	Fusion complex of cystic fibrosis transmembrane co	90.42
2i1q_A	322	DNA repair and recombination protein RADA; ATPase,	90.42
1x6v_B	630	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	90.33
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	90.29
2obl_A	347	ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O	90.28
1oxx_K	353	GLCV, glucose, ABC transporter, ATP binding protei	90.26
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	90.26
4dhe_A	223	Probable GTP-binding protein ENGB; melioidosis, RA	90.25
2z43_A	324	DNA repair and recombination protein RADA; archaea	90.2
3lv8_A	236	DTMP kinase, thymidylate kinase; structural genomi	90.14
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	90.13
3bfv_A	271	CAPA1, CAPB2, membrane protein CAPA1, protein tyro	89.98
3cwq_A	209	Para family chromosome partitioning protein; alpha	89.96
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	89.93
3hdt_A	223	Putative kinase; structura genomics, PSI-2, protei	89.9
3g5u_A	1284	MCG1178, multidrug resistance protein 1A; P-glycop	89.85
2x77_A	189	ADP-ribosylation factor; GTP-binding protein, smal	89.78
3iqw_A	334	Tail-anchored protein targeting factor GET3; ATPas	89.78
3v9p_A	227	DTMP kinase, thymidylate kinase; ssgcid, STRU geno	89.69
2j9r_A	214	Thymidine kinase; TK1, DNK, lasso, transferase, AT	89.67
1c9k_A	180	COBU, adenosylcobinamide kinase; alpha/beta struct	89.66
2gks_A	546	Bifunctional SAT/APS kinase; transferase, sulfuryl	89.5
3tmk_A	216	Thymidylate kinase; phosphotransferase; HET: T5A;	89.48
2oze_A	298	ORF delta'; para, walker type atpases, DNA segrega	89.43
2pt7_A	330	CAG-ALFA; ATPase, protein-protein complex, type IV	89.39
2qag_B	427	Septin-6, protein NEDD5; cell cycle, cell division	89.34
3b1v_A	272	Ferrous iron uptake transporter protein B; G prote	89.29
2r6a_A	454	DNAB helicase, replicative helicase; replication,	89.26
1wf3_A	301	GTP-binding protein; GTPase, riken structural geno	89.25
2fz4_A	237	DNA repair protein RAD25; RECA-like domain, DNA da	89.2
3lxw_A	247	GTPase IMAP family member 1; immunity, structural	89.17
3cpj_B	223	GTP-binding protein YPT31/YPT8; RAB GTPase, prenyl	89.17
3ug7_A	349	Arsenical pump-driving ATPase; tail-anchored, memb	89.15
2qag_C	418	Septin-7; cell cycle, cell division, GTP-binding,	89.15
1byi_A	224	Dethiobiotin synthase; biotin synthesis, cyclo-lig	89.11
3ez2_A	398	Plasmid partition protein A; type IA, DNA binding,	89.11
3iby_A	256	Ferrous iron transport protein B; G protein, G dom	89.08
1f2t_A	149	RAD50 ABC-ATPase; DNA double-strand break repair,	89.01
1fx0_B	498	ATP synthase beta chain; latent ATPase, thermal st	89.01
2qtf_A	364	Protein HFLX, GTP-binding protein; beta-alpha-barr	89.0
1dek_A	241	Deoxynucleoside monophosphate kinase; transferase,	88.96
4tmk_A	213	Protein (thymidylate kinase); ATP:DTMP phosphotran	88.9
3cio_A	299	ETK, tyrosine-protein kinase ETK; WZC, escherichia	88.84
3a1s_A	258	Iron(II) transport protein B; FEOB, iron transport	88.82
3t5d_A	274	Septin-7; GTP-binding protein, cytoskeleton, signa	88.81
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	88.79
2dpy_A	438	FLII, flagellum-specific ATP synthase; beta barrel	88.74
2npi_A	460	Protein CLP1; CLP1-PCF11 complex, ATP binding, ter	88.72

>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=1.9e-45  Score=373.33  Aligned_cols=279  Identities=20%  Similarity=0.297  Sum_probs=219.2

Q ss_pred             ecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhc--CCh---------------------HHHHHHH
Q 038234           78 CGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYN--DKD---------------------FRVAKAI  134 (406)
Q Consensus        78 vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~--~~~---------------------~~~~~~i  134 (406)
                      |||+.++++|.++|....   +...++|+|+||||+||||||+++|+  +..                     ..++..+
T Consensus       131 ~GR~~~~~~l~~~L~~~~---~~~~~vv~I~G~gGvGKTtLA~~v~~~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~~~i  207 (549)
T 2a5y_B          131 YIREYHVDRVIKKLDEMC---DLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGTAPKSTFDLFTDI  207 (549)
T ss_dssp             CCCHHHHHHHHHHHHHHT---TSSSEEEEEECSTTSSHHHHHHHHHHHCSSTBTTTBSEEEEEECCCCSTTHHHHHHHHH
T ss_pred             CCchHHHHHHHHHHhccc---CCCceEEEEEcCCCCCHHHHHHHHHHhhhHHHhccCCcEEEEEECCCCCCCHHHHHHHH
Confidence            599999999999997542   34589999999999999999999996  111                     1567788


Q ss_pred             HHHhcCCCC-------CCCCHHHHHHHHHhhccCc-ceeEEeeCCCCcCccCcchhhhccCCCCCCcEEEEecCChHHHH
Q 038234          135 IAALGCETS-------NLGSLQSLVRCISESIEGK-KYLVVLDDVWTDDYTKWEPFQRCSANGQCGNNILVTTHKKTVAR  206 (406)
Q Consensus       135 ~~~l~~~~~-------~~~~~~~~~~~l~~~l~~k-r~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTtR~~~v~~  206 (406)
                      +.+++....       ...+.+.+...+++.|.++ ||||||||||+.+...|..        .+||+||||||++.++.
T Consensus       208 l~~l~~~~~~~~~~~~~~~~~~~l~~~l~~~L~~~kr~LlVLDdv~~~~~~~~~~--------~~gs~ilvTTR~~~v~~  279 (549)
T 2a5y_B          208 LLMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVVQEETIRWAQ--------ELRLRCLVTTRDVEISN  279 (549)
T ss_dssp             HHHHTTTSCCTTCCCCTTCCHHHHHHHHHHHHTTSTTEEEEEEEECCHHHHHHHH--------HTTCEEEEEESBGGGGG
T ss_pred             HHHHhcCcccccccccccccHHHHHHHHHHHHcCCCcEEEEEECCCCchhhcccc--------cCCCEEEEEcCCHHHHH
Confidence            888875421       1234567788999999996 9999999999854222221        16999999999999998


Q ss_pred             Hhc-cCCccccCCCChHHHHHhhhhhc---------------cccch---hHHHHHHhhhhcchhhHHhhhhhccchhhh
Q 038234          207 MME-STNFISIKELSTQECWSLFKQES---------------SAKPC---LLLQKLLGVSCALKELEMSGKNSLDSELWQ  267 (406)
Q Consensus       207 ~~~-~~~~~~l~~L~~~~a~~Lf~~~~---------------i~~~c---PLai~~~g~~L~~~~~~~~w~~~~~~~~~~  267 (406)
                      .++ ...+|+|++|+.++||+||.+.+               |+++|   |||++++|+.|+.+.  ..|...+....+.
T Consensus       280 ~~~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~I~~~c~GlPLAl~~~g~~l~~~~--w~~~~~l~~~l~~  357 (549)
T 2a5y_B          280 AASQTCEFIEVTSLEIDECYDFLEAYGMPMPVGEKEEDVLNKTIELSSGNPATLMMFFKSCEPKT--FEKMAQLNNKLES  357 (549)
T ss_dssp             GCCSCEEEEECCCCCHHHHHHHHHHTSCCCC--CHHHHHHHHHHHHHTTCHHHHHHHHTTCCSSS--HHHHHHHHHHHHH
T ss_pred             HcCCCCeEEECCCCCHHHHHHHHHHHhcCCCCchhHHHHHHHHHHHhCCChHHHHHHHHHhccch--HHHHHHhHHHhhc
Confidence            876 34679999999999999998875               66677   999999999997762  2333333332222


Q ss_pred             hhhhhhhHHHHHHhccccCChhhhhHHh-----------hhcccCCCCccCHHHHHHHHHHC--CCccccc-CCCHHHHH
Q 038234          268 LQELEKDLFSLLLLNYYDLPYRIKQCFR-----------YCFISPKDSCIWKEDLIKLWIAQ--SFIEAKE-NKEMEIID  333 (406)
Q Consensus       268 ~~~~~~~~~~~l~~sy~~L~~~~k~cfl-----------~la~Fp~~~~i~~~~Li~~W~ae--g~i~~~~-~~~~e~~~  333 (406)
                      .  ...++..+|.+||++||+++|.||+           |||+||+++.|+    +.+|+|+  ||+.... +.+.++.+
T Consensus       358 ~--~~~~i~~~l~~Sy~~L~~~lk~~f~~Ls~~er~l~~~ls~fp~~~~i~----i~~w~a~~~G~i~~~~~~~~~~~~~  431 (549)
T 2a5y_B          358 R--GLVGVECITPYSYKSLAMALQRCVEVLSDEDRSALAFAVVMPPGVDIP----VKLWSCVIPVDICSNEEEQLDDEVA  431 (549)
T ss_dssp             H--CSSTTCCCSSSSSSSHHHHHHHHHHTSCHHHHHHTTGGGSSCTTCCEE----HHHHHHHSCC-------CCCTHHHH
T ss_pred             c--cHHHHHHHHhcccccccHHHHHHHhccchhhhhHhhheeeeCCCCeee----eeeeeeeccceeccCCCCCCHHHHH
Confidence            1  3457889999999999999999999           999999999998    8999999  9998765 66788888


Q ss_pred             HHHHHHHHhcCCcceeecCCCCcccEEEECHHHHHHHHHhhhcCeE
Q 038234          334 EEYFDYLTARSFFQEFHKGSDDIITECKMHDIVHDFAQFLRKNQCL  379 (406)
Q Consensus       334 ~~~l~~L~~~sll~~~~~~~~~~~~~~~mHdlv~~~~~~~~~~e~~  379 (406)
                      + ||++|+++||+++...+   ...+|+|||+||+||++++.++++
T Consensus       432 ~-~l~~L~~rsLl~~~~~~---~~~~~~mHdlv~~~a~~~~~~~~~  473 (549)
T 2a5y_B          432 D-RLKRLSKRGALLSGKRM---PVLTFKIDHIIHMFLKHVVDAQTI  473 (549)
T ss_dssp             H-HHHHTTTBSSCSEEECS---SSCEEECCHHHHHHHHTTSCTHHH
T ss_pred             H-HHHHHHHcCCeeEecCC---CceEEEeChHHHHHHHHHHHHHHH
Confidence            7 99999999999987653   345799999999999999888765

>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=100.00  E-value=1.1e-37  Score=344.80  Aligned_cols=277  Identities=19%  Similarity=0.148  Sum_probs=220.0

Q ss_pred             cCCCceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChH-----------------------
Q 038234           72 IDESEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDF-----------------------  128 (406)
Q Consensus        72 ~~~~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~-----------------------  128 (406)
                      ..++.||||++++++|.++|...    ++..++|+|+||||+||||||+++|++...                       
T Consensus       121 ~~~~~~vgR~~~~~~l~~~l~~~----~~~~~~v~i~G~gG~GKTtLa~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~  196 (1249)
T 3sfz_A          121 QRPVIFVTRKKLVHAIQQKLWKL----NGEPGWVTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWVSIGKQDKSGLL  196 (1249)
T ss_dssp             CCCSSCCCCHHHHHHHHHHHHTT----TTSCEEEEEECSTTSSHHHHHHHHTCCHHHHTTTSTTCEEEEECCSCCHHHHH
T ss_pred             CCCceeccHHHHHHHHHHHHhhc----cCCCCEEEEEeCCCCCHHHHHHHHhcChhHHHhhCCCeEEEEEECCcCchHHH
Confidence            44567999999999999999754    356899999999999999999999987422                       


Q ss_pred             HHHHHHHHHhcCCC----CCCCCHHHHHHHHHhhccCc--ceeEEeeCCCCcCccCcchhhhccCCCCCCcEEEEecCCh
Q 038234          129 RVAKAIIAALGCET----SNLGSLQSLVRCISESIEGK--KYLVVLDDVWTDDYTKWEPFQRCSANGQCGNNILVTTHKK  202 (406)
Q Consensus       129 ~~~~~i~~~l~~~~----~~~~~~~~~~~~l~~~l~~k--r~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTtR~~  202 (406)
                      ..+..++..+....    ....+.+.+...++..+.++  ||||||||||+..  .|..       .++||+||||||++
T Consensus       197 ~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~LlvlDd~~~~~--~~~~-------~~~~~~ilvTtR~~  267 (1249)
T 3sfz_A          197 MKLQNLCMRLDQEESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDVWDPW--VLKA-------FDNQCQILLTTRDK  267 (1249)
T ss_dssp             HHHHHHHHHHTTTCTTCSSCCSSHHHHHHHHHHHTSSSSCSCEEEEESCCCHH--HHTT-------TCSSCEEEEEESST
T ss_pred             HHHHHHHHHhhhhcccccCCCCCHHHHHHHHHHHHhccCCCEEEEEecCCCHH--HHHh-------hcCCCEEEEEcCCH
Confidence            23455666665433    22456788889999999877  9999999998642  2332       35689999999999


Q ss_pred             HHHHH-hccCCccccCC-CChHHHHHhhhhhc-------------cccch---hHHHHHHhhhhcchhhHHhhhhhccch
Q 038234          203 TVARM-MESTNFISIKE-LSTQECWSLFKQES-------------SAKPC---LLLQKLLGVSCALKELEMSGKNSLDSE  264 (406)
Q Consensus       203 ~v~~~-~~~~~~~~l~~-L~~~~a~~Lf~~~~-------------i~~~c---PLai~~~g~~L~~~~~~~~w~~~~~~~  264 (406)
                      .++.. ++....+.+.+ |+.++|++||...+             |+++|   |||++++|++|+.+.  ..|...+..+
T Consensus       268 ~~~~~~~~~~~~~~~~~~l~~~~a~~l~~~~~~~~~~~~~~~~~~i~~~~~glPLal~~~~~~l~~~~--~~~~~~l~~l  345 (1249)
T 3sfz_A          268 SVTDSVMGPKHVVPVESGLGREKGLEILSLFVNMKKEDLPAEAHSIIKECKGSPLVVSLIGALLRDFP--NRWAYYLRQL  345 (1249)
T ss_dssp             TTTTTCCSCBCCEECCSSCCHHHHHHHHHHHHTSCSTTCCTHHHHHHHHTTTCHHHHHHHHHHHHHSS--SCHHHHHHHH
T ss_pred             HHHHhhcCCceEEEecCCCCHHHHHHHHHHhhCCChhhCcHHHHHHHHHhCCCHHHHHHHHHHhhcCh--hHHHHHHHHH
Confidence            99854 45577889996 99999999998755             67777   999999999998765  3455444332


Q ss_pred             hhh--------hhhhhhhHHHHHHhccccCChhhhhHHhhhcccCCCCccCHHHHHHHHHHCCCcccccCCCHHHHHHHH
Q 038234          265 LWQ--------LQELEKDLFSLLLLNYYDLPYRIKQCFRYCFISPKDSCIWKEDLIKLWIAQSFIEAKENKEMEIIDEEY  336 (406)
Q Consensus       265 ~~~--------~~~~~~~~~~~l~~sy~~L~~~~k~cfl~la~Fp~~~~i~~~~Li~~W~aeg~i~~~~~~~~e~~~~~~  336 (406)
                      ...        ......++.++|.+||+.||+++|.||+|||+||+++.|+++.++.+|.++           ++.++++
T Consensus       346 ~~~~~~~~~~~~~~~~~~~~~~l~~s~~~L~~~~~~~~~~l~~f~~~~~i~~~~~~~~~~~~-----------~~~~~~~  414 (1249)
T 3sfz_A          346 QNKQFKRIRKSSSYDYEALDEAMSISVEMLREDIKDYYTDLSILQKDVKVPTKVLCVLWDLE-----------TEEVEDI  414 (1249)
T ss_dssp             HSCCCCCSSCTTCTTHHHHHHHHHHHHHTSCTTTHHHHHHGGGSCTTCCEEHHHHHHHHTCC-----------HHHHHHH
T ss_pred             hhhhhhhcccccccchHHHHHHHHHHHHhCCHHHHHHHHHhCccCCCCeeCHHHHHHHhCCC-----------HHHHHHH
Confidence            111        111235799999999999999999999999999999999999999999654           3578899


Q ss_pred             HHHHHhcCCcceeecCCCCcccEEEECHHHHHHHHHhhhcC
Q 038234          337 FDYLTARSFFQEFHKGSDDIITECKMHDIVHDFAQFLRKNQ  377 (406)
Q Consensus       337 l~~L~~~sll~~~~~~~~~~~~~~~mHdlv~~~~~~~~~~e  377 (406)
                      |++|+++|||+....   +...+|+||++||+|+++.+.+|
T Consensus       415 l~~L~~~sl~~~~~~---~~~~~~~~h~l~~~~~~~~~~~~  452 (1249)
T 3sfz_A          415 LQEFVNKSLLFCNRN---GKSFCYYLHDLQVDFLTEKNRSQ  452 (1249)
T ss_dssp             HHHHHHTTSCEEEES---SSSEEEECCHHHHHHHHHHTGGG
T ss_pred             HHHHHhccceEEecC---CCceEEEecHHHHHHHHhhhhHH
Confidence            999999999986543   34457999999999999998776

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A*

Probab=100.00  E-value=6.2e-37  Score=318.10  Aligned_cols=256  Identities=17%  Similarity=0.093  Sum_probs=198.6

Q ss_pred             ceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChH--------------------HHHHHHH
Q 038234           76 EICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDF--------------------RVAKAII  135 (406)
Q Consensus        76 ~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~--------------------~~~~~i~  135 (406)
                      ..|||+.++++|.++|...     +..++|+|+||||+||||||+++|++.+.                    .++..+.
T Consensus       129 ~~VGRe~eLeeL~elL~~~-----d~~RVV~IvGmGGIGKTTLAk~Vy~d~rV~~~Fd~gV~WVsVs~~~d~~~IL~~Ll  203 (1221)
T 1vt4_I          129 YNVSRLQPYLKLRQALLEL-----RPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQ  203 (1221)
T ss_dssp             SCCCCHHHHHHHHHHHHHC-----CSSCEEEECCSTTSSHHHHHHHHHHHCHHHHHHSSCEEEEECCCSSSHHHHHHHHH
T ss_pred             CCCCcHHHHHHHHHHHhcc-----CCCeEEEEEcCCCccHHHHHHHHHHhhHHHHhCCCcEEEEEeCCCCCHHHHHHHHH
Confidence            3499999999999999853     23789999999999999999999975421                    3344444


Q ss_pred             HH---hcCCCC---C-----CCCHHHHHHHHHhhc---cCcceeEEeeCCCCcCccCcchhhhccCCCCCCcEEEEecCC
Q 038234          136 AA---LGCETS---N-----LGSLQSLVRCISESI---EGKKYLVVLDDVWTDDYTKWEPFQRCSANGQCGNNILVTTHK  201 (406)
Q Consensus       136 ~~---l~~~~~---~-----~~~~~~~~~~l~~~l---~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTtR~  201 (406)
                      ..   +.....   .     ..+.+.+...+++.|   .+||+||||||+|+.  ..|+.+    +   +||+||||||+
T Consensus       204 ~lL~~i~~~~~~~~d~~~~ip~~leeL~e~Lr~lL~~l~~KRvLLVLDDVwd~--eqLe~f----~---pGSRILVTTRd  274 (1221)
T 1vt4_I          204 KLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNA--KAWNAF----N---LSCKILLTTRF  274 (1221)
T ss_dssp             HHHHHHCSSSTTTSCCCSSHHHHHHHHHHHHHHHHHHSTTSSCEEEEESCCCH--HHHHHH----H---SSCCEEEECSC
T ss_pred             HHHhhcCcccccccccccCCCCCHHHHHHHHHHHHHhhcCCCEEEEEeCcChH--HHHHhh----C---CCeEEEEeccC
Confidence            33   221111   0     113445566677755   689999999999873  345443    2   58999999999


Q ss_pred             hHHHHHhccCCccccC------CCChHHHHHhhhhhc----------cccchhHHHHHHhhhhcchh-hHHhhhhhccch
Q 038234          202 KTVARMMESTNFISIK------ELSTQECWSLFKQES----------SAKPCLLLQKLLGVSCALKE-LEMSGKNSLDSE  264 (406)
Q Consensus       202 ~~v~~~~~~~~~~~l~------~L~~~~a~~Lf~~~~----------i~~~cPLai~~~g~~L~~~~-~~~~w~~~~~~~  264 (406)
                      +.++..+.....+.++      +|+.+||++||.+..          +..+.|||++++|+.|+.+. ..+.|...    
T Consensus       275 ~~Va~~l~g~~vy~LeL~d~dL~LS~eEA~eLF~~~~g~~~eeL~~eICgGLPLALkLaGs~Lr~k~~s~eeW~~~----  350 (1221)
T 1vt4_I          275 KQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHV----  350 (1221)
T ss_dssp             SHHHHHHHHHSSCEEEECSSSSCCCHHHHHHHHHHHHCCCTTTHHHHHCCCCHHHHHHHHHHHHHSCSSHHHHHHC----
T ss_pred             hHHHHhcCCCeEEEecCccccCCcCHHHHHHHHHHHcCCCHHHHHHHHhCCCHHHHHHHHHHHhCCCCCHHHHhcC----
Confidence            9998765555567777      999999999998764          22233999999999998874 46778653    


Q ss_pred             hhhhhhhhhhHHHHHHhccccCChhh-hhHHhhhcccCCCCccCHHHHHHHHHHCCCcccccCCCHHHHHHHHHHHHHhc
Q 038234          265 LWQLQELEKDLFSLLLLNYYDLPYRI-KQCFRYCFISPKDSCIWKEDLIKLWIAQSFIEAKENKEMEIIDEEYFDYLTAR  343 (406)
Q Consensus       265 ~~~~~~~~~~~~~~l~~sy~~L~~~~-k~cfl~la~Fp~~~~i~~~~Li~~W~aeg~i~~~~~~~~e~~~~~~l~~L~~~  343 (406)
                            ....+..+|.+||+.||++. |.||+|||+||+++.|+.+.++.+|+++|          ++.++.+|++|+++
T Consensus       351 ------~~~~I~aaLelSYd~Lp~eelK~cFL~LAIFPed~~I~~elLa~LW~aeG----------eedAe~~L~eLvdR  414 (1221)
T 1vt4_I          351 ------NCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVI----------KSDVMVVVNKLHKY  414 (1221)
T ss_dssp             ------SCHHHHHHHHHHHHHSCTTHHHHHHHHTTSSCTTSCEEHHHHHHHHCSSC----------SHHHHHHHHHHHTS
T ss_pred             ------ChhHHHHHHHHHHHhCCHHHHHHHHHHHhCCCCCCCCCHHHHHHHhcCCC----------HHHHHHHHHHHHhh
Confidence                  23679999999999999999 99999999999999999999999998887          13578899999999


Q ss_pred             CCcceeecCCCCcccEEEECHHHHHHH
Q 038234          344 SFFQEFHKGSDDIITECKMHDIVHDFA  370 (406)
Q Consensus       344 sll~~~~~~~~~~~~~~~mHdlv~~~~  370 (406)
                      ||++..     +....|+|||++++++
T Consensus       415 SLLq~d-----~~~~rYrMHDLllELr  436 (1221)
T 1vt4_I          415 SLVEKQ-----PKESTISIPSIYLELK  436 (1221)
T ss_dssp             SSSSBC-----SSSSEEBCCCHHHHHH
T ss_pred             CCEEEe-----CCCCEEEehHHHHHHh
Confidence            999873     1224799999999865

>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation, ADP, nucleotide binding, CARD, apoptosis; HET: ADP; 2.21A {Homo sapiens}

Probab=100.00  E-value=2e-33  Score=288.07  Aligned_cols=273  Identities=18%  Similarity=0.134  Sum_probs=204.5

Q ss_pred             cCCCceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChH--------------------HHH
Q 038234           72 IDESEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDF--------------------RVA  131 (406)
Q Consensus        72 ~~~~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~--------------------~~~  131 (406)
                      ..++.||||+.++++|.++|...    .+..++|+|+||||+||||||.+++++...                    .+.
T Consensus       121 ~~~~~~vGR~~~l~~L~~~L~~~----~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~v~wv~~~~~~~~~~~  196 (591)
T 1z6t_A          121 QRPVVFVTRKKLVNAIQQKLSKL----KGEPGWVTIHGMAGCGKSVLAAEAVRDHSLLEGCFPGGVHWVSVGKQDKSGLL  196 (591)
T ss_dssp             CCCSSCCCCHHHHHHHHHHHTTS----TTSCEEEEEECCTTSSHHHHHHHHHCCHHHHHHHCTTCEEEEEEESCCHHHHH
T ss_pred             CCCCeecccHHHHHHHHHHHhcc----cCCCceEEEEcCCCCCHHHHHHHHHhchhHHHhhCCCceEEEECCCCchHHHH
Confidence            34567999999999999999753    245789999999999999999999876421                    122


Q ss_pred             HH---HHHHhcCC----CCCCCCHHHHHHHHHhhccC--cceeEEeeCCCCcCccCcchhhhccCCCCCCcEEEEecCCh
Q 038234          132 KA---IIAALGCE----TSNLGSLQSLVRCISESIEG--KKYLVVLDDVWTDDYTKWEPFQRCSANGQCGNNILVTTHKK  202 (406)
Q Consensus       132 ~~---i~~~l~~~----~~~~~~~~~~~~~l~~~l~~--kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTtR~~  202 (406)
                      ..   +...++..    .....+.+.+...+...+.+  +++||||||+|+..     .+. .   .++|++||||||++
T Consensus       197 ~~l~~l~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~LLVLDdv~~~~-----~l~-~---l~~~~~ilvTsR~~  267 (591)
T 1z6t_A          197 MKLQNLCTRLDQDESFSQRLPLNIEEAKDRLRILMLRKHPRSLLILDDVWDSW-----VLK-A---FDSQCQILLTTRDK  267 (591)
T ss_dssp             HHHHHHHHHHCSSCCSCSSCCCSHHHHHHHHHHHHHHTCTTCEEEEEEECCHH-----HHH-T---TCSSCEEEEEESCG
T ss_pred             HHHHHHHHHhccccccccCCCCCHHHHHHHHHHHHccCCCCeEEEEeCCCCHH-----HHH-H---hcCCCeEEEECCCc
Confidence            22   23344321    12345667778888888776  79999999997632     221 2   25689999999999


Q ss_pred             HHHHHhccCCcccc---CCCChHHHHHhhhhhc-------------cccch---hHHHHHHhhhhcchhhHHhhhhhccc
Q 038234          203 TVARMMESTNFISI---KELSTQECWSLFKQES-------------SAKPC---LLLQKLLGVSCALKELEMSGKNSLDS  263 (406)
Q Consensus       203 ~v~~~~~~~~~~~l---~~L~~~~a~~Lf~~~~-------------i~~~c---PLai~~~g~~L~~~~~~~~w~~~~~~  263 (406)
                      .++..+. ...+++   ++|+.+++++||...+             |++.|   |||++++|+.++.+.  ..|...+..
T Consensus       268 ~~~~~~~-~~~~~v~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~i~~~~~G~PLal~~~a~~l~~~~--~~w~~~l~~  344 (591)
T 1z6t_A          268 SVTDSVM-GPKYVVPVESSLGKEKGLEILSLFVNMKKADLPEQAHSIIKECKGSPLVVSLIGALLRDFP--NRWEYYLKQ  344 (591)
T ss_dssp             GGGTTCC-SCEEEEECCSSCCHHHHHHHHHHHHTSCGGGSCTHHHHHHHHHTTCHHHHHHHHHHHHHST--TCHHHHHHH
T ss_pred             HHHHhcC-CCceEeecCCCCCHHHHHHHHHHHhCCCcccccHHHHHHHHHhCCCcHHHHHHHHHHhcCc--hhHHHHHHH
Confidence            8876543 233444   5899999999998754             55566   999999999998764  356554433


Q ss_pred             hhhh--------hhhhhhhHHHHHHhccccCChhhhhHHhhhcccCCCCccCHHHHHHHHHHCCCcccccCCCHHHHHHH
Q 038234          264 ELWQ--------LQELEKDLFSLLLLNYYDLPYRIKQCFRYCFISPKDSCIWKEDLIKLWIAQSFIEAKENKEMEIIDEE  335 (406)
Q Consensus       264 ~~~~--------~~~~~~~~~~~l~~sy~~L~~~~k~cfl~la~Fp~~~~i~~~~Li~~W~aeg~i~~~~~~~~e~~~~~  335 (406)
                      ....        ......++..+|..||+.||++.|.||++||+||+++.|+.+.+..+|.++           .+.+..
T Consensus       345 l~~~~~~~~~~~~~~~~~~l~~~l~~s~~~L~~~~~~~l~~la~f~~~~~i~~~~l~~l~~~~-----------~~~~~~  413 (591)
T 1z6t_A          345 LQNKQFKRIRKSSSYDYEALDEAMSISVEMLREDIKDYYTDLSILQKDVKVPTKVLCILWDME-----------TEEVED  413 (591)
T ss_dssp             HHSCCCCCSSCCCSSCCHHHHHHHHHHHHTSCTTTHHHHHHGGGCCTTCCEEHHHHHHHHTCC-----------HHHHHH
T ss_pred             HHHhHHHHhhhccccchHHHHHHHHHHHHhCCHHHHHHHHHccccCCCCccCHHHHHHHhccC-----------HHHHHH
Confidence            2211        011235789999999999999999999999999999999999999999543           235678


Q ss_pred             HHHHHHhcCCcceeecCCCCcccEEEECHHHHHHHHHhh
Q 038234          336 YFDYLTARSFFQEFHKGSDDIITECKMHDIVHDFAQFLR  374 (406)
Q Consensus       336 ~l~~L~~~sll~~~~~~~~~~~~~~~mHdlv~~~~~~~~  374 (406)
                      ++++|+++|||+....   +....|+||+++|+|+++..
T Consensus       414 ~l~~L~~~~Ll~~~~~---~~~~~~~~H~lv~~~~~~~~  449 (591)
T 1z6t_A          414 ILQEFVNKSLLFCDRN---GKSFRYYLHDLQVDFLTEKN  449 (591)
T ss_dssp             HHHHHHHTTSSEEEEE---TTEEEEECCHHHHHHHHHHT
T ss_pred             HHHHHHhCcCeEEecC---CCccEEEEcHHHHHHHHhhh
Confidence            9999999999986433   33357999999999999873

>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus abyssi}

Probab=99.56  E-value=1.1e-13  Score=131.63  Aligned_cols=264  Identities=12%  Similarity=0.094  Sum_probs=154.3

Q ss_pred             cCCCceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCCh------------------HHHHHH
Q 038234           72 IDESEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKD------------------FRVAKA  133 (406)
Q Consensus        72 ~~~~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~------------------~~~~~~  133 (406)
                      ..+..|+||+.++++|.+++..      .  +++.|+|++|+|||+|++++++...                  ..+...
T Consensus         9 ~~~~~~~gR~~el~~L~~~l~~------~--~~v~i~G~~G~GKT~Ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (350)
T 2qen_A            9 TRREDIFDREEESRKLEESLEN------Y--PLTLLLGIRRVGKSSLLRAFLNERPGILIDCRELYAERGHITREELIKE   80 (350)
T ss_dssp             CSGGGSCSCHHHHHHHHHHHHH------C--SEEEEECCTTSSHHHHHHHHHHHSSEEEEEHHHHHHTTTCBCHHHHHHH
T ss_pred             CChHhcCChHHHHHHHHHHHhc------C--CeEEEECCCcCCHHHHHHHHHHHcCcEEEEeecccccccCCCHHHHHHH
Confidence            3446799999999999998863      1  5899999999999999999876421                  122333


Q ss_pred             HHHHhcC-----------------CCC-CCCCHHHHHHHHHhhccC-cceeEEeeCCCCcCc-------cCcchhhhccC
Q 038234          134 IIAALGC-----------------ETS-NLGSLQSLVRCISESIEG-KKYLVVLDDVWTDDY-------TKWEPFQRCSA  187 (406)
Q Consensus       134 i~~~l~~-----------------~~~-~~~~~~~~~~~l~~~l~~-kr~LlVlDdvw~~~~-------~~~~~l~~~l~  187 (406)
                      +...+..                 ..+ ...+...+...+.+.... ++.+|||||++.-+.       ..+..+.....
T Consensus        81 l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~vlvlDe~~~~~~~~~~~~~~~~~~L~~~~~  160 (350)
T 2qen_A           81 LQSTISPFQKFQSKFKISLNLKFLTLEPRKLSLREVFRELNDLGEELGEFIVAFDEAQYLRFYGSRGGKELLALFAYAYD  160 (350)
T ss_dssp             HHHHSCSHHHHHHHHTCCCCCGGGTSCGGGCCHHHHHHHHHHHHHHHSCEEEEEETGGGGGGBTTTTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhHhhhceeEEEecceeeccccchHHHHHHHHHHHHhccCCEEEEEeCHHHHhccCccchhhHHHHHHHHHH
Confidence            3333321                 000 123456666666665543 389999999976432       11222322222


Q ss_pred             CCCCCcEEEEecCChHHHHHh-----------cc-CCccccCCCChHHHHHhhhhhc--------------cccch---h
Q 038234          188 NGQCGNNILVTTHKKTVARMM-----------ES-TNFISIKELSTQECWSLFKQES--------------SAKPC---L  238 (406)
Q Consensus       188 ~~~~gs~IivTtR~~~v~~~~-----------~~-~~~~~l~~L~~~~a~~Lf~~~~--------------i~~~c---P  238 (406)
                      . .++..+|+|++........           +. ...+.+.+|+.+|+.+++....              +...+   |
T Consensus       161 ~-~~~~~~il~g~~~~~l~~~l~~~~~~~~l~~~~~~~i~l~pl~~~e~~~~l~~~~~~~~~~~~~~~~~~i~~~tgG~P  239 (350)
T 2qen_A          161 S-LPNLKIILTGSEVGLLHDFLKITDYESPLYGRIAGEVLVKPFDKDTSVEFLKRGFREVNLDVPENEIEEAVELLDGIP  239 (350)
T ss_dssp             H-CTTEEEEEEESSHHHHHHHHCTTCTTSTTTTCCCEEEECCCCCHHHHHHHHHHHHHTTTCCCCHHHHHHHHHHHTTCH
T ss_pred             h-cCCeEEEEECCcHHHHHHHHhhcCCCCccccCccceeeCCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhCCCH
Confidence            2 2467899998876542211           11 2368999999999999987531              22223   8


Q ss_pred             HHHHHHhhhhcchhhHHhhhhhccchhhhhhhhhhhHHHHHHhccccC---ChhhhhHHhhhcccCCCCccCHHHHHHHH
Q 038234          239 LLQKLLGVSCALKELEMSGKNSLDSELWQLQELEKDLFSLLLLNYYDL---PYRIKQCFRYCFISPKDSCIWKEDLIKLW  315 (406)
Q Consensus       239 Lai~~~g~~L~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~l~~sy~~L---~~~~k~cfl~la~Fp~~~~i~~~~Li~~W  315 (406)
                      +++..++..+........+.   ...       ...+...+...+..+   ++..+..+..+|.  ..  .+...+....
T Consensus       240 ~~l~~~~~~~~~~~~~~~~~---~~~-------~~~~~~~~~~~l~~l~~~~~~~~~~l~~la~--g~--~~~~~l~~~~  305 (350)
T 2qen_A          240 GWLVVFGVEYLRNGDFGRAM---KRT-------LEVAKGLIMGELEELRRRSPRYVDILRAIAL--GY--NRWSLIRDYL  305 (350)
T ss_dssp             HHHHHHHHHHHHHCCHHHHH---HHH-------HHHHHHHHHHHHHHHHHHCHHHHHHHHHHHT--TC--CSHHHHHHHH
T ss_pred             HHHHHHHHHHhccccHhHHH---HHH-------HHHHHHHHHHHHHHHHhCChhHHHHHHHHHh--CC--CCHHHHHHHH
Confidence            88887775432211111111   000       011111111112222   7888999999987  22  4555555443


Q ss_pred             HHCCCcccccCCCHHHHHHHHHHHHHhcCCcceeecCCCCcccEEEE-CHHHHHHHH
Q 038234          316 IAQSFIEAKENKEMEIIDEEYFDYLTARSFFQEFHKGSDDIITECKM-HDIVHDFAQ  371 (406)
Q Consensus       316 ~aeg~i~~~~~~~~e~~~~~~l~~L~~~sll~~~~~~~~~~~~~~~m-Hdlv~~~~~  371 (406)
                      .+..     .+.+ ......+++.|++.+||....       ..|.+ |++++++.+
T Consensus       306 ~~~~-----~~~~-~~~~~~~l~~L~~~gli~~~~-------~~y~~~~p~~~~~~~  349 (350)
T 2qen_A          306 AVKG-----TKIP-EPRLYALLENLKKMNWIVEED-------NTYKIADPVVATVLR  349 (350)
T ss_dssp             HHTT-----CCCC-HHHHHHHHHHHHHTTSEEEET-------TEEEESSHHHHHHHT
T ss_pred             HHHh-----CCCC-HHHHHHHHHHHHhCCCEEecC-------CEEEEecHHHHHHHc
Confidence            2211     0112 235668899999999997641       14665 788888764

>1w5s_A Origin recognition complex subunit 2 ORC2; replication, CDC6, DNA replication initiation, DNA BIND protein, AAA+ ATPase; HET: ADP; 2.4A {Aeropyrum pernix} SCOP: a.4.5.11 c.37.1.20 PDB: 1w5t_A*

Probab=99.54  E-value=2.8e-14  Score=139.08  Aligned_cols=272  Identities=13%  Similarity=0.054  Sum_probs=149.9

Q ss_pred             CCceecchhhHHHHHHHH-hcCCCCCCCCcEEEEE--eeeCCCcHHHHHHHHhcCCh-----------------------
Q 038234           74 ESEICGRDYKKNELLSKL-LSDSSDQQKPIKMISI--VGMGGIGKITLAQMAYNDKD-----------------------  127 (406)
Q Consensus        74 ~~~~vGR~~~~~~l~~~L-~~~~~~~~~~~~vi~I--~G~gGiGKTtLA~~v~~~~~-----------------------  127 (406)
                      +..++||+.+++++.++| .............+.|  +|++|+|||+||+.+++...                       
T Consensus        21 p~~l~gR~~el~~l~~~l~~~~~~~~~~~~~~~li~i~G~~G~GKT~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  100 (412)
T 1w5s_A           21 PPELRVRRGEAEALARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVNAFNAPNL  100 (412)
T ss_dssp             CSSCSSSCHHHHHHHHHHHHHHHTSSCBCCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEEEGGGCCSH
T ss_pred             CCCCCChHHHHHHHHHHHhHHHhcCCCCCCCEEEEeCcCcCCCCHHHHHHHHHHHHHHHHhccCCceeEEEEECCCCCCH
Confidence            367999999999999988 4211100023456666  99999999999998876431                       


Q ss_pred             HHHHHHHHHHhcCCCCC-CCCHHHHHHHHHhhcc--CcceeEEeeCCCCcCc------cCcchhhhccCCC---C--CCc
Q 038234          128 FRVAKAIIAALGCETSN-LGSLQSLVRCISESIE--GKKYLVVLDDVWTDDY------TKWEPFQRCSANG---Q--CGN  193 (406)
Q Consensus       128 ~~~~~~i~~~l~~~~~~-~~~~~~~~~~l~~~l~--~kr~LlVlDdvw~~~~------~~~~~l~~~l~~~---~--~gs  193 (406)
                      ..+...++..++...+. ..+...+...+.+.+.  +++++|||||+|....      ..+..+...+...   +  ...
T Consensus       101 ~~~~~~l~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~llvlDe~~~l~~~~~~~~~~l~~l~~~~~~~~~~~~~~~v  180 (412)
T 1w5s_A          101 YTILSLIVRQTGYPIQVRGAPALDILKALVDNLYVENHYLLVILDEFQSMLSSPRIAAEDLYTLLRVHEEIPSRDGVNRI  180 (412)
T ss_dssp             HHHHHHHHHHHTCCCCCTTCCHHHHHHHHHHHHHHHTCEEEEEEESTHHHHSCTTSCHHHHHHHHTHHHHSCCTTSCCBE
T ss_pred             HHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHHHhcCCeEEEEEeCHHHHhhccCcchHHHHHHHHHHHhcccCCCCceE
Confidence            05667777777654332 2334556666666654  7799999999976421      2222222222211   2  345


Q ss_pred             EEEEecCChHHHHHhc--------c-CCccccCCCChHHHHHhhhhhc---cc-cch-hHHHHHHhhhhc------chhh
Q 038234          194 NILVTTHKKTVARMME--------S-TNFISIKELSTQECWSLFKQES---SA-KPC-LLLQKLLGVSCA------LKEL  253 (406)
Q Consensus       194 ~IivTtR~~~v~~~~~--------~-~~~~~l~~L~~~~a~~Lf~~~~---i~-~~c-PLai~~~g~~L~------~~~~  253 (406)
                      .||+||+...+...+.        . ...+.+.+|+.++++++|....   .. ..+ |-++..+.....      ..+.
T Consensus       181 ~lI~~~~~~~~~~~l~~~~~~~~~~~~~~i~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~G~p~  260 (412)
T 1w5s_A          181 GFLLVASDVRALSYMREKIPQVESQIGFKLHLPAYKSRELYTILEQRAELGLRDTVWEPRHLELISDVYGEDKGGDGSAR  260 (412)
T ss_dssp             EEEEEEEETHHHHHHHHHCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHHBCTTSCCHHHHHHHHHHHCGGGTSCCCHH
T ss_pred             EEEEEeccccHHHHHhhhcchhhhhcCCeeeeCCCCHHHHHHHHHHHHHhcCCCCCCChHHHHHHHHHHHHhccCCCcHH
Confidence            5787887655432221        1 2238999999999999997543   11 011 222222222222      1110


Q ss_pred             -H-----Hhhhhhcc----ch-hhhhhhhhhhH--HHHHHhccccCChhhhhHHhhhcccC--CCCccCHHHHHHHHH--
Q 038234          254 -E-----MSGKNSLD----SE-LWQLQELEKDL--FSLLLLNYYDLPYRIKQCFRYCFISP--KDSCIWKEDLIKLWI--  316 (406)
Q Consensus       254 -~-----~~w~~~~~----~~-~~~~~~~~~~~--~~~l~~sy~~L~~~~k~cfl~la~Fp--~~~~i~~~~Li~~W~--  316 (406)
                       .     ..+.....    .. ...........  ...+..++..||++.+.++..++.+.  .+..++...+...+.  
T Consensus       261 ~~~~l~~~a~~~a~~~~~~~i~~~~v~~~~~~~~~~~~~~~~l~~l~~~~~~~l~aia~l~~~~~~~~~~~~~~~~~~~~  340 (412)
T 1w5s_A          261 RAIVALKMACEMAEAMGRDSLSEDLVRKAVSENEAASIQTHELEALSIHELIILRLIAEATLGGMEWINAGLLRQRYEDA  340 (412)
T ss_dssp             HHHHHHHHHHHHHHHTTCSSCCHHHHHHHHHHC------CCSSSSSCHHHHHHHHHHHHHHHTTCSSBCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHhccchHHHHHHcCCHHHHHHHHHHHHHHhcCCCCccHHHHHHHHHHH
Confidence             0     00000000    00 00000001111  34456678899999999999898764  333466655554442  


Q ss_pred             H---CCCcccccCCCHHHHHHHHHHHHHhcCCcceee
Q 038234          317 A---QSFIEAKENKEMEIIDEEYFDYLTARSFFQEFH  350 (406)
Q Consensus       317 a---eg~i~~~~~~~~e~~~~~~l~~L~~~sll~~~~  350 (406)
                      +   .|.    ...+ ......+++.|++.+||....
T Consensus       341 ~~~~~~~----~~~~-~~~~~~~l~~L~~~gli~~~~  372 (412)
T 1w5s_A          341 SLTMYNV----KPRG-YTQYHIYLKHLTSLGLVDAKP  372 (412)
T ss_dssp             HHHHSCC----CCCC-HHHHHHHHHHHHHTTSEEEEC
T ss_pred             HHhhcCC----CCCC-HHHHHHHHHHHHhCCCEEeec
Confidence            2   121    1111 234567899999999997654

>2fna_A Conserved hypothetical protein; structural genomics, joint center for structural genomics, J protein structure initiative, PSI-2; HET: MSE ADP; 2.00A {Sulfolobus solfataricus} SCOP: a.4.5.11 c.37.1.20

Probab=99.48  E-value=1.2e-12  Score=124.72  Aligned_cols=263  Identities=10%  Similarity=0.044  Sum_probs=151.2

Q ss_pred             CCCceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCCh-------------------HHHHHH
Q 038234           73 DESEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKD-------------------FRVAKA  133 (406)
Q Consensus        73 ~~~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~-------------------~~~~~~  133 (406)
                      .+..|+||+.+++.|.+ +.      .   +++.|+|++|+|||+|++++++...                   ..+...
T Consensus        11 ~~~~~~gR~~el~~L~~-l~------~---~~v~i~G~~G~GKT~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (357)
T 2fna_A           11 NRKDFFDREKEIEKLKG-LR------A---PITLVLGLRRTGKSSIIKIGINELNLPYIYLDLRKFEERNYISYKDFLLE   80 (357)
T ss_dssp             SGGGSCCCHHHHHHHHH-TC------S---SEEEEEESTTSSHHHHHHHHHHHHTCCEEEEEGGGGTTCSCCCHHHHHHH
T ss_pred             CHHHhcChHHHHHHHHH-hc------C---CcEEEECCCCCCHHHHHHHHHHhcCCCEEEEEchhhccccCCCHHHHHHH
Confidence            44679999999999999 64      2   4899999999999999988865311                   122222


Q ss_pred             HHHHhc-------------CCC-----C-----------CCCCHHHHHHHHHhhccCcceeEEeeCCCCcCc---cCcch
Q 038234          134 IIAALG-------------CET-----S-----------NLGSLQSLVRCISESIEGKKYLVVLDDVWTDDY---TKWEP  181 (406)
Q Consensus       134 i~~~l~-------------~~~-----~-----------~~~~~~~~~~~l~~~l~~kr~LlVlDdvw~~~~---~~~~~  181 (406)
                      +...+.             ...     +           .......+...+.+... ++.+|||||+++-+.   ..+..
T Consensus        81 l~~~l~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~-~~~vlvlDe~~~~~~~~~~~~~~  159 (357)
T 2fna_A           81 LQKEINKLVKRLPSLLKALKNIQGIVIMGNEIKFNWNRKDRLSFANLLESFEQASK-DNVIIVLDEAQELVKLRGVNLLP  159 (357)
T ss_dssp             HHHHHHHHHHHCTTHHHHTTTSTTEEECSSSEEEC-----CCCHHHHHHHHHHTCS-SCEEEEEETGGGGGGCTTCCCHH
T ss_pred             HHHHHHHHhhhhhHHHHHhcccceEEecceEEEeccCCcchhhHHHHHHHHHhcCC-CCeEEEEECHHHhhccCchhHHH
Confidence            222221             000     0           12345556666655433 499999999976432   22322


Q ss_pred             hhhccCCCCCCcEEEEecCChHHHHHh-----------cc-CCccccCCCChHHHHHhhhhhc------------cccch
Q 038234          182 FQRCSANGQCGNNILVTTHKKTVARMM-----------ES-TNFISIKELSTQECWSLFKQES------------SAKPC  237 (406)
Q Consensus       182 l~~~l~~~~~gs~IivTtR~~~v~~~~-----------~~-~~~~~l~~L~~~~a~~Lf~~~~------------i~~~c  237 (406)
                      +...+.....+..+|+|++........           +. ...+.+.+|+.+++.+++....            +...+
T Consensus       160 ~l~~~~~~~~~~~~i~~g~~~~~l~~~l~~~~~~~~l~~r~~~~i~l~~l~~~e~~~~l~~~~~~~~~~~~~~~~i~~~t  239 (357)
T 2fna_A          160 ALAYAYDNLKRIKFIMSGSEMGLLYDYLRVEDPESPLFGRAFSTVELKPFSREEAIEFLRRGFQEADIDFKDYEVVYEKI  239 (357)
T ss_dssp             HHHHHHHHCTTEEEEEEESSHHHHHHHTTTTCTTSTTTTCCCEEEEECCCCHHHHHHHHHHHHHHHTCCCCCHHHHHHHH
T ss_pred             HHHHHHHcCCCeEEEEEcCchHHHHHHHhccCCCCccccCccceeecCCCCHHHHHHHHHHHHHHcCCCCCcHHHHHHHh
Confidence            222222222367899999986543211           11 2578999999999999987632            23333


Q ss_pred             ---hHHHHHHhhhhcchhhHHhhhhhccchhhhhhhhhhhHHHHHH-hcc--ccCChhhhhHHhhhcccCCCCccCHHHH
Q 038234          238 ---LLLQKLLGVSCALKELEMSGKNSLDSELWQLQELEKDLFSLLL-LNY--YDLPYRIKQCFRYCFISPKDSCIWKEDL  311 (406)
Q Consensus       238 ---PLai~~~g~~L~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~l~-~sy--~~L~~~~k~cfl~la~Fp~~~~i~~~~L  311 (406)
                         |+++..++..+........|...   ....   ....+..-+. +.+  ..||+..+..+..+|.   +.  +...+
T Consensus       240 ~G~P~~l~~~~~~~~~~~~~~~~~~~---~~~~---~~~~~~~~l~~~~~~~~~l~~~~~~~l~~la~---g~--~~~~l  308 (357)
T 2fna_A          240 GGIPGWLTYFGFIYLDNKNLDFAINQ---TLEY---AKKLILKEFENFLHGREIARKRYLNIMRTLSK---CG--KWSDV  308 (357)
T ss_dssp             CSCHHHHHHHHHHHHHHCCHHHHHHH---HHHH---HHHHHHHHHHHHHTTCGGGHHHHHHHHHHHTT---CB--CHHHH
T ss_pred             CCCHHHHHHHHHHHccccchHHHHHH---HHHH---HHHHHHHHHHHHhhccccccHHHHHHHHHHHc---CC--CHHHH
Confidence               99888887765432212222111   0000   1111111111 111  1688899999999998   21  44444


Q ss_pred             HHHHH-HCCCcccccCCCHHHHHHHHHHHHHhcCCcceeecCCCCcccEEEE-CHHHHHHH
Q 038234          312 IKLWI-AQSFIEAKENKEMEIIDEEYFDYLTARSFFQEFHKGSDDIITECKM-HDIVHDFA  370 (406)
Q Consensus       312 i~~W~-aeg~i~~~~~~~~e~~~~~~l~~L~~~sll~~~~~~~~~~~~~~~m-Hdlv~~~~  370 (406)
                      ..... ..|.     ..+ ......+++.|++.+||....       ..|++ |++++++.
T Consensus       309 ~~~~~~~~g~-----~~~-~~~~~~~L~~L~~~gli~~~~-------~~y~f~~~~~~~~l  356 (357)
T 2fna_A          309 KRALELEEGI-----EIS-DSEIYNYLTQLTKHSWIIKEG-------EKYCPSEPLISLAF  356 (357)
T ss_dssp             HHHHHHHHCS-----CCC-HHHHHHHHHHHHHTTSEEESS-------SCEEESSHHHHHHT
T ss_pred             HHHHHHhcCC-----CCC-HHHHHHHHHHHHhCCCEEecC-------CEEEecCHHHHHhh
Confidence            33221 1121     011 234567899999999997542       13664 78988864

>1fnn_A CDC6P, cell division control protein 6; ORC1, AAA protein, DNA replication initation factor, cell cycle control factor; HET: ADP; 2.00A {Pyrobaculum aerophilum} SCOP: a.4.5.11 c.37.1.20

Probab=99.29  E-value=2.3e-11  Score=117.26  Aligned_cols=297  Identities=12%  Similarity=0.090  Sum_probs=164.7

Q ss_pred             CceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCC----hH--------------HHHHHHHH
Q 038234           75 SEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDK----DF--------------RVAKAIIA  136 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~----~~--------------~~~~~i~~  136 (406)
                      +.++||+.+++++.+++........+..+.+.|+|++|+||||||+.+++..    ..              .+...++.
T Consensus        17 ~~l~gr~~~~~~l~~~l~~~~~~~~~~~~~~li~G~~G~GKTtl~~~l~~~~~~~~~~~~~~i~~~~~~~~~~~~~~l~~   96 (389)
T 1fnn_A           17 KRLPHREQQLQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWELYKDKTTARFVYINGFIYRNFTAIIGEIAR   96 (389)
T ss_dssp             SCCTTCHHHHHHHHHHHHHHHHSTTSSCCEEEEECCTTSSHHHHHHHHHHHHTTSCCCEEEEEETTTCCSHHHHHHHHHH
T ss_pred             CCCCChHHHHHHHHHHHHHHHcCCCCCCCeEEEECCCCCCHHHHHHHHHHHHhhhcCeeEEEEeCccCCCHHHHHHHHHH
Confidence            6799999999999998865211002223489999999999999999887532    11              55666666


Q ss_pred             HhcCCCCC-CCCHHHHHHHHHhhcc--CcceeEEeeCCCCcCccCcchhhhccCCCC----CCcEEEEecCChHHHHHhc
Q 038234          137 ALGCETSN-LGSLQSLVRCISESIE--GKKYLVVLDDVWTDDYTKWEPFQRCSANGQ----CGNNILVTTHKKTVARMME  209 (406)
Q Consensus       137 ~l~~~~~~-~~~~~~~~~~l~~~l~--~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~----~gs~IivTtR~~~v~~~~~  209 (406)
                      .++...+. ..+...+...+...+.  +++.+||||+++..+......+...+....    .+..||++|+.........
T Consensus        97 ~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDE~~~l~~~~~~~L~~~~~~~~~~~~~~~~iI~~~~~~~~~~~l~  176 (389)
T 1fnn_A           97 SLNIPFPRRGLSRDEFLALLVEHLRERDLYMFLVLDDAFNLAPDILSTFIRLGQEADKLGAFRIALVIVGHNDAVLNNLD  176 (389)
T ss_dssp             HTTCCCCSSCCCHHHHHHHHHHHHHHTTCCEEEEEETGGGSCHHHHHHHHHHTTCHHHHSSCCEEEEEEESSTHHHHTSC
T ss_pred             HhCccCCCCCCCHHHHHHHHHHHHhhcCCeEEEEEECccccchHHHHHHHHHHHhCCCCCcCCEEEEEEECCchHHHHhC
Confidence            66543322 2244555555555543  568899999997654444444545443211    3667888877664433221


Q ss_pred             -------cCCccccCCCChHHHHHhhhhhccc----cch-hHHHHHHhhhhcch-------hhHHhhhhhccchhh----
Q 038234          210 -------STNFISIKELSTQECWSLFKQESSA----KPC-LLLQKLLGVSCALK-------ELEMSGKNSLDSELW----  266 (406)
Q Consensus       210 -------~~~~~~l~~L~~~~a~~Lf~~~~i~----~~c-PLai~~~g~~L~~~-------~~~~~w~~~~~~~~~----  266 (406)
                             ....+.+.+++.++...++...+-.    ... |-++..+.......       .+.......+.....    
T Consensus       177 ~~~~~r~~~~~i~~~pl~~~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~G~~r~~~~~l~~a~~~a~~  256 (389)
T 1fnn_A          177 PSTRGIMGKYVIRFSPYTKDQIFDILLDRAKAGLAEGSYSEDILQMIADITGAQTPLDTNRGDARLAIDILYRSAYAAQQ  256 (389)
T ss_dssp             HHHHHHHTTCEEECCCCBHHHHHHHHHHHHHHHBCTTSSCHHHHHHHHHHHSBSSTTCTTSCCHHHHHHHHHHHHHHHHH
T ss_pred             HHhhhcCCCceEEeCCCCHHHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHhhcccCCCCCCcHHHHHHHHHHHHHHHHH
Confidence                   1236899999999999998876511    112 43444443333100       011111111100000    


Q ss_pred             -hhhh-hhhhH--------HHHHHhccccCChhhhhHHhhhcccC---CCCccCHHHHHHHHHH----CCCcccccCCCH
Q 038234          267 -QLQE-LEKDL--------FSLLLLNYYDLPYRIKQCFRYCFISP---KDSCIWKEDLIKLWIA----QSFIEAKENKEM  329 (406)
Q Consensus       267 -~~~~-~~~~~--------~~~l~~sy~~L~~~~k~cfl~la~Fp---~~~~i~~~~Li~~W~a----eg~i~~~~~~~~  329 (406)
                       .... ....+        ...+.-.+..||.+.+.++..++.+.   .+-.+....+...+..    .|..    ..+ 
T Consensus       257 ~~~~~i~~~~v~~~~~~~~~~~~~~~l~~l~~~~~~~L~~l~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~----~~~-  331 (389)
T 1fnn_A          257 NGRKHIAPEDVRKSSKEVLFGISEEVLIGLPLHEKLFLLAIVRSLKISHTPYITFGDAEESYKIVCEEYGER----PRV-  331 (389)
T ss_dssp             TTCSSCCHHHHHHHHHHHSCCCCHHHHHHSCHHHHHHHHHHHHHHHHHCSSCEEHHHHHHHHHHHHHHTTCC----CCC-
T ss_pred             hCCCCcCHHHHHHHHHHHhhhhHHHHHHcCCHHHHHHHHHHHHHHhhccCCCccHHHHHHHHHHHHHHcCCC----CCC-
Confidence             0000 00111        12233446778888888888787654   2224555666554432    2211    112 


Q ss_pred             HHHHHHHHHHHHhcCCcceeec----CCCCcccEEEE----CHHHHHHHHHhhhc
Q 038234          330 EIIDEEYFDYLTARSFFQEFHK----GSDDIITECKM----HDIVHDFAQFLRKN  376 (406)
Q Consensus       330 e~~~~~~l~~L~~~sll~~~~~----~~~~~~~~~~m----Hdlv~~~~~~~~~~  376 (406)
                      ......+++.|..+++|.....    +..|....+++    |+++..+...+..+
T Consensus       332 ~~~~~~~l~~L~~~gli~~~~~~~~~g~~g~~~~~~l~~~~~~v~~~~~~~~~~~  386 (389)
T 1fnn_A          332 HSQLWSYLNDLREKGIVETRQNKRGEGVRGRTTLISIGTEPLDTLEAVITKLIKE  386 (389)
T ss_dssp             HHHHHHHHHHHHHTTSSEEEEC---------CEEEECCSSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCeEEeeeccCCCCCCceeEEEeCCCHHHHHHHHHHHHHHH
Confidence            2356688999999999987554    22233333433    46666666555443

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=99.24  E-value=1e-10  Score=112.57  Aligned_cols=270  Identities=12%  Similarity=0.042  Sum_probs=147.7

Q ss_pred             CCceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCC---------hH--------------HH
Q 038234           74 ESEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDK---------DF--------------RV  130 (406)
Q Consensus        74 ~~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~---------~~--------------~~  130 (406)
                      +..++||+.+++++.+++.....  ......+.|+|++|+|||+||+.+++..         ..              .+
T Consensus        18 p~~~~gr~~~~~~l~~~l~~~~~--~~~~~~vll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~   95 (387)
T 2v1u_A           18 PDVLPHREAELRRLAEVLAPALR--GEKPSNALLYGLTGTGKTAVARLVLRRLEARASSLGVLVKPIYVNARHRETPYRV   95 (387)
T ss_dssp             CSCCTTCHHHHHHHHHTTGGGTS--SCCCCCEEECBCTTSSHHHHHHHHHHHHHHHHHHHTCCEEEEEEETTTSCSHHHH
T ss_pred             CCCCCCHHHHHHHHHHHHHHHHc--CCCCCcEEEECCCCCCHHHHHHHHHHHHHHHHhccCCCeEEEEEECCcCCCHHHH
Confidence            36799999999999998854311  2345678999999999999999988653         11              45


Q ss_pred             HHHHHHHhcCCCCC-CCCHHHHHHHHHhhc--cCcceeEEeeCCCCcCcc--Ccchhhhcc---CCC--CCCcEEEEecC
Q 038234          131 AKAIIAALGCETSN-LGSLQSLVRCISESI--EGKKYLVVLDDVWTDDYT--KWEPFQRCS---ANG--QCGNNILVTTH  200 (406)
Q Consensus       131 ~~~i~~~l~~~~~~-~~~~~~~~~~l~~~l--~~kr~LlVlDdvw~~~~~--~~~~l~~~l---~~~--~~gs~IivTtR  200 (406)
                      ...++..++...+. ..+...+...+...+  .+++.+||||+++.....  ..+.+...+   ...  ..+..+|.||+
T Consensus        96 ~~~l~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDEi~~l~~~~~~~~~l~~l~~~~~~~~~~~~~~~I~~t~  175 (387)
T 2v1u_A           96 ASAIAEAVGVRVPFTGLSVGEVYERLVKRLSRLRGIYIIVLDEIDFLPKRPGGQDLLYRITRINQELGDRVWVSLVGITN  175 (387)
T ss_dssp             HHHHHHHHSCCCCSSCCCHHHHHHHHHHHHTTSCSEEEEEEETTTHHHHSTTHHHHHHHHHHGGGCC-----CEEEEECS
T ss_pred             HHHHHHHhCCCCCCCCCCHHHHHHHHHHHHhccCCeEEEEEccHhhhcccCCCChHHHhHhhchhhcCCCceEEEEEEEC
Confidence            66677777654332 223455555555555  456889999999654322  112222222   111  34567777777


Q ss_pred             ChHHHH----H-hcc--CCccccCCCChHHHHHhhhhhcc---cc-ch-hHHHHHHhhhhc---chh------hHHhhhh
Q 038234          201 KKTVAR----M-MES--TNFISIKELSTQECWSLFKQESS---AK-PC-LLLQKLLGVSCA---LKE------LEMSGKN  259 (406)
Q Consensus       201 ~~~v~~----~-~~~--~~~~~l~~L~~~~a~~Lf~~~~i---~~-~c-PLai~~~g~~L~---~~~------~~~~w~~  259 (406)
                      ......    . ...  ...+.+.+++.++...++...+-   .. .. |-++..+...-.   ...      ....+..
T Consensus       176 ~~~~~~~l~~~l~~r~~~~~i~l~~l~~~~~~~il~~~~~~~~~~~~~~~~~~~~l~~~~~~~~G~~r~~~~~l~~a~~~  255 (387)
T 2v1u_A          176 SLGFVENLEPRVKSSLGEVELVFPPYTAPQLRDILETRAEEAFNPGVLDPDVVPLCAALAAREHGDARRALDLLRVAGEI  255 (387)
T ss_dssp             CSTTSSSSCHHHHTTTTSEECCBCCCCHHHHHHHHHHHHHHHBCTTTBCSSHHHHHHHHHHSSSCCHHHHHHHHHHHHHH
T ss_pred             CCchHhhhCHHHHhcCCCeEEeeCCCCHHHHHHHHHHHHHhhccCCCCCHHHHHHHHHHHHHhccCHHHHHHHHHHHHHH
Confidence            652211    1 111  24789999999999999987641   11 11 222222222221   110      0001110


Q ss_pred             hc--cch---hhhhhh-hhhhHHHHHHhccccCChhhhhHHhhhc-ccCCCCccCHHHHHHHHH----HCCCcccccCCC
Q 038234          260 SL--DSE---LWQLQE-LEKDLFSLLLLNYYDLPYRIKQCFRYCF-ISPKDSCIWKEDLIKLWI----AQSFIEAKENKE  328 (406)
Q Consensus       260 ~~--~~~---~~~~~~-~~~~~~~~l~~sy~~L~~~~k~cfl~la-~Fp~~~~i~~~~Li~~W~----aeg~i~~~~~~~  328 (406)
                      ..  ...   ...... ........+.-++..||++.+..++.++ ++-..-.+....+.+...    ..|.     ...
T Consensus       256 a~~~~~~~i~~~~v~~a~~~~~~~~~~~~~~~l~~~~~~~l~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~  330 (387)
T 2v1u_A          256 AERRREERVRREHVYSARAEIERDRVSEVVRTLPLHAKLVLLSIMMLEDGGRPASTGEIYERYKELTSTLGL-----EHV  330 (387)
T ss_dssp             HHHTTCSCBCHHHHHHHHHHHHHHHHHHHHHSSCHHHHHHHHHHHHHSSSSCCEEHHHHHHHHHHHHHHTTC-----CCC
T ss_pred             HHHcCCCCcCHHHHHHHHHHHhhchHHHHHHcCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHhcCC-----CCC
Confidence            00  000   000000 0111123455667889998888777666 443223454554444322    2221     111


Q ss_pred             HHHHHHHHHHHHHhcCCcceee
Q 038234          329 MEIIDEEYFDYLTARSFFQEFH  350 (406)
Q Consensus       329 ~e~~~~~~l~~L~~~sll~~~~  350 (406)
                      ....+..+++.|...|+++...
T Consensus       331 ~~~~~~~~l~~L~~~gli~~~~  352 (387)
T 2v1u_A          331 TLRRVSGIISELDMLGIVKSRV  352 (387)
T ss_dssp             CHHHHHHHHHHHHHTTSEEEEE
T ss_pred             CHHHHHHHHHHHHhCCCeEEEe
Confidence            2346678899999999998754

>2qby_B CDC6 homolog 3, cell division control protein 6 homolog 3; winged-helix domain, helix-turn-helix, AAA+ ATPase domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A {Sulfolobus solfataricus}

Probab=99.23  E-value=3.7e-10  Score=108.69  Aligned_cols=268  Identities=11%  Similarity=0.014  Sum_probs=146.0

Q ss_pred             CceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCC-----------h---------------H
Q 038234           75 SEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDK-----------D---------------F  128 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~-----------~---------------~  128 (406)
                      ..++||+.+++++.+++.....  ....+.+.|+|++|+|||+||+.+++..           .               .
T Consensus        20 ~~l~gr~~~~~~l~~~l~~~~~--~~~~~~vll~G~~G~GKT~la~~l~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~   97 (384)
T 2qby_B           20 KEIPFREDILRDAAIAIRYFVK--NEVKFSNLFLGLTGTGKTFVSKYIFNEIEEVKKEDEEYKDVKQAYVNCREVGGTPQ   97 (384)
T ss_dssp             SSCTTCHHHHHHHHHHHHHHHT--TCCCCEEEEEECTTSSHHHHHHHHHHHHHHHHHHSSSSTTCEEEEEEHHHHCSCHH
T ss_pred             CCCCChHHHHHHHHHHHHHHHc--CCCCCcEEEECCCCCCHHHHHHHHHHHHHHHhhhhcCCCCceEEEEECccCCCCHH
Confidence            6799999999999988764211  2335689999999999999999988642           1               1


Q ss_pred             HHHHHHHHHhcCCCC--CCCCHHHHHHHHHhhccCcceeEEeeCCCCcCccC-cch-hhhccCCCCCCcEEEEecCChHH
Q 038234          129 RVAKAIIAALGCETS--NLGSLQSLVRCISESIEGKKYLVVLDDVWTDDYTK-WEP-FQRCSANGQCGNNILVTTHKKTV  204 (406)
Q Consensus       129 ~~~~~i~~~l~~~~~--~~~~~~~~~~~l~~~l~~kr~LlVlDdvw~~~~~~-~~~-l~~~l~~~~~gs~IivTtR~~~v  204 (406)
                      .+...++..+.....  ...+...+...+.+.+..++.+|||||++...... .+. +...+... .+..||+||+....
T Consensus        98 ~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~vlilDEi~~l~~~~~~~~~l~~l~~~~-~~~~iI~~t~~~~~  176 (384)
T 2qby_B           98 AVLSSLAGKLTGFSVPKHGINLGEYIDKIKNGTRNIRAIIYLDEVDTLVKRRGGDIVLYQLLRSD-ANISVIMISNDINV  176 (384)
T ss_dssp             HHHHHHHHHHHCSCCCSSSSCTHHHHHHHHHHHSSSCEEEEEETTHHHHHSTTSHHHHHHHHTSS-SCEEEEEECSSTTT
T ss_pred             HHHHHHHHHhcCCCCCCCCCCHHHHHHHHHHHhccCCCEEEEECHHHhccCCCCceeHHHHhcCC-cceEEEEEECCCch
Confidence            334455555532211  12234566667777777666699999996543222 222 22222222 57788888886521


Q ss_pred             ----HHHh-cc-CCccccCCCChHHHHHhhhhhcc---c-cch-hHHHHHHhhhhc---chh------hHHhhhhhccch
Q 038234          205 ----ARMM-ES-TNFISIKELSTQECWSLFKQESS---A-KPC-LLLQKLLGVSCA---LKE------LEMSGKNSLDSE  264 (406)
Q Consensus       205 ----~~~~-~~-~~~~~l~~L~~~~a~~Lf~~~~i---~-~~c-PLai~~~g~~L~---~~~------~~~~w~~~~~~~  264 (406)
                          .... .. ...+.+.+++.++...+|...+-   . ..+ |-++..++..-.   .+.      ....+.......
T Consensus       177 ~~~l~~~l~sr~~~~i~l~~l~~~~~~~il~~~~~~~~~~~~~~~~~~~~i~~~~~~~~G~~r~a~~~l~~a~~~a~~~~  256 (384)
T 2qby_B          177 RDYMEPRVLSSLGPSVIFKPYDAEQLKFILSKYAEYGLIKGTYDDEILSYIAAISAKEHGDARKAVNLLFRAAQLASGGG  256 (384)
T ss_dssp             TTTSCHHHHHTCCCEEEECCCCHHHHHHHHHHHHHHTSCTTSCCSHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHTTSSS
T ss_pred             HhhhCHHHHhcCCCeEEECCCCHHHHHHHHHHHHHhhcccCCcCHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHhcCCC
Confidence                1111 11 24899999999999999987641   1 111 323333322221   110      000111000000


Q ss_pred             ---hhhhhh-hhhhHHHHHHhccccCChhhhhHHhhhcccCCCCccCHHHHHHHHHHCCCcccccCCCHHHHHHHHHHHH
Q 038234          265 ---LWQLQE-LEKDLFSLLLLNYYDLPYRIKQCFRYCFISPKDSCIWKEDLIKLWIAQSFIEAKENKEMEIIDEEYFDYL  340 (406)
Q Consensus       265 ---~~~~~~-~~~~~~~~l~~sy~~L~~~~k~cfl~la~Fp~~~~i~~~~Li~~W~aeg~i~~~~~~~~e~~~~~~l~~L  340 (406)
                         ...... ........+..++..|+++.+..+..++....+-.+. +......-..|.    ... ......+++..|
T Consensus       257 ~i~~~~v~~~~~~~~~~~~~~~~~~l~~~~~~~l~al~~~~~~~~~~-~~~~~~~~~~g~----~~~-~~~~~~~~l~~L  330 (384)
T 2qby_B          257 IIRKEHVDKAIVDYEQERLIEAVKALPFHYKLALRSLIESEDVMSAH-KMYTDLCNKFKQ----KPL-SYRRFSDIISEL  330 (384)
T ss_dssp             CCCHHHHHHHHHHHHHHHHHHHHHSSCHHHHHHHHHHHTCCBHHHHH-HHHHHHHHHTTC----CCC-CHHHHHHHHHHH
T ss_pred             ccCHHHHHHHHHHHhcchHHHHHHcCCHHHHHHHHHHHHhcccChHH-HHHHHHHHHcCC----CCC-CHHHHHHHHHHH
Confidence               000000 1111123456677889988888877777611100110 111121212221    111 234566889999


Q ss_pred             HhcCCcceeec
Q 038234          341 TARSFFQEFHK  351 (406)
Q Consensus       341 ~~~sll~~~~~  351 (406)
                      ..+++++....
T Consensus       331 ~~~gli~~~~~  341 (384)
T 2qby_B          331 DMFGIVKIRII  341 (384)
T ss_dssp             HHTTSEEEEEE
T ss_pred             HhCCCEEEEec
Confidence            99999987554

>1njg_A DNA polymerase III subunit gamma; rossman-like fold, AAA+ ATPase domains, sensor 1, sensor 2, transferase; HET: DNA; 2.20A {Escherichia coli} SCOP: c.37.1.20 PDB: 1njf_A*

Probab=99.02  E-value=1.4e-10  Score=103.66  Aligned_cols=152  Identities=11%  Similarity=0.155  Sum_probs=95.2

Q ss_pred             CceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChH------------HHHHHHHHHhcCC-
Q 038234           75 SEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDF------------RVAKAIIAALGCE-  141 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~------------~~~~~i~~~l~~~-  141 (406)
                      .+++||+..++.+..++....     ..+.+.|+|++|+||||||+.+++....            .....+....... 
T Consensus        23 ~~~~g~~~~~~~l~~~l~~~~-----~~~~~ll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   97 (250)
T 1njg_A           23 ADVVGQEHVLTALANGLSLGR-----IHHAYLFSGTRGVGKTSIARLLAKGLNCETGITATPCGVCDNCREIEQGRFVDL   97 (250)
T ss_dssp             GGCCSCHHHHHHHHHHHHHTC-----CCSEEEEECSTTSCHHHHHHHHHHHHHCTTCSCSSCCSCSHHHHHHHTTCCSSE
T ss_pred             HHHhCcHHHHHHHHHHHHcCC-----CCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCcccHHHHHHhccCCcce
Confidence            468999999999999997532     2358899999999999999988764321            0000110000000 


Q ss_pred             ----CCCCCCHHHHHHHHHhh----ccCcceeEEeeCCCCcCccCcchhhhccCCCCCCcEEEEecCChH-HHH-HhccC
Q 038234          142 ----TSNLGSLQSLVRCISES----IEGKKYLVVLDDVWTDDYTKWEPFQRCSANGQCGNNILVTTHKKT-VAR-MMEST  211 (406)
Q Consensus       142 ----~~~~~~~~~~~~~l~~~----l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTtR~~~-v~~-~~~~~  211 (406)
                          .......+.+...+...    ..+++.+||+||++..+...++.+...+.....+..+|+||+... +.. .....
T Consensus        98 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vlviDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~t~~~~~~~~~l~~r~  177 (250)
T 1njg_A           98 IEIDAASRTKVEDTRDLLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTILSRC  177 (250)
T ss_dssp             EEEETTCGGGHHHHHHHHHSCCCSCSSSSSEEEEEETGGGSCHHHHHHHHHHHHSCCTTEEEEEEESCGGGSCHHHHTTS
T ss_pred             EEecCcccccHHHHHHHHHHhhhchhcCCceEEEEECcccccHHHHHHHHHHHhcCCCceEEEEEeCChHhCCHHHHHHh
Confidence                01111222333333322    245789999999976555556666666655556778888887643 111 11224


Q ss_pred             CccccCCCChHHHHHhhhhh
Q 038234          212 NFISIKELSTQECWSLFKQE  231 (406)
Q Consensus       212 ~~~~l~~L~~~~a~~Lf~~~  231 (406)
                      ..+.+.+++.++..+++...
T Consensus       178 ~~i~l~~l~~~e~~~~l~~~  197 (250)
T 1njg_A          178 LQFHLKALDVEQIRHQLEHI  197 (250)
T ss_dssp             EEEECCCCCHHHHHHHHHHH
T ss_pred             hhccCCCCCHHHHHHHHHHH
Confidence            67899999999999988764

>2qby_A CDC6 homolog 1, cell division control protein 6 homolog 1; winged-helix domain, helix-turn-helix, AAA+ ATPase domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A {Sulfolobus solfataricus}

Probab=99.01  E-value=1.8e-10  Score=110.70  Aligned_cols=157  Identities=16%  Similarity=0.215  Sum_probs=96.3

Q ss_pred             CCceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCC--------hH------------HHHHH
Q 038234           74 ESEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDK--------DF------------RVAKA  133 (406)
Q Consensus        74 ~~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~--------~~------------~~~~~  133 (406)
                      +..|+||+.+++.+.+++.....  ......+.|+|++|+||||||+.+++..        ..            .+...
T Consensus        19 p~~~~gr~~e~~~l~~~l~~~~~--~~~~~~vli~G~~G~GKTtl~~~l~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~   96 (386)
T 2qby_A           19 PDELPHREDQIRKIASILAPLYR--EEKPNNIFIYGLTGTGKTAVVKFVLSKLHKKFLGKFKHVYINTRQIDTPYRVLAD   96 (386)
T ss_dssp             CSCCTTCHHHHHHHHHSSGGGGG--TCCCCCEEEEECTTSSHHHHHHHHHHHHHHHTCSSCEEEEEEHHHHCSHHHHHHH
T ss_pred             CCCCCChHHHHHHHHHHHHHHHc--CCCCCeEEEECCCCCCHHHHHHHHHHHHHHHhcCCceEEEEECCCCCCHHHHHHH
Confidence            36799999999999998874211  2335688999999999999999988743        11            23334


Q ss_pred             HHHHhcCCCCC-CCCHHHHHHHHHhhcc--CcceeEEeeCCCCcC----ccCcchhhhccCC-CCCCcEEEEecCChHHH
Q 038234          134 IIAALGCETSN-LGSLQSLVRCISESIE--GKKYLVVLDDVWTDD----YTKWEPFQRCSAN-GQCGNNILVTTHKKTVA  205 (406)
Q Consensus       134 i~~~l~~~~~~-~~~~~~~~~~l~~~l~--~kr~LlVlDdvw~~~----~~~~~~l~~~l~~-~~~gs~IivTtR~~~v~  205 (406)
                      ++..++...+. ..+...+...+.+.+.  +++.+||||+++...    ...+..+...+.. ...+..+|+||+.....
T Consensus        97 i~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDE~~~l~~~~~~~~l~~l~~~~~~~~~~~~~~I~~~~~~~~~  176 (386)
T 2qby_A           97 LLESLDVKVPFTGLSIAELYRRLVKAVRDYGSQVVIVLDEIDAFVKKYNDDILYKLSRINSEVNKSKISFIGITNDVKFV  176 (386)
T ss_dssp             HTTTTSCCCCSSSCCHHHHHHHHHHHHHTCCSCEEEEEETHHHHHHSSCSTHHHHHHHHHHSCCC--EEEEEEESCGGGG
T ss_pred             HHHHhCCCCCCCCCCHHHHHHHHHHHHhccCCeEEEEEcChhhhhccCcCHHHHHHhhchhhcCCCeEEEEEEECCCChH
Confidence            44444322211 1234455555555543  458999999996532    1222233332321 23355677777765432


Q ss_pred             HHhc-----c--CCccccCCCChHHHHHhhhhhc
Q 038234          206 RMME-----S--TNFISIKELSTQECWSLFKQES  232 (406)
Q Consensus       206 ~~~~-----~--~~~~~l~~L~~~~a~~Lf~~~~  232 (406)
                      ..+.     .  ...+.+.+++.++..+++...+
T Consensus       177 ~~~~~~~~~r~~~~~i~l~~l~~~~~~~il~~~~  210 (386)
T 2qby_A          177 DLLDPRVKSSLSEEEIIFPPYNAEELEDILTKRA  210 (386)
T ss_dssp             GGCTTHHHHTTTTEEEEECCCCHHHHHHHHHHHH
T ss_pred             hhhCHHHhccCCCeeEEeCCCCHHHHHHHHHHHH
Confidence            2211     1  2478999999999999998753

>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=98.95  E-value=3.9e-10  Score=99.43  Aligned_cols=149  Identities=12%  Similarity=0.064  Sum_probs=92.4

Q ss_pred             CceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChHHHHHHHHHHhcCCCCCCCCHHHHHHH
Q 038234           75 SEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDFRVAKAIIAALGCETSNLGSLQSLVRC  154 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~  154 (406)
                      ..++|++..++.+.+++....      ...+.|+|++|+|||+||+.+++..........+..+  ..........+...
T Consensus        17 ~~~~g~~~~~~~l~~~l~~~~------~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~   88 (226)
T 2chg_A           17 DEVVGQDEVIQRLKGYVERKN------IPHLLFSGPPGTGKTATAIALARDLFGENWRDNFIEM--NASDERGIDVVRHK   88 (226)
T ss_dssp             GGCCSCHHHHHHHHHHHHTTC------CCCEEEECSTTSSHHHHHHHHHHHHHGGGGGGGEEEE--ETTCTTCHHHHHHH
T ss_pred             HHHcCcHHHHHHHHHHHhCCC------CCeEEEECCCCCCHHHHHHHHHHHHhccccccceEEe--ccccccChHHHHHH
Confidence            468999999999999997532      2238999999999999999887642110000000000  01112223333333


Q ss_pred             HHhhc------cCcceeEEeeCCCCcCccCcchhhhccCCCCCCcEEEEecCChHH-HH-HhccCCccccCCCChHHHHH
Q 038234          155 ISESI------EGKKYLVVLDDVWTDDYTKWEPFQRCSANGQCGNNILVTTHKKTV-AR-MMESTNFISIKELSTQECWS  226 (406)
Q Consensus       155 l~~~l------~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTtR~~~v-~~-~~~~~~~~~l~~L~~~~a~~  226 (406)
                      +....      .+++.+||+||++.......+.+...+.....+..+|+||+.... .. .......+.+.+++.++...
T Consensus        89 ~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~~~~~~l~~r~~~i~~~~~~~~~~~~  168 (226)
T 2chg_A           89 IKEFARTAPIGGAPFKIIFLDEADALTADAQAALRRTMEMYSKSCRFILSCNYVSRIIEPIQSRCAVFRFKPVPKEAMKK  168 (226)
T ss_dssp             HHHHHTSCCSTTCSCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEEEECCCCCHHHHHH
T ss_pred             HHHHhcccCCCccCceEEEEeChhhcCHHHHHHHHHHHHhcCCCCeEEEEeCChhhcCHHHHHhCceeecCCCCHHHHHH
Confidence            33332      367889999999665444455565555544557788888876431 11 11223478999999999988


Q ss_pred             hhhhh
Q 038234          227 LFKQE  231 (406)
Q Consensus       227 Lf~~~  231 (406)
                      ++.+.
T Consensus       169 ~l~~~  173 (226)
T 2chg_A          169 RLLEI  173 (226)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            88764

>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=98.88  E-value=1.6e-09  Score=101.63  Aligned_cols=150  Identities=17%  Similarity=0.159  Sum_probs=95.1

Q ss_pred             CceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChHHHHHHHHHHhcCCCCCCCCHHHHHHH
Q 038234           75 SEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDFRVAKAIIAALGCETSNLGSLQSLVRC  154 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~  154 (406)
                      ..++|++..++.+.+++....      ...+.|+|++|+|||++|+.+++.........  ..+..........+.+...
T Consensus        21 ~~~~g~~~~~~~l~~~l~~~~------~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~--~~~~~~~~~~~~~~~i~~~   92 (323)
T 1sxj_B           21 SDIVGNKETIDRLQQIAKDGN------MPHMIISGMPGIGKTTSVHCLAHELLGRSYAD--GVLELNASDDRGIDVVRNQ   92 (323)
T ss_dssp             GGCCSCTHHHHHHHHHHHSCC------CCCEEEECSTTSSHHHHHHHHHHHHHGGGHHH--HEEEECTTSCCSHHHHHTH
T ss_pred             HHHHCCHHHHHHHHHHHHcCC------CCeEEEECcCCCCHHHHHHHHHHHhcCCcccC--CEEEecCccccChHHHHHH
Confidence            468999999999999987532      22389999999999999999876531100000  0111111122233444333


Q ss_pred             HHhhc-------cCcceeEEeeCCCCcCccCcchhhhccCCCCCCcEEEEecCChH-HHHH-hccCCccccCCCChHHHH
Q 038234          155 ISESI-------EGKKYLVVLDDVWTDDYTKWEPFQRCSANGQCGNNILVTTHKKT-VARM-MESTNFISIKELSTQECW  225 (406)
Q Consensus       155 l~~~l-------~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTtR~~~-v~~~-~~~~~~~~l~~L~~~~a~  225 (406)
                      +....       .+++.++|+||++......++.+...+.....++.+|+||.... +... ......+.+.+++.++..
T Consensus        93 ~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~il~~~~~~~l~~~l~sr~~~i~~~~~~~~~~~  172 (323)
T 1sxj_B           93 IKHFAQKKLHLPPGKHKIVILDEADSMTAGAQQALRRTMELYSNSTRFAFACNQSNKIIEPLQSQCAILRYSKLSDEDVL  172 (323)
T ss_dssp             HHHHHHBCCCCCTTCCEEEEEESGGGSCHHHHHTTHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEEEECCCCCHHHHH
T ss_pred             HHHHHhccccCCCCCceEEEEECcccCCHHHHHHHHHHHhccCCCceEEEEeCChhhchhHHHhhceEEeecCCCHHHHH
Confidence            33322       45689999999976554455556665554455678888876642 1111 123458899999999999


Q ss_pred             Hhhhhhc
Q 038234          226 SLFKQES  232 (406)
Q Consensus       226 ~Lf~~~~  232 (406)
                      .++...+
T Consensus       173 ~~l~~~~  179 (323)
T 1sxj_B          173 KRLLQII  179 (323)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            9988754

>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=98.74  E-value=6.2e-09  Score=97.76  Aligned_cols=263  Identities=11%  Similarity=0.076  Sum_probs=128.0

Q ss_pred             CceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChHHHHHHHHHHhcCCCCCCCCHHHHHHH
Q 038234           75 SEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDFRVAKAIIAALGCETSNLGSLQSLVRC  154 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~  154 (406)
                      ..++|++..+..+..++..... .......+.|+|++|+|||+||+.+++.....+       ............++...
T Consensus        12 ~~~ig~~~~~~~l~~~l~~~~~-~~~~~~~vll~G~~GtGKT~la~~i~~~~~~~~-------~~~~~~~~~~~~~l~~~   83 (324)
T 1hqc_A           12 DEYIGQERLKQKLRVYLEAAKA-RKEPLEHLLLFGPPGLGKTTLAHVIAHELGVNL-------RVTSGPAIEKPGDLAAI   83 (324)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHH-HCSCCCCCEEECCTTCCCHHHHHHHHHHHTCCE-------EEECTTTCCSHHHHHHH
T ss_pred             HHhhCHHHHHHHHHHHHHHHHc-cCCCCCcEEEECCCCCCHHHHHHHHHHHhCCCE-------EEEeccccCChHHHHHH
Confidence            5689999999988887753110 012245688999999999999999876421100       00011122233444444


Q ss_pred             HHhhccCcceeEEeeCCCCcCccCcchhhhccCCC------------------CCCcEEEEecCChH-HHHHh-cc-CCc
Q 038234          155 ISESIEGKKYLVVLDDVWTDDYTKWEPFQRCSANG------------------QCGNNILVTTHKKT-VARMM-ES-TNF  213 (406)
Q Consensus       155 l~~~l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~------------------~~gs~IivTtR~~~-v~~~~-~~-~~~  213 (406)
                      +...+ .+..+|+||++..........+...+...                  .++..+|.||.... +...+ .. ...
T Consensus        84 l~~~~-~~~~~l~lDEi~~l~~~~~~~L~~~l~~~~~~~v~~~~~~~~~~~~~~~~~~~i~~t~~~~~~~~~l~~R~~~~  162 (324)
T 1hqc_A           84 LANSL-EEGDILFIDEIHRLSRQAEEHLYPAMEDFVMDIVIGQGPAARTIRLELPRFTLIGATTRPGLITAPLLSRFGIV  162 (324)
T ss_dssp             HTTTC-CTTCEEEETTTTSCCHHHHHHHHHHHHHSEEEECCSSSSSCCCEEEECCCCEEEEEESCCSSCSCSTTTTCSCE
T ss_pred             HHHhc-cCCCEEEEECCcccccchHHHHHHHHHhhhhHHhccccccccccccCCCCEEEEEeCCCcccCCHHHHhcccEE
Confidence            43322 35679999999654432333333322211                  02345666555432 11111 11 357


Q ss_pred             cccCCCChHHHHHhhhhhcccc--ch-hHHHHHHhhhhcchhhHHhhhhhccch---h-----hhh-hhhhhhHHHHHHh
Q 038234          214 ISIKELSTQECWSLFKQESSAK--PC-LLLQKLLGVSCALKELEMSGKNSLDSE---L-----WQL-QELEKDLFSLLLL  281 (406)
Q Consensus       214 ~~l~~L~~~~a~~Lf~~~~i~~--~c-PLai~~~g~~L~~~~~~~~w~~~~~~~---~-----~~~-~~~~~~~~~~l~~  281 (406)
                      +.+.+++.++...++.+.+-..  .. |-++..+..+-..+  .......+...   .     ... ...-..+...+..
T Consensus       163 i~l~~~~~~e~~~~l~~~~~~~~~~~~~~~~~~l~~~~~G~--~r~l~~~l~~~~~~a~~~~~~~i~~~~~~~~~~~~~~  240 (324)
T 1hqc_A          163 EHLEYYTPEELAQGVMRDARLLGVRITEEAALEIGRRSRGT--MRVAKRLFRRVRDFAQVAGEEVITRERALEALAALGL  240 (324)
T ss_dssp             EECCCCCHHHHHHHHHHHHHTTTCCCCHHHHHHHHHHSCSC--HHHHHHHHHHHTTTSTTTSCSCCCHHHHHHHHHHHTC
T ss_pred             EecCCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHccCC--HHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhcc
Confidence            8999999999988887754111  12 44444444332111  11111111100   0     000 0011122333444


Q ss_pred             ccccCChhhhhHHhhhcc-cCCC----------CccCHHHHHH----HHHHCCCccc-ccCCCHHHHHHHHHH-HHHhcC
Q 038234          282 NYYDLPYRIKQCFRYCFI-SPKD----------SCIWKEDLIK----LWIAQSFIEA-KENKEMEIIDEEYFD-YLTARS  344 (406)
Q Consensus       282 sy~~L~~~~k~cfl~la~-Fp~~----------~~i~~~~Li~----~W~aeg~i~~-~~~~~~e~~~~~~l~-~L~~~s  344 (406)
                      .+..|+...+..+..+.- |..+          ..+++..+.+    +-+..|++.. ..+....+.|.+||+ ++.+|+
T Consensus       241 ~~~~l~~~e~~~i~~~~~~~~g~~~~~~~~a~~lgi~~~tl~~~l~~~~i~~~li~~~~~g~~~~~~~~~~~~~~~~~~~  320 (324)
T 1hqc_A          241 DELGLEKRDREILEVLILRFGGGPVGLATLATALSEDPGTLEEVHEPYLIRQGLLKRTPRGRVPTELAYRHLGYPPPVGP  320 (324)
T ss_dssp             CTTCCCHHHHHHHHHHHHHSCSSCCCHHHHHHHTTSCHHHHHHHTHHHHHHTTSEEEETTEEEECHHHHHHTTCCCCC--
T ss_pred             cccCCCHHHHHHHHHHHHHhcCCCchHHHHHHHhCCCHHHHHHHHhHHHHHhcchhcCCccceecHHHHHHHhcCCCCCC
Confidence            556677666666655443 3222          1133333322    3455677754 234455677777776 777777


Q ss_pred             Ccce
Q 038234          345 FFQE  348 (406)
Q Consensus       345 ll~~  348 (406)
                      ||||
T Consensus       321 ~~~~  324 (324)
T 1hqc_A          321 LLEP  324 (324)
T ss_dssp             ----
T ss_pred             CCCC
Confidence            7774

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=98.69  E-value=6.4e-09  Score=89.29  Aligned_cols=142  Identities=12%  Similarity=0.085  Sum_probs=79.3

Q ss_pred             CceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChHH----------H-HHHHHHHhcCCCC
Q 038234           75 SEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDFR----------V-AKAIIAALGCETS  143 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~----------~-~~~i~~~l~~~~~  143 (406)
                      ..++||+++++++.+.+...      ....+.|+|++|+|||+||+.+++.....          + ..........   
T Consensus        22 ~~~~g~~~~~~~l~~~l~~~------~~~~~ll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---   92 (195)
T 1jbk_A           22 DPVIGRDEEIRRTIQVLQRR------TKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMGALVAG---   92 (195)
T ss_dssp             CCCCSCHHHHHHHHHHHTSS------SSCEEEEECCTTSCHHHHHHHHHHHHHHTCSCGGGTTCEEEEECHHHHHTT---
T ss_pred             cccccchHHHHHHHHHHhcC------CCCceEEECCCCCCHHHHHHHHHHHHHhCCCchhhcCCcEEEeeHHHHhcc---
Confidence            45899999999999998742      24567899999999999999887653110          0 0000000000   


Q ss_pred             CCCCHHHHHHHHHhhc-----cCcceeEEeeCCCCcC--------ccCcchhhhccCCCCCCcEEEEecCChHHHHH---
Q 038234          144 NLGSLQSLVRCISESI-----EGKKYLVVLDDVWTDD--------YTKWEPFQRCSANGQCGNNILVTTHKKTVARM---  207 (406)
Q Consensus       144 ~~~~~~~~~~~l~~~l-----~~kr~LlVlDdvw~~~--------~~~~~~l~~~l~~~~~gs~IivTtR~~~v~~~---  207 (406)
                       ..........+...+     .+++.+|||||++...        ......+...+..  .+..+|+||........   
T Consensus        93 -~~~~~~~~~~~~~~~~~~~~~~~~~vl~iDe~~~l~~~~~~~~~~~~~~~l~~~~~~--~~~~~i~~~~~~~~~~~~~~  169 (195)
T 1jbk_A           93 -AKYRGEFEERLKGVLNDLAKQEGNVILFIDELHTMVGAGKADGAMDAGNMLKPALAR--GELHCVGATTLDEYRQYIEK  169 (195)
T ss_dssp             -TCSHHHHHHHHHHHHHHHHHSTTTEEEEEETGGGGTT------CCCCHHHHHHHHHT--TSCCEEEEECHHHHHHHTTT
T ss_pred             -CCccccHHHHHHHHHHHHhhcCCCeEEEEeCHHHHhccCcccchHHHHHHHHHhhcc--CCeEEEEeCCHHHHHHHHhc
Confidence             011111112222221     3567899999996532        1112223332222  23456666665443211   


Q ss_pred             ----hccCCccccCCCChHHHHHhh
Q 038234          208 ----MESTNFISIKELSTQECWSLF  228 (406)
Q Consensus       208 ----~~~~~~~~l~~L~~~~a~~Lf  228 (406)
                          ......+.+.+++.++..+++
T Consensus       170 ~~~l~~r~~~i~~~~p~~~~~~~il  194 (195)
T 1jbk_A          170 DAALERRFQKVFVAEPSVEDTIAIL  194 (195)
T ss_dssp             CHHHHTTEEEEECCCCCHHHHHTTC
T ss_pred             CHHHHHHhceeecCCCCHHHHHHHh
Confidence                122335889999998887765

>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=98.60  E-value=1.5e-08  Score=95.09  Aligned_cols=150  Identities=11%  Similarity=0.108  Sum_probs=91.3

Q ss_pred             CceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChHHHHHHHHHHhcCCCCCCCCHHHHHHH
Q 038234           75 SEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDFRVAKAIIAALGCETSNLGSLQSLVRC  154 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~  154 (406)
                      .+++|++..++.+.+++...      ....+.|+|++|+|||++|+.+++.............+.  ..+....+.+...
T Consensus        25 ~~~~g~~~~~~~l~~~l~~~------~~~~~ll~G~~G~GKT~la~~l~~~l~~~~~~~~~~~~~--~~~~~~~~~~~~~   96 (327)
T 1iqp_A           25 DDIVGQEHIVKRLKHYVKTG------SMPHLLFAGPPGVGKTTAALALARELFGENWRHNFLELN--ASDERGINVIREK   96 (327)
T ss_dssp             TTCCSCHHHHHHHHHHHHHT------CCCEEEEESCTTSSHHHHHHHHHHHHHGGGHHHHEEEEE--TTCHHHHHTTHHH
T ss_pred             HHhhCCHHHHHHHHHHHHcC------CCCeEEEECcCCCCHHHHHHHHHHHhcCCcccCceEEee--ccccCchHHHHHH
Confidence            45899999999999998753      233489999999999999999887532100000000011  0110011111111


Q ss_pred             HHhh-----c-cCcceeEEeeCCCCcCccCcchhhhccCCCCCCcEEEEecCChH-HHHH-hccCCccccCCCChHHHHH
Q 038234          155 ISES-----I-EGKKYLVVLDDVWTDDYTKWEPFQRCSANGQCGNNILVTTHKKT-VARM-MESTNFISIKELSTQECWS  226 (406)
Q Consensus       155 l~~~-----l-~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTtR~~~-v~~~-~~~~~~~~l~~L~~~~a~~  226 (406)
                      +...     + .+++.++|+||++......++.+...+.....++++|+||.... +... ......+.+.+++.++...
T Consensus        97 ~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~L~~~le~~~~~~~~i~~~~~~~~l~~~l~sr~~~~~~~~l~~~~~~~  176 (327)
T 1iqp_A           97 VKEFARTKPIGGASFKIIFLDEADALTQDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQSRCAIFRFRPLRDEDIAK  176 (327)
T ss_dssp             HHHHHHSCCGGGCSCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHTEEEEECCCCCHHHHHH
T ss_pred             HHHHHhhCCcCCCCCeEEEEeCCCcCCHHHHHHHHHHHHhcCCCCeEEEEeCCccccCHHHHhhCcEEEecCCCHHHHHH
Confidence            2211     2 26788999999976554555566666655455778888887642 1111 1223478999999999999


Q ss_pred             hhhhhc
Q 038234          227 LFKQES  232 (406)
Q Consensus       227 Lf~~~~  232 (406)
                      ++...+
T Consensus       177 ~l~~~~  182 (327)
T 1iqp_A          177 RLRYIA  182 (327)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            887654

>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR complex, HMR, HML, TELO AAA+ domain, structural, nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}

Probab=98.59  E-value=7.9e-08  Score=89.45  Aligned_cols=153  Identities=12%  Similarity=0.052  Sum_probs=92.5

Q ss_pred             ceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChH------------------------HHH
Q 038234           76 EICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDF------------------------RVA  131 (406)
Q Consensus        76 ~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~------------------------~~~  131 (406)
                      .+.||+++++++...|...-.  ......+.|+|++|+|||++++.+++....                        .+.
T Consensus        21 ~L~~Re~E~~~i~~~L~~~i~--~~~~~~lli~GpPGTGKT~~v~~v~~~L~~~~~~~~~~~~~~v~INc~~~~t~~~~~   98 (318)
T 3te6_A           21 LLKSQVEDFTRIFLPIYDSLM--SSQNKLFYITNADDSTKFQLVNDVMDELITSSARKELPIFDYIHIDALELAGMDALY   98 (318)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHH--TTCCCEEEEECCCSHHHHHHHHHHHHHHHHTTTTTSSCCEEEEEEETTCCC--HHHH
T ss_pred             ccCCHHHHHHHHHHHHHHHhc--CCCCCeEEEECCCCCCHHHHHHHHHHHHHHHhhhccCCceEEEEEeccccCCHHHHH
Confidence            378999999999887764321  345678899999999999999999875421                        567


Q ss_pred             HHHHHHhcCCCCCCC-CHHHHHHHHHhh--ccCcceeEEeeCCCCcCccCcchhhhccC--CCC-CCcEEEEecCCh---
Q 038234          132 KAIIAALGCETSNLG-SLQSLVRCISES--IEGKKYLVVLDDVWTDDYTKWEPFQRCSA--NGQ-CGNNILVTTHKK---  202 (406)
Q Consensus       132 ~~i~~~l~~~~~~~~-~~~~~~~~l~~~--l~~kr~LlVlDdvw~~~~~~~~~l~~~l~--~~~-~gs~IivTtR~~---  202 (406)
                      ..++.++.+...... ..+.+...+...  -.+++++++||++..-.  .-+.+...+.  ... ....||.++..-   
T Consensus        99 ~~I~~~L~g~~~~~~~~~~~L~~~f~~~~~~~~~~~ii~lDE~d~l~--~q~~L~~l~~~~~~~~s~~~vI~i~n~~d~~  176 (318)
T 3te6_A           99 EKIWFAISKENLCGDISLEALNFYITNVPKAKKRKTLILIQNPENLL--SEKILQYFEKWISSKNSKLSIICVGGHNVTI  176 (318)
T ss_dssp             HHHHHHHSCCC--CCCCHHHHHHHHHHSCGGGSCEEEEEEECCSSSC--CTHHHHHHHHHHHCSSCCEEEEEECCSSCCC
T ss_pred             HHHHHHhcCCCCCchHHHHHHHHHHHHhhhccCCceEEEEecHHHhh--cchHHHHHHhcccccCCcEEEEEEecCcccc
Confidence            788888865432222 233333333332  24678999999995432  2223333221  111 122333333321   


Q ss_pred             H--HHHHh-cc--CCccccCCCChHHHHHhhhhhc
Q 038234          203 T--VARMM-ES--TNFISIKELSTQECWSLFKQES  232 (406)
Q Consensus       203 ~--v~~~~-~~--~~~~~l~~L~~~~a~~Lf~~~~  232 (406)
                      .  +.... ..  ...+.+.+++.++-..++.+++
T Consensus       177 ~~~L~~~v~SR~~~~~i~F~pYt~~el~~Il~~Rl  211 (318)
T 3te6_A          177 REQINIMPSLKAHFTEIKLNKVDKNELQQMIITRL  211 (318)
T ss_dssp             HHHHHTCHHHHTTEEEEECCCCCHHHHHHHHHHHH
T ss_pred             hhhcchhhhccCCceEEEeCCCCHHHHHHHHHHHH
Confidence            1  11111 11  2468999999999999888765

>1jr3_A DNA polymerase III subunit gamma; processivity, processivity clamp, clamp loader, AAA+ ATPase, transferase; HET: DNA; 2.70A {Escherichia coli} SCOP: a.80.1.1 c.37.1.20 PDB: 1xxh_B* 3glh_B* 3glf_B* 3gli_B* 3glg_B* 1xxi_B*

Probab=98.53  E-value=1.8e-07  Score=89.45  Aligned_cols=153  Identities=11%  Similarity=0.180  Sum_probs=94.5

Q ss_pred             CceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChH------------HHHHHHHHHh----
Q 038234           75 SEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDF------------RVAKAIIAAL----  138 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~------------~~~~~i~~~l----  138 (406)
                      .+++|++..++.+.+.+...     ...+.+.|+|++|+|||++|+.+++....            .....+....    
T Consensus        16 ~~~vg~~~~~~~L~~~l~~~-----~~~~~~ll~G~~G~GKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~   90 (373)
T 1jr3_A           16 ADVVGQEHVLTALANGLSLG-----RIHHAYLFSGTRGVGKTSIARLLAKGLNCETGITATPCGVCDNCREIEQGRFVDL   90 (373)
T ss_dssp             TTSCSCHHHHHHHHHHHHHT-----CCCSEEEEESCTTSSHHHHHHHHHHHHSCTTCSCSSCCSSSHHHHHHHTSCCSSC
T ss_pred             hhccCcHHHHHHHHHHHHhC-----CCCeEEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCcccHHHHHHhccCCCce
Confidence            45899999999999998753     22457889999999999999988753211            0111111000    


Q ss_pred             ---cCC-CCCCCCHHHHHHHHHhh-ccCcceeEEeeCCCCcCccCcchhhhccCCCCCCcEEEEecCChH-HHH-HhccC
Q 038234          139 ---GCE-TSNLGSLQSLVRCISES-IEGKKYLVVLDDVWTDDYTKWEPFQRCSANGQCGNNILVTTHKKT-VAR-MMEST  211 (406)
Q Consensus       139 ---~~~-~~~~~~~~~~~~~l~~~-l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTtR~~~-v~~-~~~~~  211 (406)
                         ... .........+...+... ..+++.++|+||++..+....+.+...+.....+..+|++|.... +.. .....
T Consensus        91 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~Ll~~le~~~~~~~~Il~~~~~~~l~~~l~sr~  170 (373)
T 1jr3_A           91 IEIDAASRTKVEDTRDLLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTILSRC  170 (373)
T ss_dssp             EEEETTCSCCSSCHHHHHHHTTSCCSSSSSEEEEEECGGGSCHHHHHHHHHHHHSCCSSEEEEEEESCGGGSCHHHHTTS
T ss_pred             EEecccccCCHHHHHHHHHHHhhccccCCeEEEEEECcchhcHHHHHHHHHHHhcCCCceEEEEEeCChHhCcHHHHhhe
Confidence               000 01123344444443322 246778999999976554555666666655455667777766432 111 12234


Q ss_pred             CccccCCCChHHHHHhhhhhc
Q 038234          212 NFISIKELSTQECWSLFKQES  232 (406)
Q Consensus       212 ~~~~l~~L~~~~a~~Lf~~~~  232 (406)
                      ..+.+.+++.++...++.+.+
T Consensus       171 ~~i~~~~l~~~~~~~~l~~~~  191 (373)
T 1jr3_A          171 LQFHLKALDVEQIRHQLEHIL  191 (373)
T ss_dssp             EEEECCCCCHHHHHHHHHHHH
T ss_pred             eEeeCCCCCHHHHHHHHHHHH
Confidence            678999999999998887644

>2chq_A Replication factor C small subunit; DNA-binding protein, DNA replication, clamp loader, AAA+ ATP ATP-binding, nucleotide-binding; HET: ANP; 3.5A {Archaeoglobus fulgidus} PDB: 2chv_A

Probab=98.53  E-value=6.2e-08  Score=90.43  Aligned_cols=152  Identities=11%  Similarity=0.077  Sum_probs=91.6

Q ss_pred             CceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChHHHHHHHHHHhcCCC-CCCCCHHHHHH
Q 038234           75 SEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDFRVAKAIIAALGCET-SNLGSLQSLVR  153 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~~~i~~~l~~~~-~~~~~~~~~~~  153 (406)
                      .+++|++..++.+.+++...      ....+.++|++|+|||++|+.+++.............+.... ...........
T Consensus        17 ~~~~g~~~~~~~l~~~l~~~------~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~   90 (319)
T 2chq_A           17 DEVVGQDEVIQRLKGYVERK------NIPHLLFSGPPGTGKTATAIALARDLFGENWRDNFIEMNASDERGIDVVRHKIK   90 (319)
T ss_dssp             GGSCSCHHHHHHHHTTTTTT------CCCCEEEESSSSSSHHHHHHHHHHHHHTTCHHHHCEEEETTSTTCTTTSSHHHH
T ss_pred             HHHhCCHHHHHHHHHHHhCC------CCCeEEEECcCCcCHHHHHHHHHHHhcCCcccCCeEEEeCccccChHHHHHHHH
Confidence            45899999999988888642      222389999999999999998876531000000000111111 11122222222


Q ss_pred             HHHhh--c-cCcceeEEeeCCCCcCccCcchhhhccCCCCCCcEEEEecCChH-HHHH-hccCCccccCCCChHHHHHhh
Q 038234          154 CISES--I-EGKKYLVVLDDVWTDDYTKWEPFQRCSANGQCGNNILVTTHKKT-VARM-MESTNFISIKELSTQECWSLF  228 (406)
Q Consensus       154 ~l~~~--l-~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTtR~~~-v~~~-~~~~~~~~l~~L~~~~a~~Lf  228 (406)
                      .+...  + .+++.++|+|++........+.+...+.....++.+|+||.... +... ......+.+.+++.++...++
T Consensus        91 ~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~L~~~le~~~~~~~~i~~~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l  170 (319)
T 2chq_A           91 EFARTAPIGGAPFKIIFLDEADALTADAQAALRRTMEMYSKSCRFILSCNYVSRIIEPIQSRCAVFRFKPVPKEAMKKRL  170 (319)
T ss_dssp             HHHHSCCSSSCCCEEEEEETGGGSCHHHHHTTGGGTSSSSSSEEEEEEESCGGGSCHHHHTTCEEEECCCCCHHHHHHHH
T ss_pred             HHHhcCCCCCCCceEEEEeCCCcCCHHHHHHHHHHHHhcCCCCeEEEEeCChhhcchHHHhhCeEEEecCCCHHHHHHHH
Confidence            22211  2 26688999999965544445556666665556777887776543 1111 122457899999999998888


Q ss_pred             hhhc
Q 038234          229 KQES  232 (406)
Q Consensus       229 ~~~~  232 (406)
                      ...+
T Consensus       171 ~~~~  174 (319)
T 2chq_A          171 LEIC  174 (319)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            7654

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=98.30  E-value=1.5e-07  Score=86.60  Aligned_cols=155  Identities=14%  Similarity=0.147  Sum_probs=83.3

Q ss_pred             CceecchhhHHHHHHHHhcCCCC-------CCCCcEEEEEeeeCCCcHHHHHHHHhcCChHHHHHHHHHHhcCCCCCCCC
Q 038234           75 SEICGRDYKKNELLSKLLSDSSD-------QQKPIKMISIVGMGGIGKITLAQMAYNDKDFRVAKAIIAALGCETSNLGS  147 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~-------~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~~~i~~~l~~~~~~~~~  147 (406)
                      .+++|.+..+++|.+.+......       +....+.+.|+|++|+|||+||+.+++.....+.......+...  ....
T Consensus        17 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~G~~GtGKT~la~~la~~~~~~~~~v~~~~~~~~--~~~~   94 (285)
T 3h4m_A           17 EDIGGLEKQMQEIREVVELPLKHPELFEKVGIEPPKGILLYGPPGTGKTLLAKAVATETNATFIRVVGSELVKK--FIGE   94 (285)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCHHHHHHHCCCCCSEEEEESSSSSSHHHHHHHHHHHTTCEEEEEEGGGGCCC--STTH
T ss_pred             HHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHHHhCCCEEEEehHHHHHh--ccch
Confidence            56899999999998877431000       01234568999999999999999997654321000000000000  0111


Q ss_pred             -HHHHHHHHHhhccCcceeEEeeCCCCc-----------CccCcchhhhcc---C--CCCCCcEEEEecCChHH-----H
Q 038234          148 -LQSLVRCISESIEGKKYLVVLDDVWTD-----------DYTKWEPFQRCS---A--NGQCGNNILVTTHKKTV-----A  205 (406)
Q Consensus       148 -~~~~~~~l~~~l~~kr~LlVlDdvw~~-----------~~~~~~~l~~~l---~--~~~~gs~IivTtR~~~v-----~  205 (406)
                       ...+...+......++.+|+||++...           +......+...+   .  ....+..||.||.....     .
T Consensus        95 ~~~~~~~~~~~~~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~~~~~~~vI~ttn~~~~l~~~l~  174 (285)
T 3h4m_A           95 GASLVKDIFKLAKEKAPSIIFIDEIDAIAAKRTDALTGGDREVQRTLMQLLAEMDGFDARGDVKIIGATNRPDILDPAIL  174 (285)
T ss_dssp             HHHHHHHHHHHHHHTCSEEEEEETTHHHHBCCSSSCCGGGGHHHHHHHHHHHHHHTTCSSSSEEEEEECSCGGGBCHHHH
T ss_pred             HHHHHHHHHHHHHHcCCeEEEEECHHHhcccCccccCCccHHHHHHHHHHHHHhhCCCCCCCEEEEEeCCCchhcCHHHc
Confidence             122223333334456789999999432           000011122221   1  12335667777765422     1


Q ss_pred             HHhccCCccccCCCChHHHHHhhhhh
Q 038234          206 RMMESTNFISIKELSTQECWSLFKQE  231 (406)
Q Consensus       206 ~~~~~~~~~~l~~L~~~~a~~Lf~~~  231 (406)
                      ....-...+.+...+.++..++|...
T Consensus       175 ~~~Rf~~~i~~~~p~~~~r~~il~~~  200 (285)
T 3h4m_A          175 RPGRFDRIIEVPAPDEKGRLEILKIH  200 (285)
T ss_dssp             STTSEEEEEECCCCCHHHHHHHHHHH
T ss_pred             CCCcCCeEEEECCCCHHHHHHHHHHH
Confidence            11011346888999999888888654

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=98.24  E-value=9e-08  Score=81.68  Aligned_cols=45  Identities=18%  Similarity=0.229  Sum_probs=37.5

Q ss_pred             CceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234           75 SEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ..++||+.+++.+.+.+...      ....+.|+|++|+|||+||+.+++.
T Consensus        22 ~~~~g~~~~~~~l~~~l~~~------~~~~vll~G~~G~GKT~la~~~~~~   66 (187)
T 2p65_A           22 DPVIGRDTEIRRAIQILSRR------TKNNPILLGDPGVGKTAIVEGLAIK   66 (187)
T ss_dssp             CCCCSCHHHHHHHHHHHTSS------SSCEEEEESCGGGCHHHHHHHHHHH
T ss_pred             chhhcchHHHHHHHHHHhCC------CCCceEEECCCCCCHHHHHHHHHHH
Confidence            46899999999999998642      2446789999999999999988764

>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli}

Probab=98.24  E-value=2.1e-06  Score=83.98  Aligned_cols=143  Identities=16%  Similarity=0.223  Sum_probs=83.1

Q ss_pred             CceecchhhH---HHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChHHHHHHHHHHhcCCCCCCCCHHHH
Q 038234           75 SEICGRDYKK---NELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDFRVAKAIIAALGCETSNLGSLQSL  151 (406)
Q Consensus        75 ~~~vGR~~~~---~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~~~i~~~l~~~~~~~~~~~~~  151 (406)
                      .+++|.+..+   ..+...+...      ....+.|+|++|+||||||+.+++.....+.     .+..   .......+
T Consensus        26 ~~ivGq~~~~~~~~~L~~~i~~~------~~~~vLL~GppGtGKTtlAr~ia~~~~~~f~-----~l~a---~~~~~~~i   91 (447)
T 3pvs_A           26 AQYIGQQHLLAAGKPLPRAIEAG------HLHSMILWGPPGTGKTTLAEVIARYANADVE-----RISA---VTSGVKEI   91 (447)
T ss_dssp             TTCCSCHHHHSTTSHHHHHHHHT------CCCEEEEECSTTSSHHHHHHHHHHHTTCEEE-----EEET---TTCCHHHH
T ss_pred             HHhCCcHHHHhchHHHHHHHHcC------CCcEEEEECCCCCcHHHHHHHHHHHhCCCeE-----EEEe---ccCCHHHH
Confidence            4688988777   6777777643      3467899999999999999998865421100     0000   11122222


Q ss_pred             HHHHHh----hccCcceeEEeeCCCCcCccCcchhhhccCCCCCCcEEEEecCChH--H-HHHhccCCccccCCCChHHH
Q 038234          152 VRCISE----SIEGKKYLVVLDDVWTDDYTKWEPFQRCSANGQCGNNILVTTHKKT--V-ARMMESTNFISIKELSTQEC  224 (406)
Q Consensus       152 ~~~l~~----~l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTtR~~~--v-~~~~~~~~~~~l~~L~~~~a  224 (406)
                      ...+..    ...+++.+|+||+++.......+.+...+.. +.-.-|..||.+..  + ........++.+.+++.++.
T Consensus        92 r~~~~~a~~~~~~~~~~iLfIDEI~~l~~~~q~~LL~~le~-~~v~lI~att~n~~~~l~~aL~sR~~v~~l~~l~~edi  170 (447)
T 3pvs_A           92 REAIERARQNRNAGRRTILFVDEVHRFNKSQQDAFLPHIED-GTITFIGATTENPSFELNSALLSRARVYLLKSLSTEDI  170 (447)
T ss_dssp             HHHHHHHHHHHHTTCCEEEEEETTTCC------CCHHHHHT-TSCEEEEEESSCGGGSSCHHHHTTEEEEECCCCCHHHH
T ss_pred             HHHHHHHHHhhhcCCCcEEEEeChhhhCHHHHHHHHHHHhc-CceEEEecCCCCcccccCHHHhCceeEEeeCCcCHHHH
Confidence            222211    1246788999999977655555566665554 22223334665542  1 12223355788999999998


Q ss_pred             HHhhhhhc
Q 038234          225 WSLFKQES  232 (406)
Q Consensus       225 ~~Lf~~~~  232 (406)
                      ..++.+..
T Consensus       171 ~~il~~~l  178 (447)
T 3pvs_A          171 EQVLTQAM  178 (447)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            88887653

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=98.22  E-value=5.5e-06  Score=77.98  Aligned_cols=148  Identities=11%  Similarity=0.122  Sum_probs=84.9

Q ss_pred             CceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChHHHHHHHHHHhcCCCCCCCCHHHHHHH
Q 038234           75 SEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDFRVAKAIIAALGCETSNLGSLQSLVRC  154 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~  154 (406)
                      .+++|++..++.+..++..... .......+.|+|++|+|||+||+.+++.....+.     .+  ..........+...
T Consensus        29 ~~iiG~~~~~~~l~~~l~~~~~-~~~~~~~vll~G~~GtGKT~la~~ia~~~~~~~~-----~~--~~~~~~~~~~~~~~  100 (338)
T 3pfi_A           29 DGYIGQESIKKNLNVFIAAAKK-RNECLDHILFSGPAGLGKTTLANIISYEMSANIK-----TT--AAPMIEKSGDLAAI  100 (338)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHH-TTSCCCCEEEECSTTSSHHHHHHHHHHHTTCCEE-----EE--EGGGCCSHHHHHHH
T ss_pred             HHhCChHHHHHHHHHHHHHHHh-cCCCCCeEEEECcCCCCHHHHHHHHHHHhCCCeE-----Ee--cchhccchhHHHHH
Confidence            5689999999999888864210 0123456899999999999999998664321000     00  00011222333333


Q ss_pred             HHhhccCcceeEEeeCCCCcCccCcchhhhccCCCC------------------CCcEEEEecCChH-HHHH-hcc-CCc
Q 038234          155 ISESIEGKKYLVVLDDVWTDDYTKWEPFQRCSANGQ------------------CGNNILVTTHKKT-VARM-MES-TNF  213 (406)
Q Consensus       155 l~~~l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~------------------~gs~IivTtR~~~-v~~~-~~~-~~~  213 (406)
                      +..  ..+..+|+||++..........+...+....                  ++..+|.+|.... +... ... ...
T Consensus       101 ~~~--~~~~~vl~lDEi~~l~~~~~~~Ll~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~i~atn~~~~l~~~L~~R~~~~  178 (338)
T 3pfi_A          101 LTN--LSEGDILFIDEIHRLSPAIEEVLYPAMEDYRLDIIIGSGPAAQTIKIDLPKFTLIGATTRAGMLSNPLRDRFGMQ  178 (338)
T ss_dssp             HHT--CCTTCEEEEETGGGCCHHHHHHHHHHHHTSCC---------CCCCCCCCCCCEEEEEESCGGGSCHHHHTTCSEE
T ss_pred             HHh--ccCCCEEEEechhhcCHHHHHHHHHHHHhccchhhcccCccccceecCCCCeEEEEeCCCccccCHHHHhhcCEE
Confidence            333  2466799999996544333333433332211                  1235555555422 1111 111 367


Q ss_pred             cccCCCChHHHHHhhhhhc
Q 038234          214 ISIKELSTQECWSLFKQES  232 (406)
Q Consensus       214 ~~l~~L~~~~a~~Lf~~~~  232 (406)
                      +.+.+++.++...++.+.+
T Consensus       179 i~l~~~~~~e~~~il~~~~  197 (338)
T 3pfi_A          179 FRLEFYKDSELALILQKAA  197 (338)
T ss_dssp             EECCCCCHHHHHHHHHHHH
T ss_pred             eeCCCcCHHHHHHHHHHHH
Confidence            8999999999998888755

>2z4s_A Chromosomal replication initiator protein DNAA; AAA+ ATPase, domain III (ATPase domain), ATP-binding, cytoplasm, DNA replication; HET: ADP; 3.00A {Thermotoga maritima} PDB: 2z4r_A*

Probab=98.21  E-value=3.8e-06  Score=82.17  Aligned_cols=122  Identities=14%  Similarity=0.104  Sum_probs=73.5

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCChH-------------HHHHHHHHHhcCCCCCCCCHHHHHHHHHhhccCcceeEEe
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDKDF-------------RVAKAIIAALGCETSNLGSLQSLVRCISESIEGKKYLVVL  168 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~~~-------------~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVl  168 (406)
                      ...+.|+|++|+||||||+.+++....             .+...+...+...     ...    .+...+..+.-+|+|
T Consensus       130 ~~~lll~Gp~G~GKTtLa~aia~~l~~~~~~~~v~~v~~~~~~~~~~~~~~~~-----~~~----~~~~~~~~~~~vL~I  200 (440)
T 2z4s_A          130 YNPLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYITSEKFLNDLVDSMKEG-----KLN----EFREKYRKKVDILLI  200 (440)
T ss_dssp             SCCEEEECSSSSSHHHHHHHHHHHHHHHCCSSCEEEEEHHHHHHHHHHHHHTT-----CHH----HHHHHHTTTCSEEEE
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEeeHHHHHHHHHHHHHcc-----cHH----HHHHHhcCCCCEEEE
Confidence            567899999999999999998874311             2223333322211     111    122223336779999


Q ss_pred             eCCCCcCc--cCcchhhhccCC-CCCCcEEEEecCC---------hHHHHHhccCCccccCCCChHHHHHhhhhhc
Q 038234          169 DDVWTDDY--TKWEPFQRCSAN-GQCGNNILVTTHK---------KTVARMMESTNFISIKELSTQECWSLFKQES  232 (406)
Q Consensus       169 Ddvw~~~~--~~~~~l~~~l~~-~~~gs~IivTtR~---------~~v~~~~~~~~~~~l~~L~~~~a~~Lf~~~~  232 (406)
                      ||++....  ...+.+...+.. ...|..||+||.+         +.+...+....++.+.+++.++-..++.+.+
T Consensus       201 DEi~~l~~~~~~q~~l~~~l~~l~~~~~~iIitt~~~~~~l~~l~~~L~sR~~~g~~i~l~~p~~e~r~~iL~~~~  276 (440)
T 2z4s_A          201 DDVQFLIGKTGVQTELFHTFNELHDSGKQIVICSDREPQKLSEFQDRLVSRFQMGLVAKLEPPDEETRKSIARKML  276 (440)
T ss_dssp             ECGGGGSSCHHHHHHHHHHHHHHHTTTCEEEEEESSCGGGCSSCCHHHHHHHHSSBCCBCCCCCHHHHHHHHHHHH
T ss_pred             eCcccccCChHHHHHHHHHHHHHHHCCCeEEEEECCCHHHHHHHHHHHHhhccCCeEEEeCCCCHHHHHHHHHHHH
Confidence            99965432  112223333321 1346678888876         2344444445788999999999999888765

>3bos_A Putative DNA replication factor; P-loop containing nucleoside triphosphate hydrolases, struct genomics; HET: MSE CDP; 1.75A {Shewanella amazonensis} PDB: 3sc3_A

Probab=98.21  E-value=3e-07  Score=81.90  Aligned_cols=141  Identities=11%  Similarity=0.012  Sum_probs=73.7

Q ss_pred             Cceecch---hhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChHHHHHHHHHHhcCCCCCCCCHHHH
Q 038234           75 SEICGRD---YKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDFRVAKAIIAALGCETSNLGSLQSL  151 (406)
Q Consensus        75 ~~~vGR~---~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~~~i~~~l~~~~~~~~~~~~~  151 (406)
                      ..|+|.+   ..++.+..++..      +..+.+.|+|++|+|||+||+.+++.....         +.... ..+...+
T Consensus        28 ~~~~~~~~~~~~~~~l~~~~~~------~~~~~~ll~G~~G~GKT~la~~l~~~~~~~---------~~~~~-~~~~~~~   91 (242)
T 3bos_A           28 TSYYPAAGNDELIGALKSAASG------DGVQAIYLWGPVKSGRTHLIHAACARANEL---------ERRSF-YIPLGIH   91 (242)
T ss_dssp             TTSCC--CCHHHHHHHHHHHHT------CSCSEEEEECSTTSSHHHHHHHHHHHHHHT---------TCCEE-EEEGGGG
T ss_pred             hhccCCCCCHHHHHHHHHHHhC------CCCCeEEEECCCCCCHHHHHHHHHHHHHHc---------CCeEE-EEEHHHH
Confidence            3466632   445555555543      235678999999999999999887643210         00000 0000000


Q ss_pred             HHHHHhhc--cCcceeEEeeCCCCcCccC--cchhhhccCCC-CCC-cEEEEecCCh---------HHHHHhccCCcccc
Q 038234          152 VRCISESI--EGKKYLVVLDDVWTDDYTK--WEPFQRCSANG-QCG-NNILVTTHKK---------TVARMMESTNFISI  216 (406)
Q Consensus       152 ~~~l~~~l--~~kr~LlVlDdvw~~~~~~--~~~l~~~l~~~-~~g-s~IivTtR~~---------~v~~~~~~~~~~~l  216 (406)
                      ...+.+.+  -.++.+|||||++......  .+.+...+... ..+ ..+|+||+..         .+...+.....+.+
T Consensus        92 ~~~~~~~~~~~~~~~vliiDe~~~~~~~~~~~~~l~~~l~~~~~~~~~~ii~~~~~~~~~~~~~~~~l~~r~~~~~~i~l  171 (242)
T 3bos_A           92 ASISTALLEGLEQFDLICIDDVDAVAGHPLWEEAIFDLYNRVAEQKRGSLIVSASASPMEAGFVLPDLVSRMHWGLTYQL  171 (242)
T ss_dssp             GGSCGGGGTTGGGSSEEEEETGGGGTTCHHHHHHHHHHHHHHHHHCSCEEEEEESSCTTTTTCCCHHHHHHHHHSEEEEC
T ss_pred             HHHHHHHHHhccCCCEEEEeccccccCCHHHHHHHHHHHHHHHHcCCCeEEEEcCCCHHHHHHhhhhhhhHhhcCceEEe
Confidence            00111111  1456799999996543222  22233332111 112 2477766532         22222222367899


Q ss_pred             CCCChHHHHHhhhhh
Q 038234          217 KELSTQECWSLFKQE  231 (406)
Q Consensus       217 ~~L~~~~a~~Lf~~~  231 (406)
                      .+++.++..+++...
T Consensus       172 ~~~~~~~~~~~l~~~  186 (242)
T 3bos_A          172 QPMMDDEKLAALQRR  186 (242)
T ss_dssp             CCCCGGGHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHH
Confidence            999999988887764

>3u61_B DNA polymerase accessory protein 44; AAA+, ATP hydrolase, clamp loader, sliding clamp, primer-TEM DNA, DNA binding protein-DNA complex; HET: DNA ADP 08T; 3.20A {Enterobacteria phage T4} PDB: 3u5z_B* 3u60_B*

Probab=98.17  E-value=6.2e-07  Score=84.10  Aligned_cols=139  Identities=13%  Similarity=0.140  Sum_probs=85.8

Q ss_pred             CceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChHHHHHHHHHHhcCCCCCCCCHHHHHHH
Q 038234           75 SEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDFRVAKAIIAALGCETSNLGSLQSLVRC  154 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~  154 (406)
                      .+++|.+..++.+.+++...     ...+++.+.|++|+|||++|+.+++.....+.     .+..   .....+.+...
T Consensus        26 ~~ivg~~~~~~~l~~~l~~~-----~~~~~~L~~G~~G~GKT~la~~la~~l~~~~~-----~i~~---~~~~~~~i~~~   92 (324)
T 3u61_B           26 DECILPAFDKETFKSITSKG-----KIPHIILHSPSPGTGKTTVAKALCHDVNADMM-----FVNG---SDCKIDFVRGP   92 (324)
T ss_dssp             TTSCCCHHHHHHHHHHHHTT-----CCCSEEEECSSTTSSHHHHHHHHHHHTTEEEE-----EEET---TTCCHHHHHTH
T ss_pred             HHHhCcHHHHHHHHHHHHcC-----CCCeEEEeeCcCCCCHHHHHHHHHHHhCCCEE-----EEcc---cccCHHHHHHH
Confidence            56899999999999999853     33467888899999999999998765421000     0011   11123333333


Q ss_pred             HHhhc-----cCcceeEEeeCCCCcC-ccCcchhhhccCCCCCCcEEEEecCChH-----HHHHhccCCccccCCCChHH
Q 038234          155 ISESI-----EGKKYLVVLDDVWTDD-YTKWEPFQRCSANGQCGNNILVTTHKKT-----VARMMESTNFISIKELSTQE  223 (406)
Q Consensus       155 l~~~l-----~~kr~LlVlDdvw~~~-~~~~~~l~~~l~~~~~gs~IivTtR~~~-----v~~~~~~~~~~~l~~L~~~~  223 (406)
                      +.+..     .+++.+|++|++.... ....+.+...+.....+..+|+||....     +...   ...+.+.+++.++
T Consensus        93 ~~~~~~~~~~~~~~~vliiDEi~~l~~~~~~~~L~~~le~~~~~~~iI~~~n~~~~l~~~l~sR---~~~i~~~~~~~~e  169 (324)
T 3u61_B           93 LTNFASAASFDGRQKVIVIDEFDRSGLAESQRHLRSFMEAYSSNCSIIITANNIDGIIKPLQSR---CRVITFGQPTDED  169 (324)
T ss_dssp             HHHHHHBCCCSSCEEEEEEESCCCGGGHHHHHHHHHHHHHHGGGCEEEEEESSGGGSCTTHHHH---SEEEECCCCCHHH
T ss_pred             HHHHHhhcccCCCCeEEEEECCcccCcHHHHHHHHHHHHhCCCCcEEEEEeCCccccCHHHHhh---CcEEEeCCCCHHH
Confidence            33322     2477899999996544 3334445444433334567887776543     2222   3578999999888


Q ss_pred             HHHhhh
Q 038234          224 CWSLFK  229 (406)
Q Consensus       224 a~~Lf~  229 (406)
                      -..++.
T Consensus       170 ~~~il~  175 (324)
T 3u61_B          170 KIEMMK  175 (324)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            554443

>1sxj_D Activator 1 41 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=98.16  E-value=9.7e-07  Score=83.58  Aligned_cols=150  Identities=13%  Similarity=0.069  Sum_probs=86.5

Q ss_pred             CceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChHH-HHHHHHHHhcCCCCCCCCHHHHHH
Q 038234           75 SEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDFR-VAKAIIAALGCETSNLGSLQSLVR  153 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~-~~~~i~~~l~~~~~~~~~~~~~~~  153 (406)
                      ..++|++..++.+..++....      ...+.|+|++|+||||+|+.+++..... .....  ..............+..
T Consensus        37 ~~i~g~~~~~~~l~~~l~~~~------~~~~ll~G~~G~GKT~la~~la~~l~~~~~~~~~--~~~~~~~~~~~~~~~~~  108 (353)
T 1sxj_D           37 DEVTAQDHAVTVLKKTLKSAN------LPHMLFYGPPGTGKTSTILALTKELYGPDLMKSR--ILELNASDERGISIVRE  108 (353)
T ss_dssp             TTCCSCCTTHHHHHHHTTCTT------CCCEEEECSTTSSHHHHHHHHHHHHHHHHHHTTS--EEEECSSSCCCHHHHTT
T ss_pred             HHhhCCHHHHHHHHHHHhcCC------CCEEEEECCCCCCHHHHHHHHHHHhCCCcccccc--eEEEccccccchHHHHH
Confidence            468999999999999987532      2238899999999999999987754211 00000  00001111112222222


Q ss_pred             HHHhhc----------------cCcceeEEeeCCCCcCccCcchhhhccCCCCCCcEEEEecCChH-HHHH-hccCCccc
Q 038234          154 CISESI----------------EGKKYLVVLDDVWTDDYTKWEPFQRCSANGQCGNNILVTTHKKT-VARM-MESTNFIS  215 (406)
Q Consensus       154 ~l~~~l----------------~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTtR~~~-v~~~-~~~~~~~~  215 (406)
                      .+....                .+++-+|++|++........+.+...+.......++|++|.... +... ......+.
T Consensus       109 ~~~~~~~~~~~~~~~~~~~~~~~~~~~vliiDE~~~l~~~~~~~Ll~~le~~~~~~~~il~~~~~~~l~~~l~sR~~~i~  188 (353)
T 1sxj_D          109 KVKNFARLTVSKPSKHDLENYPCPPYKIIILDEADSMTADAQSALRRTMETYSGVTRFCLICNYVTRIIDPLASQCSKFR  188 (353)
T ss_dssp             HHHHHHHSCCCCCCTTHHHHSCCCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHHSEEEE
T ss_pred             HHHHHhhhcccccchhhcccCCCCCceEEEEECCCccCHHHHHHHHHHHHhcCCCceEEEEeCchhhCcchhhccCceEE
Confidence            221111                23456999999865443334445555544444566777665432 1111 12235788


Q ss_pred             cCCCChHHHHHhhhhhc
Q 038234          216 IKELSTQECWSLFKQES  232 (406)
Q Consensus       216 l~~L~~~~a~~Lf~~~~  232 (406)
                      +.+++.++....+...+
T Consensus       189 ~~~~~~~~~~~~l~~~~  205 (353)
T 1sxj_D          189 FKALDASNAIDRLRFIS  205 (353)
T ss_dssp             CCCCCHHHHHHHHHHHH
T ss_pred             eCCCCHHHHHHHHHHHH
Confidence            99999999888887654

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=98.13  E-value=6.8e-06  Score=78.29  Aligned_cols=47  Identities=17%  Similarity=0.230  Sum_probs=35.3

Q ss_pred             CceecchhhHHH---HHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234           75 SEICGRDYKKNE---LLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus        75 ~~~vGR~~~~~~---l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ..++|++..+..   +.+.+...    ....+.+.|+|++|+|||+||+.+++.
T Consensus        44 ~~ivG~~~~~~~l~~l~~~~~~~----~~~~~~vLl~GppGtGKT~la~~la~~   93 (368)
T 3uk6_A           44 QGMVGQLAARRAAGVVLEMIREG----KIAGRAVLIAGQPGTGKTAIAMGMAQA   93 (368)
T ss_dssp             TTEESCHHHHHHHHHHHHHHHTT----CCTTCEEEEEESTTSSHHHHHHHHHHH
T ss_pred             hhccChHHHHHHHHHHHHHHHcC----CCCCCEEEEECCCCCCHHHHHHHHHHH
Confidence            469999988666   45555433    223468899999999999999998764

>2qz4_A Paraplegin; AAA+, SPG7, protease, ADP, structural genomics, structural G consortium, SGC, ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.22A {Homo sapiens}

Probab=98.12  E-value=3.5e-06  Score=76.20  Aligned_cols=152  Identities=16%  Similarity=0.106  Sum_probs=76.1

Q ss_pred             CceecchhhHHHHHHHHh---cCCC---CCCCCcEEEEEeeeCCCcHHHHHHHHhcCChHHHHHHHHHHhcCCC----CC
Q 038234           75 SEICGRDYKKNELLSKLL---SDSS---DQQKPIKMISIVGMGGIGKITLAQMAYNDKDFRVAKAIIAALGCET----SN  144 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~---~~~~---~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~~~i~~~l~~~~----~~  144 (406)
                      .+++|.+..++.+.+++.   ....   -+....+.+.|+|++|+|||+||+.+++.....+.     .+....    ..
T Consensus         6 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~g~~~~~~vll~G~~GtGKT~la~~la~~~~~~~~-----~~~~~~~~~~~~   80 (262)
T 2qz4_A            6 KDVAGMHEAKLEVREFVDYLKSPERFLQLGAKVPKGALLLGPPGCGKTLLAKAVATEAQVPFL-----AMAGAEFVEVIG   80 (262)
T ss_dssp             TSSCSCHHHHHHHHHHHHHHHCCC------CCCCCEEEEESCTTSSHHHHHHHHHHHHTCCEE-----EEETTTTSSSST
T ss_pred             HHhCCHHHHHHHHHHHHHHHHCHHHHHHcCCCCCceEEEECCCCCCHHHHHHHHHHHhCCCEE-----EechHHHHhhcc
Confidence            458899887777765542   2110   00133456889999999999999998764321000     000000    00


Q ss_pred             CCCHHHHHHHHHhhccCcceeEEeeCCCCc------------CccCcc---hhhhccCC--CCCCcEEEEecCChHHHH-
Q 038234          145 LGSLQSLVRCISESIEGKKYLVVLDDVWTD------------DYTKWE---PFQRCSAN--GQCGNNILVTTHKKTVAR-  206 (406)
Q Consensus       145 ~~~~~~~~~~l~~~l~~kr~LlVlDdvw~~------------~~~~~~---~l~~~l~~--~~~gs~IivTtR~~~v~~-  206 (406)
                      ......+...+.......+.+|+||++...            +.....   .+...+..  ...+..||.||....... 
T Consensus        81 ~~~~~~~~~~~~~a~~~~~~vl~iDeid~l~~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~~~~~~~vi~~tn~~~~ld~  160 (262)
T 2qz4_A           81 GLGAARVRSLFKEARARAPCIVYIDEIDAVGKKRSTTMSGFSNTEEEQTLNQLLVEMDGMGTTDHVIVLASTNRADILDG  160 (262)
T ss_dssp             THHHHHHHHHHHHHHHTCSEEEEEECC-------------------CHHHHHHHHHHHTCCTTCCEEEEEEESCGGGGGS
T ss_pred             ChhHHHHHHHHHHHHhcCCeEEEEeCcchhhccccccccCccchhHHHHHHHHHHHhhCcCCCCCEEEEecCCChhhcCH
Confidence            011122333333344456789999999543            111111   12222221  123456666665543211 


Q ss_pred             H-hc--c-CCccccCCCChHHHHHhhhhh
Q 038234          207 M-ME--S-TNFISIKELSTQECWSLFKQE  231 (406)
Q Consensus       207 ~-~~--~-~~~~~l~~L~~~~a~~Lf~~~  231 (406)
                      . ..  . ...+.+...+.++-.+++...
T Consensus       161 ~l~~~~R~~~~i~i~~p~~~~r~~il~~~  189 (262)
T 2qz4_A          161 ALMRPGRLDRHVFIDLPTLQERREIFEQH  189 (262)
T ss_dssp             GGGSTTSCCEEEECCSCCHHHHHHHHHHH
T ss_pred             HHhcCCcCCeEEEeCCcCHHHHHHHHHHH
Confidence            1 11  1 345677888888877777653

>1sxj_E Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=98.10  E-value=2.5e-06  Score=80.83  Aligned_cols=153  Identities=9%  Similarity=0.037  Sum_probs=84.4

Q ss_pred             CceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCC-h-----HHHHHHHH-------HH----
Q 038234           75 SEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDK-D-----FRVAKAII-------AA----  137 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~-~-----~~~~~~i~-------~~----  137 (406)
                      .+++|.+..++.+.+++...    ..... +.|+|++|+||||+|+.+++.. .     ..+...-+       ..    
T Consensus        14 ~~~vg~~~~~~~l~~~~~~~----~~~~~-~ll~Gp~G~GKTtl~~~la~~l~~~~~g~i~~~~~~~~~~~~~~~~~~~~   88 (354)
T 1sxj_E           14 NALSHNEELTNFLKSLSDQP----RDLPH-LLLYGPNGTGKKTRCMALLESIFGPGVYRLKIDVRQFVTASNRKLELNVV   88 (354)
T ss_dssp             GGCCSCHHHHHHHHTTTTCT----TCCCC-EEEECSTTSSHHHHHHTHHHHHSCTTCCC------------------CCE
T ss_pred             HHhcCCHHHHHHHHHHHhhC----CCCCe-EEEECCCCCCHHHHHHHHHHHHcCCCCCeEEecceeecccccccceeeee
Confidence            45889998888888877222    12233 8999999999999998876621 1     00000000       00    


Q ss_pred             -------hcCCCCCCCCHHHHHHHHHhhc--------------cCcceeEEeeCCCCcCccCcchhhhccCCCCCCcEEE
Q 038234          138 -------LGCETSNLGSLQSLVRCISESI--------------EGKKYLVVLDDVWTDDYTKWEPFQRCSANGQCGNNIL  196 (406)
Q Consensus       138 -------l~~~~~~~~~~~~~~~~l~~~l--------------~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~Ii  196 (406)
                             +............+...+.+..              .+++-++|||++...+....+.+...+.....++.+|
T Consensus        89 ~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~ls~l~~~~~vlilDE~~~L~~~~~~~L~~~le~~~~~~~~I  168 (354)
T 1sxj_E           89 SSPYHLEITPSDMGNNDRIVIQELLKEVAQMEQVDFQDSKDGLAHRYKCVIINEANSLTKDAQAALRRTMEKYSKNIRLI  168 (354)
T ss_dssp             ECSSEEEECCC----CCHHHHHHHHHHHTTTTC------------CCEEEEEECTTSSCHHHHHHHHHHHHHSTTTEEEE
T ss_pred             cccceEEecHhhcCCcchHHHHHHHHHHHHhccccccccccccCCCCeEEEEeCccccCHHHHHHHHHHHHhhcCCCEEE
Confidence                   0000000111111222222221              2356699999996655444455555554334466777


Q ss_pred             EecCCh-HHHHH-hccCCccccCCCChHHHHHhhhhhc
Q 038234          197 VTTHKK-TVARM-MESTNFISIKELSTQECWSLFKQES  232 (406)
Q Consensus       197 vTtR~~-~v~~~-~~~~~~~~l~~L~~~~a~~Lf~~~~  232 (406)
                      ++|.+. .+... ......+.+.+++.++....+.+.+
T Consensus       169 l~t~~~~~l~~~l~sR~~~~~~~~~~~~~~~~~l~~~~  206 (354)
T 1sxj_E          169 MVCDSMSPIIAPIKSQCLLIRCPAPSDSEISTILSDVV  206 (354)
T ss_dssp             EEESCSCSSCHHHHTTSEEEECCCCCHHHHHHHHHHHH
T ss_pred             EEeCCHHHHHHHHHhhceEEecCCcCHHHHHHHHHHHH
Confidence            776653 22221 2234678999999999988887654

>3ec2_A DNA replication protein DNAC; helicase loader, replication initiation factor, ATP-binding, nucleotide-binding; HET: DNA ADP; 2.70A {Aquifex aeolicus} PDB: 3ecc_A*

Probab=98.09  E-value=3.8e-06  Score=71.54  Aligned_cols=109  Identities=14%  Similarity=0.142  Sum_probs=57.7

Q ss_pred             chhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChH------------HHHHHHHHHhcCCCCCCCC
Q 038234           80 RDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDF------------RVAKAIIAALGCETSNLGS  147 (406)
Q Consensus        80 R~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~------------~~~~~i~~~l~~~~~~~~~  147 (406)
                      ....++.+.+++..-.   ......+.|+|++|+||||||+.+++....            ++...+.........    
T Consensus        19 ~~~~~~~~~~~~~~~~---~~~g~~~~l~G~~G~GKTtL~~~i~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~----   91 (180)
T 3ec2_A           19 QNRALLTIRVFVHNFN---PEEGKGLTFVGSPGVGKTHLAVATLKAIYEKKGIRGYFFDTKDLIFRLKHLMDEGKD----   91 (180)
T ss_dssp             HHHHHHHHHHHHHSCC---GGGCCEEEECCSSSSSHHHHHHHHHHHHHHHSCCCCCEEEHHHHHHHHHHHHHHTCC----
T ss_pred             HHHHHHHHHHHHHhcc---ccCCCEEEEECCCCCCHHHHHHHHHHHHHHHcCCeEEEEEHHHHHHHHHHHhcCchH----
Confidence            3344555555554332   233568999999999999999988765421            222222222211110    


Q ss_pred             HHHHHHHHHhhccCcceeEEeeCCCCcCccCcc--hhhhccCC-CCCCcEEEEecCC
Q 038234          148 LQSLVRCISESIEGKKYLVVLDDVWTDDYTKWE--PFQRCSAN-GQCGNNILVTTHK  201 (406)
Q Consensus       148 ~~~~~~~l~~~l~~kr~LlVlDdvw~~~~~~~~--~l~~~l~~-~~~gs~IivTtR~  201 (406)
                       ..+...+     .+.-+|||||++....+.|.  .+...+.. ...|..+|+||..
T Consensus        92 -~~~~~~~-----~~~~llilDE~~~~~~~~~~~~~l~~ll~~~~~~~~~ii~tsn~  142 (180)
T 3ec2_A           92 -TKFLKTV-----LNSPVLVLDDLGSERLSDWQRELISYIITYRYNNLKSTIITTNY  142 (180)
T ss_dssp             -SHHHHHH-----HTCSEEEEETCSSSCCCHHHHHHHHHHHHHHHHTTCEEEEECCC
T ss_pred             -HHHHHHh-----cCCCEEEEeCCCCCcCCHHHHHHHHHHHHHHHHcCCCEEEEcCC
Confidence             0122222     14579999999743333343  23332321 1246678888875

>1d2n_A N-ethylmaleimide-sensitive fusion protein; hexamerization domain, ATPase, transport; HET: ANP; 1.75A {Cricetulus griseus} SCOP: c.37.1.20 PDB: 1nsf_A*

Probab=98.06  E-value=7.1e-07  Score=81.53  Aligned_cols=148  Identities=16%  Similarity=0.138  Sum_probs=76.7

Q ss_pred             CceecchhhHHHHHH-------HHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChHHHHHHHHHHhcCCC-CCCC
Q 038234           75 SEICGRDYKKNELLS-------KLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDFRVAKAIIAALGCET-SNLG  146 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~-------~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~~~i~~~l~~~~-~~~~  146 (406)
                      ..++|....++++..       .+....   ......+.|+|++|+|||+||+.+++.....+.     .+.... ....
T Consensus        33 ~~~i~~~~~~~~i~~~~~~l~~~l~~~~---~~~~~~vLl~G~~GtGKT~la~~ia~~~~~~~~-----~i~~~~~~~g~  104 (272)
T 1d2n_A           33 NGIIKWGDPVTRVLDDGELLVQQTKNSD---RTPLVSVLLEGPPHSGKTALAAKIAEESNFPFI-----KICSPDKMIGF  104 (272)
T ss_dssp             TCCCCCSHHHHHHHHHHHHHHHHHHHCS---SCSEEEEEEECSTTSSHHHHHHHHHHHHTCSEE-----EEECGGGCTTC
T ss_pred             cCCCCccHHHHHHHHHHHHHHHHHhccC---CCCCeEEEEECCCCCcHHHHHHHHHHHhCCCEE-----EEeCHHHhcCC
Confidence            346787777666655       332211   345678999999999999999998764211000     000000 0000


Q ss_pred             CH----HHHHHHHHhhccCcceeEEeeCCCCc------Ccc----CcchhhhccCC---CCCCcEEEEecCChHHHHHh-
Q 038234          147 SL----QSLVRCISESIEGKKYLVVLDDVWTD------DYT----KWEPFQRCSAN---GQCGNNILVTTHKKTVARMM-  208 (406)
Q Consensus       147 ~~----~~~~~~l~~~l~~kr~LlVlDdvw~~------~~~----~~~~l~~~l~~---~~~gs~IivTtR~~~v~~~~-  208 (406)
                      ..    ..+...+......+..+|+||++...      ...    ....+...+..   .+....||.||......... 
T Consensus       105 ~~~~~~~~~~~~~~~~~~~~~~vl~iDEid~l~~~~~~~~~~~~~~l~~L~~~~~~~~~~~~~~~ii~ttn~~~~l~~~~  184 (272)
T 1d2n_A          105 SETAKCQAMKKIFDDAYKSQLSCVVVDDIERLLDYVPIGPRFSNLVLQALLVLLKKAPPQGRKLLIIGTTSRKDVLQEME  184 (272)
T ss_dssp             CHHHHHHHHHHHHHHHHTSSEEEEEECCHHHHTTCBTTTTBCCHHHHHHHHHHTTCCCSTTCEEEEEEEESCHHHHHHTT
T ss_pred             chHHHHHHHHHHHHHHHhcCCcEEEEEChhhhhccCCCChhHHHHHHHHHHHHhcCccCCCCCEEEEEecCChhhcchhh
Confidence            11    22233333344467889999998432      110    11223232222   22344567777776544431 


Q ss_pred             --cc-CCccccCCCCh-HHHHHhhhh
Q 038234          209 --ES-TNFISIKELST-QECWSLFKQ  230 (406)
Q Consensus       209 --~~-~~~~~l~~L~~-~~a~~Lf~~  230 (406)
                        +. ...+.+.+++. ++...++.+
T Consensus       185 l~~rf~~~i~~p~l~~r~~i~~i~~~  210 (272)
T 1d2n_A          185 MLNAFSTTIHVPNIATGEQLLEALEL  210 (272)
T ss_dssp             CTTTSSEEEECCCEEEHHHHHHHHHH
T ss_pred             hhcccceEEcCCCccHHHHHHHHHHh
Confidence              11 45577888877 554444443

>1sxj_A Activator 1 95 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=98.06  E-value=4.3e-06  Score=83.59  Aligned_cols=149  Identities=15%  Similarity=0.215  Sum_probs=83.1

Q ss_pred             CceecchhhHHHHHHHHhcCC-----------CCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChHHHHHHHHHHhcCCCC
Q 038234           75 SEICGRDYKKNELLSKLLSDS-----------SDQQKPIKMISIVGMGGIGKITLAQMAYNDKDFRVAKAIIAALGCETS  143 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~-----------~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~~~i~~~l~~~~~  143 (406)
                      .+++|++..++++.++|....           ..+.+..+.+.|+|++|+|||++|+.+++.....+       +.....
T Consensus        39 ~dliG~~~~~~~L~~~l~~~~~~~~~~~~~~g~~~~~~~~~lLL~GppGtGKTtla~~la~~l~~~~-------i~in~s  111 (516)
T 1sxj_A           39 QQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQELGYDI-------LEQNAS  111 (516)
T ss_dssp             GGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHTTCEE-------EEECTT
T ss_pred             HHhcCCHHHHHHHHHHHHHhHhhchhhccccCccCCCCCcEEEEECCCCCCHHHHHHHHHHHcCCCE-------EEEeCC
Confidence            568999999999999987510           00012357899999999999999999987542100       000000


Q ss_pred             CCCCHHHHHHHHHh------------------hccCcceeEEeeCCCCcCccC---cchhhhccCCCCCCcEEEEecCCh
Q 038234          144 NLGSLQSLVRCISE------------------SIEGKKYLVVLDDVWTDDYTK---WEPFQRCSANGQCGNNILVTTHKK  202 (406)
Q Consensus       144 ~~~~~~~~~~~l~~------------------~l~~kr~LlVlDdvw~~~~~~---~~~l~~~l~~~~~gs~IivTtR~~  202 (406)
                      .......+...+..                  ...+++.+|+||++.......   +..+...+...  +..||+++.+.
T Consensus       112 ~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~vliIDEid~l~~~~~~~l~~L~~~l~~~--~~~iIli~~~~  189 (516)
T 1sxj_A          112 DVRSKTLLNAGVKNALDNMSVVGYFKHNEEAQNLNGKHFVIIMDEVDGMSGGDRGGVGQLAQFCRKT--STPLILICNER  189 (516)
T ss_dssp             SCCCHHHHHHTGGGGTTBCCSTTTTTC----CCSSTTSEEEEECSGGGCCTTSTTHHHHHHHHHHHC--SSCEEEEESCT
T ss_pred             CcchHHHHHHHHHHHhccccHHHHHhhhhhhhhccCCCeEEEEECCCccchhhHHHHHHHHHHHHhc--CCCEEEEEcCC
Confidence            00111111111110                  123577899999995543222   13333333222  22344444332


Q ss_pred             ---HHHHHhccCCccccCCCChHHHHHhhhhhc
Q 038234          203 ---TVARMMESTNFISIKELSTQECWSLFKQES  232 (406)
Q Consensus       203 ---~v~~~~~~~~~~~l~~L~~~~a~~Lf~~~~  232 (406)
                         .+.........+.+.+++.++...++...+
T Consensus       190 ~~~~l~~l~~r~~~i~f~~~~~~~~~~~L~~i~  222 (516)
T 1sxj_A          190 NLPKMRPFDRVCLDIQFRRPDANSIKSRLMTIA  222 (516)
T ss_dssp             TSSTTGGGTTTSEEEECCCCCHHHHHHHHHHHH
T ss_pred             CCccchhhHhceEEEEeCCCCHHHHHHHHHHHH
Confidence               122222234578999999999888887654

>1l8q_A Chromosomal replication initiator protein DNAA; AAA+, helix-turn-helix, nucleotide-binding, DNA binding, REP initiation, DNA binding protein; HET: ADP; 2.70A {Aquifex aeolicus} SCOP: a.4.12.2 c.37.1.20 PDB: 3r8f_A* 2hcb_A*

Probab=98.00  E-value=1.6e-05  Score=74.36  Aligned_cols=134  Identities=19%  Similarity=0.178  Sum_probs=73.7

Q ss_pred             HHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChH-----------HHHHHHHHHhcCCCCCCCCHHHHH
Q 038234           84 KNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDF-----------RVAKAIIAALGCETSNLGSLQSLV  152 (406)
Q Consensus        84 ~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~-----------~~~~~i~~~l~~~~~~~~~~~~~~  152 (406)
                      ...+...+...    ......+.|+|++|+||||||+.+++....           .+...+...+..     ...... 
T Consensus        23 ~~~~~~~~~~~----~~~~~~lll~G~~GtGKT~la~~i~~~~~~~~~~~~~i~~~~~~~~~~~~~~~-----~~~~~~-   92 (324)
T 1l8q_A           23 YEVVKEALENL----GSLYNPIFIYGSVGTGKTHLLQAAGNEAKKRGYRVIYSSADDFAQAMVEHLKK-----GTINEF-   92 (324)
T ss_dssp             HHHHHHHHHTT----TTSCSSEEEECSSSSSHHHHHHHHHHHHHHTTCCEEEEEHHHHHHHHHHHHHH-----TCHHHH-
T ss_pred             HHHHHHHHhCc----CCCCCeEEEECCCCCcHHHHHHHHHHHHHHCCCEEEEEEHHHHHHHHHHHHHc-----CcHHHH-
Confidence            34455555432    123457899999999999999998874311           222222222211     011111 


Q ss_pred             HHHHhhccCcceeEEeeCCCCcCcc--CcchhhhccCC-CCCCcEEEEecCCh---------HHHHHhccCCccccCCCC
Q 038234          153 RCISESIEGKKYLVVLDDVWTDDYT--KWEPFQRCSAN-GQCGNNILVTTHKK---------TVARMMESTNFISIKELS  220 (406)
Q Consensus       153 ~~l~~~l~~kr~LlVlDdvw~~~~~--~~~~l~~~l~~-~~~gs~IivTtR~~---------~v~~~~~~~~~~~l~~L~  220 (406)
                         ...+ .+.-+|+|||+......  ....+...+.. ...|..||+||.+.         .+...+....++.+.+ +
T Consensus        93 ---~~~~-~~~~vL~iDEi~~l~~~~~~~~~l~~~l~~~~~~~~~iii~~~~~~~~l~~l~~~L~sR~~~~~~i~l~~-~  167 (324)
T 1l8q_A           93 ---RNMY-KSVDLLLLDDVQFLSGKERTQIEFFHIFNTLYLLEKQIILASDRHPQKLDGVSDRLVSRFEGGILVEIEL-D  167 (324)
T ss_dssp             ---HHHH-HTCSEEEEECGGGGTTCHHHHHHHHHHHHHHHHTTCEEEEEESSCGGGCTTSCHHHHHHHHTSEEEECCC-C
T ss_pred             ---HHHh-cCCCEEEEcCcccccCChHHHHHHHHHHHHHHHCCCeEEEEecCChHHHHHhhhHhhhcccCceEEEeCC-C
Confidence               1111 23679999999553321  11223333211 12355777777532         2333333446789999 9


Q ss_pred             hHHHHHhhhhhc
Q 038234          221 TQECWSLFKQES  232 (406)
Q Consensus       221 ~~~a~~Lf~~~~  232 (406)
                      .++...++...+
T Consensus       168 ~~e~~~il~~~~  179 (324)
T 1l8q_A          168 NKTRFKIIKEKL  179 (324)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            999998888765

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=97.98  E-value=8.4e-06  Score=75.65  Aligned_cols=153  Identities=12%  Similarity=0.079  Sum_probs=82.9

Q ss_pred             ceecchhhHHHHHHHHhcCC---------CCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChHH-------HHHHHHHHhc
Q 038234           76 EICGRDYKKNELLSKLLSDS---------SDQQKPIKMISIVGMGGIGKITLAQMAYNDKDFR-------VAKAIIAALG  139 (406)
Q Consensus        76 ~~vGR~~~~~~l~~~L~~~~---------~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~-------~~~~i~~~l~  139 (406)
                      .++|.+..++.+.+.+....         -........+.|+|++|+|||+||+.+++.....       +...-...+.
T Consensus        32 ~i~G~~~~~~~l~~~~~~~~~~~~~~~~g~~~~~~~~~vll~G~~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~l~  111 (309)
T 3syl_A           32 ELIGLKPVKDRIRETAALLLVERARQKLGLAHETPTLHMSFTGNPGTGKTTVALKMAGLLHRLGYVRKGHLVSVTRDDLV  111 (309)
T ss_dssp             HSSSCHHHHHHHHHHHHHHHHHHHHHHHTCCSSCCCCEEEEEECTTSSHHHHHHHHHHHHHHTTSSSSCCEEEECGGGTC
T ss_pred             HccChHHHHHHHHHHHHHHHhHHHHHHcCCCCCCCCceEEEECCCCCCHHHHHHHHHHHHHhcCCcCCCcEEEEcHHHhh
Confidence            47898888888776653110         0002335578999999999999998876643210       0000000000


Q ss_pred             CCCCCCCCHHHHHHHHHhhccCcceeEEeeCCCCc---------CccCcchhhhccCCCCCCcEEEEecCChHHHHHh--
Q 038234          140 CETSNLGSLQSLVRCISESIEGKKYLVVLDDVWTD---------DYTKWEPFQRCSANGQCGNNILVTTHKKTVARMM--  208 (406)
Q Consensus       140 ~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdvw~~---------~~~~~~~l~~~l~~~~~gs~IivTtR~~~v~~~~--  208 (406)
                      .... ......+...+...   +..+|+||++..-         .......+...+.....+..||+||.........  
T Consensus       112 ~~~~-g~~~~~~~~~~~~~---~~~vl~iDEid~l~~~~~~~~~~~~~~~~Ll~~l~~~~~~~~~i~~~~~~~~~~~~~~  187 (309)
T 3syl_A          112 GQYI-GHTAPKTKEVLKRA---MGGVLFIDEAYYLYRPDNERDYGQEAIEILLQVMENNRDDLVVILAGYADRMENFFQS  187 (309)
T ss_dssp             CSST-TCHHHHHHHHHHHH---TTSEEEEETGGGSCCCC---CCTHHHHHHHHHHHHHCTTTCEEEEEECHHHHHHHHHH
T ss_pred             hhcc-cccHHHHHHHHHhc---CCCEEEEEChhhhccCCCcccccHHHHHHHHHHHhcCCCCEEEEEeCChHHHHHHHhh
Confidence            0000 01112222222222   3569999999532         2222234444444444566777777653321111  


Q ss_pred             -----c-cCCccccCCCChHHHHHhhhhhc
Q 038234          209 -----E-STNFISIKELSTQECWSLFKQES  232 (406)
Q Consensus       209 -----~-~~~~~~l~~L~~~~a~~Lf~~~~  232 (406)
                           . ....+.+.+++.++-..++...+
T Consensus       188 ~~~l~~R~~~~i~~~~~~~~~~~~il~~~l  217 (309)
T 3syl_A          188 NPGFRSRIAHHIEFPDYSDEELFEIAGHML  217 (309)
T ss_dssp             STTHHHHEEEEEEECCCCHHHHHHHHHHHH
T ss_pred             CHHHHHhCCeEEEcCCcCHHHHHHHHHHHH
Confidence                 1 13778999999999988887754

>1sxj_C Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=97.95  E-value=5e-06  Score=78.46  Aligned_cols=150  Identities=10%  Similarity=0.067  Sum_probs=85.4

Q ss_pred             CceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChHHHHHHHHHHhcCCCCCCCCHHHHHHH
Q 038234           75 SEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDFRVAKAIIAALGCETSNLGSLQSLVRC  154 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~  154 (406)
                      ..++|.+..++.|...+...      ....+.++|++|+||||+|+.+++.............+  ........+.+...
T Consensus        25 ~~~~g~~~~~~~L~~~i~~g------~~~~~ll~Gp~G~GKTtla~~la~~l~~~~~~~~~~~~--~~~~~~~~~~ir~~   96 (340)
T 1sxj_C           25 DEVYGQNEVITTVRKFVDEG------KLPHLLFYGPPGTGKTSTIVALAREIYGKNYSNMVLEL--NASDDRGIDVVRNQ   96 (340)
T ss_dssp             GGCCSCHHHHHHHHHHHHTT------CCCCEEEECSSSSSHHHHHHHHHHHHHTTSHHHHEEEE--CTTSCCSHHHHHTH
T ss_pred             HHhcCcHHHHHHHHHHHhcC------CCceEEEECCCCCCHHHHHHHHHHHHcCCCccceEEEE--cCcccccHHHHHHH
Confidence            35788888888888888743      22238999999999999999887653210000000011  11111223333333


Q ss_pred             HHhh------ccCcceeEEeeCCCCcCccCcchhhhccCCCCCCcEEEEecCChH-HHHH-hccCCccccCCCChHHHHH
Q 038234          155 ISES------IEGKKYLVVLDDVWTDDYTKWEPFQRCSANGQCGNNILVTTHKKT-VARM-MESTNFISIKELSTQECWS  226 (406)
Q Consensus       155 l~~~------l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTtR~~~-v~~~-~~~~~~~~l~~L~~~~a~~  226 (406)
                      +...      +.+.+-++|+|++........+.+...+......+.+|++|.... +... ......+.+.+++.++...
T Consensus        97 i~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~il~~n~~~~i~~~i~sR~~~~~~~~l~~~~~~~  176 (340)
T 1sxj_C           97 IKDFASTRQIFSKGFKLIILDEADAMTNAAQNALRRVIERYTKNTRFCVLANYAHKLTPALLSQCTRFRFQPLPQEAIER  176 (340)
T ss_dssp             HHHHHHBCCSSSCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEEEECCCCCHHHHHH
T ss_pred             HHHHHhhcccCCCCceEEEEeCCCCCCHHHHHHHHHHHhcCCCCeEEEEEecCccccchhHHhhceeEeccCCCHHHHHH
Confidence            3222      223467899999965443344445555543344566776665432 1111 1223467899999998887


Q ss_pred             hhhhhc
Q 038234          227 LFKQES  232 (406)
Q Consensus       227 Lf~~~~  232 (406)
                      .+.+.+
T Consensus       177 ~l~~~~  182 (340)
T 1sxj_C          177 RIANVL  182 (340)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            776544

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=97.93  E-value=2.5e-06  Score=70.02  Aligned_cols=113  Identities=14%  Similarity=0.029  Sum_probs=62.2

Q ss_pred             ceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChHHHHHHHHHHhcCC-CCCCCCHHHHHHH
Q 038234           76 EICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDFRVAKAIIAALGCE-TSNLGSLQSLVRC  154 (406)
Q Consensus        76 ~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~~~i~~~l~~~-~~~~~~~~~~~~~  154 (406)
                      .++|+...+.++.+.+..-..    ...-|.|+|.+|+|||++|+.+++.....-. .+.  +... .......   ...
T Consensus         2 ~iiG~s~~~~~~~~~~~~~a~----~~~~vll~G~~GtGKt~lA~~i~~~~~~~~~-~~v--~~~~~~~~~~~~---~~~   71 (145)
T 3n70_A            2 ELIGRSEWINQYRRRLQQLSE----TDIAVWLYGAPGTGRMTGARYLHQFGRNAQG-EFV--YRELTPDNAPQL---NDF   71 (145)
T ss_dssp             --CCSSHHHHHHHHHHHHHTT----CCSCEEEESSTTSSHHHHHHHHHHSSTTTTS-CCE--EEECCTTTSSCH---HHH
T ss_pred             CceeCCHHHHHHHHHHHHHhC----CCCCEEEECCCCCCHHHHHHHHHHhCCccCC-CEE--EECCCCCcchhh---hcH
Confidence            478999999999988754321    1234689999999999999999876421000 000  1101 0111111   111


Q ss_pred             HHhhccCcceeEEeeCCCCcCccCcchhhhccCCCCCCcEEEEecCC
Q 038234          155 ISESIEGKKYLVVLDDVWTDDYTKWEPFQRCSANGQCGNNILVTTHK  201 (406)
Q Consensus       155 l~~~l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTtR~  201 (406)
                      +..   .+.-.|+||++..........+...+.......+||.||..
T Consensus        72 ~~~---a~~g~l~ldei~~l~~~~q~~Ll~~l~~~~~~~~~I~~t~~  115 (145)
T 3n70_A           72 IAL---AQGGTLVLSHPEHLTREQQYHLVQLQSQEHRPFRLIGIGDT  115 (145)
T ss_dssp             HHH---HTTSCEEEECGGGSCHHHHHHHHHHHHSSSCSSCEEEEESS
T ss_pred             HHH---cCCcEEEEcChHHCCHHHHHHHHHHHhhcCCCEEEEEECCc
Confidence            221   13457999999655443334455554333445567766654

>3eie_A Vacuolar protein sorting-associated protein 4; AAA ATPase, ATP-binding cassette, ATP-binding, endosome, MEM nucleotide-binding; 2.70A {Saccharomyces cerevisiae} PDB: 3eih_A* 2rko_A 3mhv_C

Probab=97.90  E-value=1e-05  Score=75.78  Aligned_cols=154  Identities=18%  Similarity=0.140  Sum_probs=83.0

Q ss_pred             CceecchhhHHHHHHHHhcC------CCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChHHHHHHHHHHhcCCCCCCCCH
Q 038234           75 SEICGRDYKKNELLSKLLSD------SSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDFRVAKAIIAALGCETSNLGSL  148 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~------~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~~~i~~~l~~~~~~~~~~  148 (406)
                      .+++|.+..++.|.+.+...      -.....+.+-+.|+|++|+|||+||+++++.....+..--...+...  .....
T Consensus        18 ~di~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vLl~GppGtGKT~la~aia~~~~~~~~~v~~~~l~~~--~~g~~   95 (322)
T 3eie_A           18 EDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDLVSK--WMGES   95 (322)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCGGGCCTTCCCCCEEEEECSSSSCHHHHHHHHHHHHTCEEEEEEHHHHHTT--TGGGH
T ss_pred             HHhcChHHHHHHHHHHHHHHHhCHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHHHHCCCEEEEchHHHhhc--ccchH
Confidence            56899999999998877210      00012345678999999999999999998753220000000000000  01112


Q ss_pred             HH-HHHHHHhhccCcceeEEeeCCCCcCcc-------C----cchhhhccC---CCCCCcEEEEecCChH-----HHHHh
Q 038234          149 QS-LVRCISESIEGKKYLVVLDDVWTDDYT-------K----WEPFQRCSA---NGQCGNNILVTTHKKT-----VARMM  208 (406)
Q Consensus       149 ~~-~~~~l~~~l~~kr~LlVlDdvw~~~~~-------~----~~~l~~~l~---~~~~gs~IivTtR~~~-----v~~~~  208 (406)
                      .. +...+...-..++.+|+||++......       .    ...+...+.   ....+..||.||....     +..  
T Consensus        96 ~~~~~~~f~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~v~vi~atn~~~~ld~al~~--  173 (322)
T 3eie_A           96 EKLVKQLFAMARENKPSIIFIDQVDALTGTRGEGESEASRRIKTELLVQMNGVGNDSQGVLVLGATNIPWQLDSAIRR--  173 (322)
T ss_dssp             HHHHHHHHHHHHHTSSEEEEEECGGGGSCC------CCTHHHHHHHHHHHGGGGTSCCCEEEEEEESCGGGSCHHHHH--
T ss_pred             HHHHHHHHHHHHhcCCeEEEechhhhhhccCCCCcchHHHHHHHHHHHHhccccccCCceEEEEecCChhhCCHHHHc--
Confidence            22 222223333456789999999532110       0    122222222   2233555665666532     222  


Q ss_pred             ccCCccccCCCChHHHHHhhhhhc
Q 038234          209 ESTNFISIKELSTQECWSLFKQES  232 (406)
Q Consensus       209 ~~~~~~~l~~L~~~~a~~Lf~~~~  232 (406)
                      .-...+.+...+.++-.++|...+
T Consensus       174 Rf~~~i~~~~p~~~~r~~il~~~~  197 (322)
T 3eie_A          174 RFERRIYIPLPDLAARTTMFEINV  197 (322)
T ss_dssp             HCCEEEECCCCCHHHHHHHHHHHH
T ss_pred             ccCeEEEeCCCCHHHHHHHHHHHh
Confidence            224567788888888888887654

>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis}

Probab=97.89  E-value=2.1e-05  Score=77.61  Aligned_cols=141  Identities=13%  Similarity=0.123  Sum_probs=76.0

Q ss_pred             CceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChH----------HHH-HHHHHHhcCCCC
Q 038234           75 SEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDF----------RVA-KAIIAALGCETS  143 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~----------~~~-~~i~~~l~~~~~  143 (406)
                      +.++||+.++..+...|....      ..-+.|+|++|+|||+||+.+++....          .+. ........  ..
T Consensus       180 d~iiGr~~~i~~l~~~l~r~~------~~~~LL~G~pG~GKT~la~~la~~l~~~~~p~~l~~~~~~~l~~~~~~~--g~  251 (468)
T 3pxg_A          180 DPVIGRSKEIQRVIEVLSRRT------KNNPVLIGEPGVGKTAIAEGLAQQIINNEVPEILRDKRVMTLDMGTKYR--GE  251 (468)
T ss_dssp             CCCCCCHHHHHHHHHHHHCSS------SCEEEEESCTTTTTHHHHHHHHHHHHSSCSCTTTSSCCEECC-----------
T ss_pred             CCccCcHHHHHHHHHHHhccC------CCCeEEECCCCCCHHHHHHHHHHHHHhCCCChhhcCCeEEEeeCCcccc--ch
Confidence            468999999999999997532      334579999999999999988764210          000 00000000  00


Q ss_pred             CCCCHHHHHHHHHhhccCcceeEEeeCCCCcCccCcchhhhccCCCCCCcEEEEecCChHHHH-------HhccCCcccc
Q 038234          144 NLGSLQSLVRCISESIEGKKYLVVLDDVWTDDYTKWEPFQRCSANGQCGNNILVTTHKKTVAR-------MMESTNFISI  216 (406)
Q Consensus       144 ~~~~~~~~~~~l~~~l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTtR~~~v~~-------~~~~~~~~~l  216 (406)
                      .......+..   ..-..++.+|++|.    ..+..+.+...+..  ....+|.+|.......       .......+.+
T Consensus       252 ~e~~~~~~~~---~~~~~~~~iLfiD~----~~~a~~~L~~~L~~--g~v~vI~at~~~e~~~~~~~~~al~~Rf~~i~v  322 (468)
T 3pxg_A          252 FEDRLKKVMD---EIRQAGNIILFIDA----AIDASNILKPSLAR--GELQCIGATTLDEYRKYIEKDAALERRFQPIQV  322 (468)
T ss_dssp             -CTTHHHHHH---HHHTCCCCEEEECC------------CCCTTS--SSCEEEEECCTTTTHHHHTTCSHHHHSEEEEEC
T ss_pred             HHHHHHHHHH---HHHhcCCeEEEEeC----chhHHHHHHHhhcC--CCEEEEecCCHHHHHHHhhcCHHHHHhCcccee
Confidence            0112222333   23335678999992    11222334444432  1345555554433111       1122346899


Q ss_pred             CCCChHHHHHhhhhhc
Q 038234          217 KELSTQECWSLFKQES  232 (406)
Q Consensus       217 ~~L~~~~a~~Lf~~~~  232 (406)
                      .+.+.++...++....
T Consensus       323 ~~p~~e~~~~iL~~~~  338 (468)
T 3pxg_A          323 DQPSVDESIQILQGLR  338 (468)
T ss_dssp             CCCCHHHHHHHHHHTT
T ss_pred             CCCCHHHHHHHHHHHH
Confidence            9999999999887643

>1qvr_A CLPB protein; coiled coil, AAA ATPase, chaperone; HET: ANP; 3.00A {Thermus thermophilus} SCOP: a.174.1.1 c.37.1.20 c.37.1.20

Probab=97.88  E-value=3.1e-06  Score=89.85  Aligned_cols=148  Identities=15%  Similarity=0.195  Sum_probs=76.2

Q ss_pred             CceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChH----------HHHHHHHHHhcCCCCC
Q 038234           75 SEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDF----------RVAKAIIAALGCETSN  144 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~----------~~~~~i~~~l~~~~~~  144 (406)
                      ..++||+.++..+++.|....      ...+.++|.+|+|||+||+.+++....          .+..--...+......
T Consensus       170 d~viGr~~~i~~l~~~l~~~~------~~~vlL~G~pG~GKT~la~~la~~l~~~~~p~~l~~~~~~~l~~~~l~~g~~~  243 (854)
T 1qvr_A          170 DPVIGRDEEIRRVIQILLRRT------KNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMGSLLAGAKY  243 (854)
T ss_dssp             CCCCSCHHHHHHHHHHHHCSS------CCCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEECC---------
T ss_pred             cccCCcHHHHHHHHHHHhcCC------CCceEEEcCCCCCHHHHHHHHHHHHhcCCCchhhcCCeEEEeehHHhhccCcc
Confidence            458999999999999997532      334689999999999999988764311          0000000000000000


Q ss_pred             CCCHHH-HHHHHHhhcc-CcceeEEeeCCCCcC--------ccCcchhhhccCCCCCCcEEEEecCChHHHHH------h
Q 038234          145 LGSLQS-LVRCISESIE-GKKYLVVLDDVWTDD--------YTKWEPFQRCSANGQCGNNILVTTHKKTVARM------M  208 (406)
Q Consensus       145 ~~~~~~-~~~~l~~~l~-~kr~LlVlDdvw~~~--------~~~~~~l~~~l~~~~~gs~IivTtR~~~v~~~------~  208 (406)
                      ..+... +...+...-. +++.+|++|++..-.        .+..+.+...+..  .+..+|.+|........      .
T Consensus       244 ~g~~~~~l~~~~~~~~~~~~~~iL~IDEi~~l~~~~~~~g~~~~~~~L~~~l~~--~~i~~I~at~~~~~~~~~~d~aL~  321 (854)
T 1qvr_A          244 RGEFEERLKAVIQEVVQSQGEVILFIDELHTVVGAGKAEGAVDAGNMLKPALAR--GELRLIGATTLDEYREIEKDPALE  321 (854)
T ss_dssp             --CHHHHHHHHHHHHHTTCSSEEEEECCC-------------------HHHHHT--TCCCEEEEECHHHHHHHTTCTTTC
T ss_pred             chHHHHHHHHHHHHHHhcCCCeEEEEecHHHHhccCCccchHHHHHHHHHHHhC--CCeEEEEecCchHHhhhccCHHHH
Confidence            111122 2222222222 467899999995432        1111223333322  13345555544332111      1


Q ss_pred             ccCCccccCCCChHHHHHhhhh
Q 038234          209 ESTNFISIKELSTQECWSLFKQ  230 (406)
Q Consensus       209 ~~~~~~~l~~L~~~~a~~Lf~~  230 (406)
                      .....+.+.+++.++...++..
T Consensus       322 rRf~~i~l~~p~~~e~~~iL~~  343 (854)
T 1qvr_A          322 RRFQPVYVDEPTVEETISILRG  343 (854)
T ss_dssp             SCCCCEEECCCCHHHHHHHHHH
T ss_pred             hCCceEEeCCCCHHHHHHHHHh
Confidence            1234588999999999888864

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=97.86  E-value=5e-06  Score=68.08  Aligned_cols=108  Identities=8%  Similarity=0.054  Sum_probs=58.8

Q ss_pred             ceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChHHHHHHHHHHhcCCCCCCCCH-HHHHHH
Q 038234           76 EICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDFRVAKAIIAALGCETSNLGSL-QSLVRC  154 (406)
Q Consensus        76 ~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~~~i~~~l~~~~~~~~~~-~~~~~~  154 (406)
                      .++|++..++++.+.+..-.    ....-|.|+|.+|+|||++|+.+++...         .+.  ..+.... ......
T Consensus         5 ~~iG~s~~~~~l~~~~~~~~----~~~~~vll~G~~GtGKt~lA~~i~~~~~---------~~~--~~~~~~~~~~~~~~   69 (143)
T 3co5_A            5 DKLGNSAAIQEMNREVEAAA----KRTSPVFLTGEAGSPFETVARYFHKNGT---------PWV--SPARVEYLIDMPME   69 (143)
T ss_dssp             ---CCCHHHHHHHHHHHHHH----TCSSCEEEEEETTCCHHHHHGGGCCTTS---------CEE--CCSSTTHHHHCHHH
T ss_pred             CceeCCHHHHHHHHHHHHHh----CCCCcEEEECCCCccHHHHHHHHHHhCC---------CeE--EechhhCChHhhhh
Confidence            57899998888888775421    1122477999999999999999987643         000  0011111 111111


Q ss_pred             HHhhccCcceeEEeeCCCCcCccCcchhhhccCCC-CCCcEEEEecC
Q 038234          155 ISESIEGKKYLVVLDDVWTDDYTKWEPFQRCSANG-QCGNNILVTTH  200 (406)
Q Consensus       155 l~~~l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~-~~gs~IivTtR  200 (406)
                      +.+.  .+.-.|+||++..........+...+... ..+.++|.||.
T Consensus        70 ~~~~--a~~~~l~lDei~~l~~~~q~~Ll~~l~~~~~~~~~iI~~tn  114 (143)
T 3co5_A           70 LLQK--AEGGVLYVGDIAQYSRNIQTGITFIIGKAERCRVRVIASCS  114 (143)
T ss_dssp             HHHH--TTTSEEEEEECTTCCHHHHHHHHHHHHHHTTTTCEEEEEEE
T ss_pred             HHHh--CCCCeEEEeChHHCCHHHHHHHHHHHHhCCCCCEEEEEecC
Confidence            1111  23457899999654433333344433322 23467777765

>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=97.84  E-value=5.1e-05  Score=70.30  Aligned_cols=145  Identities=12%  Similarity=0.002  Sum_probs=87.2

Q ss_pred             cchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChH--HHHHHHHHHhcCCCCCCCCHHHHHH---
Q 038234           79 GRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDF--RVAKAIIAALGCETSNLGSLQSLVR---  153 (406)
Q Consensus        79 GR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~--~~~~~i~~~l~~~~~~~~~~~~~~~---  153 (406)
                      |-++.++.|.+.+...     . .+...++|++|+|||++|..+.+....  .-..++ ..+... ......+++..   
T Consensus         1 g~~~~~~~L~~~i~~~-----~-~~~~Lf~Gp~G~GKtt~a~~la~~~~~~~~~~~d~-~~l~~~-~~~~~id~ir~li~   72 (305)
T 2gno_A            1 GAKDQLETLKRIIEKS-----E-GISILINGEDLSYPREVSLELPEYVEKFPPKASDV-LEIDPE-GENIGIDDIRTIKD   72 (305)
T ss_dssp             ---CHHHHHHHHHHTC-----S-SEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTTE-EEECCS-SSCBCHHHHHHHHH
T ss_pred             ChHHHHHHHHHHHHCC-----C-CcEEEEECCCCCCHHHHHHHHHHhCchhhccCCCE-EEEcCC-cCCCCHHHHHHHHH
Confidence            3445567777777642     2 678999999999999999998762000  000000 000110 01223333333   


Q ss_pred             HHHhh-ccCcceeEEeeCCCCcCccCcchhhhccCCCCCCcEEEEecCCh-HHHHHhccCCccccCCCChHHHHHhhhhh
Q 038234          154 CISES-IEGKKYLVVLDDVWTDDYTKWEPFQRCSANGQCGNNILVTTHKK-TVARMMESTNFISIKELSTQECWSLFKQE  231 (406)
Q Consensus       154 ~l~~~-l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTtR~~-~v~~~~~~~~~~~l~~L~~~~a~~Lf~~~  231 (406)
                      ..... ..+++-++|+|++...+....+.+...+....+.+.+|++|.+. .+...+... .+++.+++.++....+.+.
T Consensus        73 ~~~~~p~~~~~kvviIdead~lt~~a~naLLk~LEep~~~t~fIl~t~~~~kl~~tI~SR-~~~f~~l~~~~i~~~L~~~  151 (305)
T 2gno_A           73 FLNYSPELYTRKYVIVHDCERMTQQAANAFLKALEEPPEYAVIVLNTRRWHYLLPTIKSR-VFRVVVNVPKEFRDLVKEK  151 (305)
T ss_dssp             HHTSCCSSSSSEEEEETTGGGBCHHHHHHTHHHHHSCCTTEEEEEEESCGGGSCHHHHTT-SEEEECCCCHHHHHHHHHH
T ss_pred             HHhhccccCCceEEEeccHHHhCHHHHHHHHHHHhCCCCCeEEEEEECChHhChHHHHce-eEeCCCCCHHHHHHHHHHH
Confidence            22221 23567799999997766666677777776555677777766553 444444445 9999999999998888775


Q ss_pred             c
Q 038234          232 S  232 (406)
Q Consensus       232 ~  232 (406)
                      .
T Consensus       152 ~  152 (305)
T 2gno_A          152 I  152 (305)
T ss_dssp             H
T ss_pred             h
Confidence            3

>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=97.82  E-value=0.00015  Score=68.10  Aligned_cols=147  Identities=10%  Similarity=0.035  Sum_probs=87.2

Q ss_pred             hhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChH------------HHHHHHHHHhcCC-----C-
Q 038234           81 DYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDF------------RVAKAIIAALGCE-----T-  142 (406)
Q Consensus        81 ~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~------------~~~~~i~~~l~~~-----~-  142 (406)
                      ++..+.+.+.+...     ...+.+.++|++|+|||++|+.+.+....            .....+...-..+     . 
T Consensus         8 ~~~~~~l~~~i~~~-----~~~~a~L~~G~~G~GKt~~a~~la~~l~~~~~~~~~~c~~c~~c~~~~~~~~~d~~~~~~~   82 (334)
T 1a5t_A            8 RPDFEKLVASYQAG-----RGHHALLIQALPGMGDDALIYALSRYLLCQQPQGHKSCGHCRGCQLMQAGTHPDYYTLAPE   82 (334)
T ss_dssp             HHHHHHHHHHHHTT-----CCCSEEEEECCTTSCHHHHHHHHHHHHTCSSCBTTBCCSCSHHHHHHHHTCCTTEEEECCC
T ss_pred             HHHHHHHHHHHHcC-----CcceeEEEECCCCchHHHHHHHHHHHHhCCCCCCCCCCCCCHHHHHHhcCCCCCEEEEecc
Confidence            45566777777642     33567899999999999999887653210            1111111110000     0 


Q ss_pred             --CCCCCHHHHHHHHHhh----ccCcceeEEeeCCCCcCccCcchhhhccCCCCCCcEEEEecCChH-HHHHh-ccCCcc
Q 038234          143 --SNLGSLQSLVRCISES----IEGKKYLVVLDDVWTDDYTKWEPFQRCSANGQCGNNILVTTHKKT-VARMM-ESTNFI  214 (406)
Q Consensus       143 --~~~~~~~~~~~~l~~~----l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTtR~~~-v~~~~-~~~~~~  214 (406)
                        ......+++...+...    ..+++-++|+|+++..+....+.+...+.....++.+|++|.+.. +...+ +....+
T Consensus        83 ~~~~~~~i~~ir~l~~~~~~~~~~~~~kvviIdead~l~~~a~naLLk~lEep~~~~~~Il~t~~~~~l~~ti~SRc~~~  162 (334)
T 1a5t_A           83 KGKNTLGVDAVREVTEKLNEHARLGGAKVVWVTDAALLTDAAANALLKTLEEPPAETWFFLATREPERLLATLRSRCRLH  162 (334)
T ss_dssp             TTCSSBCHHHHHHHHHHTTSCCTTSSCEEEEESCGGGBCHHHHHHHHHHHTSCCTTEEEEEEESCGGGSCHHHHTTSEEE
T ss_pred             ccCCCCCHHHHHHHHHHHhhccccCCcEEEEECchhhcCHHHHHHHHHHhcCCCCCeEEEEEeCChHhCcHHHhhcceee
Confidence              0112333333322222    235678999999976655555666666665555677777766642 22222 335678


Q ss_pred             ccCCCChHHHHHhhhhhc
Q 038234          215 SIKELSTQECWSLFKQES  232 (406)
Q Consensus       215 ~l~~L~~~~a~~Lf~~~~  232 (406)
                      .+.+++.++....+.+..
T Consensus       163 ~~~~~~~~~~~~~L~~~~  180 (334)
T 1a5t_A          163 YLAPPPEQYAVTWLSREV  180 (334)
T ss_dssp             ECCCCCHHHHHHHHHHHC
T ss_pred             eCCCCCHHHHHHHHHHhc
Confidence            999999999988887764

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=97.81  E-value=1.8e-05  Score=68.49  Aligned_cols=107  Identities=14%  Similarity=0.098  Sum_probs=54.8

Q ss_pred             hHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChH-----------HHHHHHHHHhcCCCCCCCCHHHH
Q 038234           83 KKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDF-----------RVAKAIIAALGCETSNLGSLQSL  151 (406)
Q Consensus        83 ~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~-----------~~~~~i~~~l~~~~~~~~~~~~~  151 (406)
                      .++.+.+++.....  ......+.|+|++|+|||+||+.+++....           .+...+.....     ......+
T Consensus        37 ~~~~~~~~~~~~~~--~~~~~~~~l~G~~GtGKT~la~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~  109 (202)
T 2w58_A           37 AIRFAERFVAEYEP--GKKMKGLYLHGSFGVGKTYLLAAIANELAKRNVSSLIVYVPELFRELKHSLQ-----DQTMNEK  109 (202)
T ss_dssp             HHHHHHHHHHHCCS--SCCCCEEEEECSTTSSHHHHHHHHHHHHHTTTCCEEEEEHHHHHHHHHHC--------CCCHHH
T ss_pred             HHHHHHHHHHHhhh--ccCCCeEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEEhHHHHHHHHHHhc-----cchHHHH
Confidence            44555666654321  112267899999999999999988864321           22222222111     1112233


Q ss_pred             HHHHHhhccCcceeEEeeCCCCcCccCcch--hhh-ccCCC-CCCcEEEEecCC
Q 038234          152 VRCISESIEGKKYLVVLDDVWTDDYTKWEP--FQR-CSANG-QCGNNILVTTHK  201 (406)
Q Consensus       152 ~~~l~~~l~~kr~LlVlDdvw~~~~~~~~~--l~~-~l~~~-~~gs~IivTtR~  201 (406)
                      ...+.+     .-+|||||++......|..  +.. .+... ..+..+|+||..
T Consensus       110 ~~~~~~-----~~~lilDei~~~~~~~~~~~~ll~~~l~~~~~~~~~~i~tsn~  158 (202)
T 2w58_A          110 LDYIKK-----VPVLMLDDLGAEAMSSWVRDDVFGPILQYRMFENLPTFFTSNF  158 (202)
T ss_dssp             HHHHHH-----SSEEEEEEECCC---CCGGGTTHHHHHHHHHHTTCCEEEEESS
T ss_pred             HHHhcC-----CCEEEEcCCCCCcCCHHHHHHHHHHHHHHHHhCCCCEEEEcCC
Confidence            333322     2499999996644444432  222 22211 234568887775

>2qp9_X Vacuolar protein sorting-associated protein 4; ATPase domain, beta domain, C-terminal helix, ATP-binding, E nucleotide-binding; 2.90A {Saccharomyces cerevisiae} PDB: 2qpa_A*

Probab=97.81  E-value=1.3e-05  Score=76.05  Aligned_cols=155  Identities=17%  Similarity=0.116  Sum_probs=81.2

Q ss_pred             CceecchhhHHHHHHHHhcC---C---CCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChHHHHHHHHHHhcCCCCCCCCH
Q 038234           75 SEICGRDYKKNELLSKLLSD---S---SDQQKPIKMISIVGMGGIGKITLAQMAYNDKDFRVAKAIIAALGCETSNLGSL  148 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~---~---~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~~~i~~~l~~~~~~~~~~  148 (406)
                      .+++|.+..++.|.+.+...   .   .......+-|.|+|++|+|||+||+++++.....+...-...+..... ....
T Consensus        51 ~di~G~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~iLL~GppGtGKT~la~ala~~~~~~~~~v~~~~l~~~~~-g~~~  129 (355)
T 2qp9_X           51 EDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDLVSKWM-GESE  129 (355)
T ss_dssp             GGSCCGGGHHHHHHHHTHHHHHCGGGGCSSCCCCCCEEEECSTTSCHHHHHHHHHHHHTCEEEEEEHHHHHSCC----CH
T ss_pred             HHhCCHHHHHHHHHHHHHHHHhCHHHHhcCCCCCceEEEECCCCCcHHHHHHHHHHHhCCCEEEeeHHHHhhhhc-chHH
Confidence            46899999999988876311   0   001223456889999999999999999875432000000000101100 1112


Q ss_pred             HHHHHHHHhhccCcceeEEeeCCCCcCccC-----------cchhhhccC---CCCCCcEEEEecCChH-----HHHHhc
Q 038234          149 QSLVRCISESIEGKKYLVVLDDVWTDDYTK-----------WEPFQRCSA---NGQCGNNILVTTHKKT-----VARMME  209 (406)
Q Consensus       149 ~~~~~~l~~~l~~kr~LlVlDdvw~~~~~~-----------~~~l~~~l~---~~~~gs~IivTtR~~~-----v~~~~~  209 (406)
                      ..+...+......++.+|+||++.......           ...+...+.   ....+..||.||....     +..  .
T Consensus       130 ~~~~~~f~~a~~~~~~vl~iDEid~l~~~r~~~~~~~~~~~~~~ll~~l~~~~~~~~~v~vI~atn~~~~ld~al~r--R  207 (355)
T 2qp9_X          130 KLVKQLFAMARENKPSIIFIDQVDALTGTRGEGESEASRRIKTELLVQMNGVGNDSQGVLVLGATNIPWQLDSAIRR--R  207 (355)
T ss_dssp             HHHHHHHHHHHHTSSEEEEEECGGGGTC------CTHHHHHHHHHHHHHHHCC---CCEEEEEEESCGGGSCHHHHH--T
T ss_pred             HHHHHHHHHHHHcCCeEEEEechHhhcccCCCCcchHHHHHHHHHHHHhhcccccCCCeEEEeecCCcccCCHHHHc--c
Confidence            222223333334678899999995432110           122222221   1233455665665432     222  2


Q ss_pred             cCCccccCCCChHHHHHhhhhhc
Q 038234          210 STNFISIKELSTQECWSLFKQES  232 (406)
Q Consensus       210 ~~~~~~l~~L~~~~a~~Lf~~~~  232 (406)
                      -...+.+...+.++-..+|....
T Consensus       208 f~~~i~i~~P~~~~r~~il~~~l  230 (355)
T 2qp9_X          208 FERRIYIPLPDLAARTTMFEINV  230 (355)
T ss_dssp             CCEEEECCCCCHHHHHHHHHHHH
T ss_pred             cCEEEEeCCcCHHHHHHHHHHHH
Confidence            24567788888888888877644

>3cf0_A Transitional endoplasmic reticulum ATPase; AAA, P97/VCP, ERAD, CDC48, ATP-binding, lipid-binding, nucle binding, nucleus, phosphoprotein, transport; HET: ADP; 3.00A {Mus musculus}

Probab=97.78  E-value=5.2e-05  Score=70.20  Aligned_cols=152  Identities=14%  Similarity=0.108  Sum_probs=83.0

Q ss_pred             CceecchhhHHHHHHHHhcCCC-------CCCCCcEEEEEeeeCCCcHHHHHHHHhcCChHHH----HHHHHHHhcCCCC
Q 038234           75 SEICGRDYKKNELLSKLLSDSS-------DQQKPIKMISIVGMGGIGKITLAQMAYNDKDFRV----AKAIIAALGCETS  143 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~-------~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~----~~~i~~~l~~~~~  143 (406)
                      .+++|.+..+++|.+.+.....       -+-...+.+.|+|++|+|||+||+.+++.....+    ...+.....+.. 
T Consensus        15 ~di~G~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~vLL~Gp~GtGKT~la~ala~~~~~~~i~v~~~~l~~~~~g~~-   93 (301)
T 3cf0_A           15 EDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQANFISIKGPELLTMWFGES-   93 (301)
T ss_dssp             GGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCSEEEEECSSSSSHHHHHHHHHHHTTCEEEEECHHHHHHHHHTTC-
T ss_pred             HHhCCHHHHHHHHHHHHHHHhhCHHHHHHcCCCCCceEEEECCCCcCHHHHHHHHHHHhCCCEEEEEhHHHHhhhcCch-
Confidence            4688999888888877642100       0013356789999999999999999987643200    011111111111 


Q ss_pred             CCCCHHHHHHHHHhhccCcceeEEeeCCCCcCc----------cC----cchhhhccCC--CCCCcEEEEecCChHHH-H
Q 038234          144 NLGSLQSLVRCISESIEGKKYLVVLDDVWTDDY----------TK----WEPFQRCSAN--GQCGNNILVTTHKKTVA-R  206 (406)
Q Consensus       144 ~~~~~~~~~~~l~~~l~~kr~LlVlDdvw~~~~----------~~----~~~l~~~l~~--~~~gs~IivTtR~~~v~-~  206 (406)
                          ...+...+.......+.+|+||++.....          ..    ...+...+..  ...+..||.||...... .
T Consensus        94 ----~~~~~~~f~~a~~~~p~il~iDEid~l~~~~~~~~~~~~~~~~~~~~~lL~~l~~~~~~~~v~vi~atn~~~~ld~  169 (301)
T 3cf0_A           94 ----EANVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKKNVFIIGATNRPDIIDP  169 (301)
T ss_dssp             ----TTHHHHHHHHHHHTCSEEEEECSTTHHHHHHTTTTCCSSCSCCHHHHHHHHHHHSSCTTSSEEEEEEESCGGGSCG
T ss_pred             ----HHHHHHHHHHHHhcCCeEEEEEChHHHhhccCCCcCCcchHHHHHHHHHHHHhhcccCCCCEEEEEecCCccccCh
Confidence                11222333333345678999999953100          00    1223332321  22345667677654322 1


Q ss_pred             H-hc---cCCccccCCCChHHHHHhhhhh
Q 038234          207 M-ME---STNFISIKELSTQECWSLFKQE  231 (406)
Q Consensus       207 ~-~~---~~~~~~l~~L~~~~a~~Lf~~~  231 (406)
                      . ..   -...+.+...+.++-.+++...
T Consensus       170 al~r~gRf~~~i~i~~p~~~~r~~il~~~  198 (301)
T 3cf0_A          170 AILRPGRLDQLIYIPLPDEKSRVAILKAN  198 (301)
T ss_dssp             GGGSTTSSCEEEECCCCCHHHHHHHHHHH
T ss_pred             HHhcCCccceEEecCCcCHHHHHHHHHHH
Confidence            1 11   1356788888888877777653

>1ofh_A ATP-dependent HSL protease ATP-binding subunit HSLU; chaperone, hydrolase, ATP-binding; HET: ADP; 2.5A {Haemophilus influenzae} SCOP: c.37.1.20 PDB: 1ofi_A*

Probab=97.76  E-value=1.2e-05  Score=74.52  Aligned_cols=51  Identities=22%  Similarity=0.229  Sum_probs=36.5

Q ss_pred             CceecchhhHHHHHHHHhcC---CCC-----CCCCcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234           75 SEICGRDYKKNELLSKLLSD---SSD-----QQKPIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~---~~~-----~~~~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ..++|.+..++.+...+...   ...     .......+.++|++|+|||++|+.+++.
T Consensus        15 ~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~   73 (310)
T 1ofh_A           15 QHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKL   73 (310)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHHH
T ss_pred             hhcCChHHHHHHHHHHHHHHHhhhhhcccccccCCCceEEEECCCCCCHHHHHHHHHHH
Confidence            45899999999888877530   000     0112446789999999999999998764

>1r6b_X CLPA protein; AAA+, N-terminal domain, CLPS, crystal, binding mechanism, hydrolase; HET: ADP; 2.25A {Escherichia coli} SCOP: a.174.1.1 c.37.1.20 c.37.1.20 PDB: 1ksf_X*

Probab=97.75  E-value=1.4e-05  Score=83.78  Aligned_cols=149  Identities=14%  Similarity=0.123  Sum_probs=81.8

Q ss_pred             CceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChHHHHH----H--HH----HHhcCCCCC
Q 038234           75 SEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDFRVAK----A--II----AALGCETSN  144 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~~----~--i~----~~l~~~~~~  144 (406)
                      ..++||+.++..+.+.|...      ...-+.|+|.+|+|||++|+.+++........    .  ++    ..+......
T Consensus       186 d~~iGr~~~i~~l~~~l~~~------~~~~vlL~G~~GtGKT~la~~la~~l~~~~v~~~~~~~~~~~~~~~~l~~~~~~  259 (758)
T 1r6b_X          186 DPLIGREKELERAIQVLCRR------RKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSLLAGTKY  259 (758)
T ss_dssp             CCCCSCHHHHHHHHHHHTSS------SSCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCCC---CCCCC
T ss_pred             CCccCCHHHHHHHHHHHhcc------CCCCeEEEcCCCCCHHHHHHHHHHHHHhCCCChhhcCCEEEEEcHHHHhccccc
Confidence            46899999999999999753      24456899999999999999887643110000    0  00    000000011


Q ss_pred             CCCHHH-HHHHHHhhccCcceeEEeeCCCCcCc------cCc---chhhhccCCCCCCcEEEEecCChHHHHHh------
Q 038234          145 LGSLQS-LVRCISESIEGKKYLVVLDDVWTDDY------TKW---EPFQRCSANGQCGNNILVTTHKKTVARMM------  208 (406)
Q Consensus       145 ~~~~~~-~~~~l~~~l~~kr~LlVlDdvw~~~~------~~~---~~l~~~l~~~~~gs~IivTtR~~~v~~~~------  208 (406)
                      ....+. +...+......++.+|++|++...-.      ...   ..+...+.  ..+..+|.+|.........      
T Consensus       260 ~g~~e~~l~~~~~~~~~~~~~iL~IDEi~~l~~~~~~~~~~~~~~~~L~~~l~--~~~~~~I~at~~~~~~~~~~~d~aL  337 (758)
T 1r6b_X          260 RGDFEKRFKALLKQLEQDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLS--SGKIRVIGSTTYQEFSNIFEKDRAL  337 (758)
T ss_dssp             SSCHHHHHHHHHHHHSSSSCEEEEETTTTTTTTSCCSSSCHHHHHHHHSSCSS--SCCCEEEEEECHHHHHCCCCCTTSS
T ss_pred             cchHHHHHHHHHHHHHhcCCeEEEEechHHHhhcCCCCcchHHHHHHHHHHHh--CCCeEEEEEeCchHHhhhhhcCHHH
Confidence            122232 33333333345678999999954310      011   11222222  1244566666544332111      


Q ss_pred             -ccCCccccCCCChHHHHHhhhhh
Q 038234          209 -ESTNFISIKELSTQECWSLFKQE  231 (406)
Q Consensus       209 -~~~~~~~l~~L~~~~a~~Lf~~~  231 (406)
                       .....+.+.+.+.++..+++...
T Consensus       338 ~~Rf~~i~v~~p~~~e~~~il~~l  361 (758)
T 1r6b_X          338 ARRFQKIDITEPSIEETVQIINGL  361 (758)
T ss_dssp             GGGEEEEECCCCCHHHHHHHHHHH
T ss_pred             HhCceEEEcCCCCHHHHHHHHHHH
Confidence             11236889999999988888653

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=97.67  E-value=6.9e-05  Score=78.45  Aligned_cols=139  Identities=14%  Similarity=0.140  Sum_probs=77.1

Q ss_pred             CceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCCh----------HHHH-HHHHHHhcCC--
Q 038234           75 SEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKD----------FRVA-KAIIAALGCE--  141 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~----------~~~~-~~i~~~l~~~--  141 (406)
                      ..++||+.+++.+...|....      ..-+.++|++|+|||++|+.+++...          ..+. .++    +..  
T Consensus       180 d~iiG~~~~i~~l~~~l~~~~------~~~vLL~G~pGtGKT~la~~la~~l~~~~~p~~l~~~~~~~~~~----g~~~~  249 (758)
T 3pxi_A          180 DPVIGRSKEIQRVIEVLSRRT------KNNPVLIGEPGVGKTAIAEGLAQQIINNEVPEILRDKRVMTLDM----GTKYR  249 (758)
T ss_dssp             CCCCCCHHHHHHHHHHHHCSS------SCEEEEESCTTTTTHHHHHHHHHHHHSSCSCTTTSSCCEECC-----------
T ss_pred             CCccCchHHHHHHHHHHhCCC------CCCeEEECCCCCCHHHHHHHHHHHHhcCCCChhhcCCeEEEecc----ccccc
Confidence            468999999999999997532      33478999999999999998876520          0000 000    000  


Q ss_pred             CCCCCCHHHHHHHHHhhccCcceeEEeeCCCCcCccCcchhhhccCCCCCCcEEEEecCChHHHHH-------hccCCcc
Q 038234          142 TSNLGSLQSLVRCISESIEGKKYLVVLDDVWTDDYTKWEPFQRCSANGQCGNNILVTTHKKTVARM-------MESTNFI  214 (406)
Q Consensus       142 ~~~~~~~~~~~~~l~~~l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTtR~~~v~~~-------~~~~~~~  214 (406)
                      .........   .+......++.+|++|.-  .  +..+.+...+..  ....+|.||........       ...-..+
T Consensus       250 G~~e~~l~~---~~~~~~~~~~~iLfiD~~--~--~~~~~L~~~l~~--~~v~~I~at~~~~~~~~~~~d~al~rRf~~i  320 (758)
T 3pxi_A          250 GEFEDRLKK---VMDEIRQAGNIILFIDAA--I--DASNILKPSLAR--GELQCIGATTLDEYRKYIEKDAALERRFQPI  320 (758)
T ss_dssp             ---CTTHHH---HHHHHHTCCCCEEEECC------------CCCTTS--SSCEEEEECCTTTTHHHHTTCSHHHHSEEEE
T ss_pred             chHHHHHHH---HHHHHHhcCCEEEEEcCc--h--hHHHHHHHHHhc--CCEEEEeCCChHHHHHHhhccHHHHhhCcEE
Confidence            000112222   333333467889999922  1  222334333332  23456655554431111       1123568


Q ss_pred             ccCCCChHHHHHhhhhhc
Q 038234          215 SIKELSTQECWSLFKQES  232 (406)
Q Consensus       215 ~l~~L~~~~a~~Lf~~~~  232 (406)
                      .+...+.++...++....
T Consensus       321 ~v~~p~~~~~~~il~~~~  338 (758)
T 3pxi_A          321 QVDQPSVDESIQILQGLR  338 (758)
T ss_dssp             ECCCCCHHHHHHHHHHTT
T ss_pred             EeCCCCHHHHHHHHHHHH
Confidence            999999999999887543

>2r62_A Cell division protease FTSH homolog; ATPase domain, ATP-binding, cell CELL division, hydrolase, membrane, metal-binding; 3.30A {Helicobacter pylori} PDB: 2r65_A*

Probab=97.63  E-value=6.5e-06  Score=74.80  Aligned_cols=51  Identities=24%  Similarity=0.254  Sum_probs=34.6

Q ss_pred             CceecchhhHHHHHHHHhcCCCC------CCCCcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234           75 SEICGRDYKKNELLSKLLSDSSD------QQKPIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~------~~~~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      .+++|.+..++.+.+.+..-...      +....+-+.|+|++|+|||+||+.+++.
T Consensus        11 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~   67 (268)
T 2r62_A           11 KDMAGNEEAKEEVVEIVDFLKYPERYANLGAKIPKGVLLVGPPGTGKTLLAKAVAGE   67 (268)
T ss_dssp             TTSSSCTTTHHHHHHHHHHHHCHHHHHHHSCCCCSCCCCBCSSCSSHHHHHHHHHHH
T ss_pred             HHhCCcHHHHHHHHHHHHHHHChHHHHHCCCCCCceEEEECCCCCcHHHHHHHHHHH
Confidence            46899998888777765410000      0111233779999999999999998764

>2bjv_A PSP operon transcriptional activator; AAA, transcription activation, gene regulation, sigma54 activator, enhancer binding protein, PSPF; 1.7A {Escherichia coli} PDB: 2bjw_A 2c96_A* 2c98_A* 2c99_A* 2c9c_A* 2vii_A*

Probab=97.62  E-value=2.1e-05  Score=71.25  Aligned_cols=47  Identities=21%  Similarity=0.162  Sum_probs=34.1

Q ss_pred             ceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234           76 EICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus        76 ~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      .++|....+.++.+.+..-..    ....+.|+|.+|+|||+||+.+++..
T Consensus         7 ~~ig~~~~~~~~~~~~~~~~~----~~~~vll~G~~GtGKt~la~~i~~~~   53 (265)
T 2bjv_A            7 NLLGEANSFLEVLEQVSHLAP----LDKPVLIIGERGTGKELIASRLHYLS   53 (265)
T ss_dssp             ---CCCHHHHHHHHHHHHHTT----SCSCEEEECCTTSCHHHHHHHHHHTS
T ss_pred             cceeCCHHHHHHHHHHHHHhC----CCCCEEEECCCCCcHHHHHHHHHHhc
Confidence            478999988888877654221    12357799999999999999998764

>3hu3_A Transitional endoplasmic reticulum ATPase; VCP, transport protein; HET: AGS; 2.20A {Homo sapiens} PDB: 3hu2_A* 3hu1_A* 1e32_A* 1s3s_A*

Probab=97.59  E-value=1.3e-05  Score=79.37  Aligned_cols=157  Identities=11%  Similarity=0.071  Sum_probs=84.4

Q ss_pred             CceecchhhHHHHHHHHhcCCCC-------CCCCcEEEEEeeeCCCcHHHHHHHHhcCChHHHHHHHHHHhcCCCCCCCC
Q 038234           75 SEICGRDYKKNELLSKLLSDSSD-------QQKPIKMISIVGMGGIGKITLAQMAYNDKDFRVAKAIIAALGCETSNLGS  147 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~-------~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~~~i~~~l~~~~~~~~~  147 (406)
                      ..++|.+..++++.+++......       +....+-+.|+|++|+|||+||+++++.....+..--...+..... ...
T Consensus       204 ~~i~G~~~~~~~l~~~i~~~l~~~~~~~~~g~~~~~~vLL~GppGtGKT~lAraia~~~~~~fv~vn~~~l~~~~~-g~~  282 (489)
T 3hu3_A          204 DDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLA-GES  282 (489)
T ss_dssp             GGCCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCEEEEECSTTSSHHHHHHHHHHHCSSEEEEEEHHHHHTSCT-THH
T ss_pred             HHcCCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCcEEEECcCCCCHHHHHHHHHHHhCCCEEEEEchHhhhhhc-chh
Confidence            45899999999988877532000       0123456899999999999999999875432000000000000000 111


Q ss_pred             HHHHHHHHHhhccCcceeEEeeCCCCcCc-----------cCcchhhhccC--CCCCCcEEEEecCChH-HHHHh----c
Q 038234          148 LQSLVRCISESIEGKKYLVVLDDVWTDDY-----------TKWEPFQRCSA--NGQCGNNILVTTHKKT-VARMM----E  209 (406)
Q Consensus       148 ~~~~~~~l~~~l~~kr~LlVlDdvw~~~~-----------~~~~~l~~~l~--~~~~gs~IivTtR~~~-v~~~~----~  209 (406)
                      ...+...+.....+++.+|+||++.....           .....+...+.  ....+..||.||.... +...+    .
T Consensus       283 ~~~~~~~f~~A~~~~p~iLfLDEId~l~~~~~~~~~~~~~~~~~~LL~~ld~~~~~~~v~vIaaTn~~~~Ld~al~r~gR  362 (489)
T 3hu3_A          283 ESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRAHVIVMAATNRPNSIDPALRRFGR  362 (489)
T ss_dssp             HHHHHHHHHHHHHTCSEEEEEESHHHHCBCTTSCCCHHHHHHHHHHHHHHHHSCTTSCEEEEEEESCGGGBCGGGGSTTS
T ss_pred             HHHHHHHHHHHHhcCCcEEEecchhhhccccccccchHHHHHHHHHHHHhhccccCCceEEEEecCCccccCHHHhCCCc
Confidence            22333444555567788999999832110           01112333332  1223445555665542 11111    1


Q ss_pred             cCCccccCCCChHHHHHhhhhhc
Q 038234          210 STNFISIKELSTQECWSLFKQES  232 (406)
Q Consensus       210 ~~~~~~l~~L~~~~a~~Lf~~~~  232 (406)
                      -...+.+...+.++-.++|....
T Consensus       363 f~~~i~i~~P~~~eR~~IL~~~~  385 (489)
T 3hu3_A          363 FDREVDIGIPDATGRLEILQIHT  385 (489)
T ss_dssp             SCEEEECCCCCHHHHHHHHHHHT
T ss_pred             CceEEEeCCCCHHHHHHHHHHHH
Confidence            13467888888888888887644

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=97.58  E-value=2.9e-05  Score=72.01  Aligned_cols=50  Identities=22%  Similarity=0.377  Sum_probs=36.8

Q ss_pred             ceecchhhHHHHHHHHhcCC---CCCCCCcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234           76 EICGRDYKKNELLSKLLSDS---SDQQKPIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus        76 ~~vGR~~~~~~l~~~L~~~~---~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      .++|.+..++.+...+....   .....+...+.++|++|+|||++|+.+++.
T Consensus        18 ~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~ll~G~~GtGKt~la~~la~~   70 (311)
T 4fcw_A           18 RVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAAT   70 (311)
T ss_dssp             TCCSCHHHHHHHHHHHHHHHHTCSCTTSCSEEEEEESCSSSSHHHHHHHHHHH
T ss_pred             hcCCHHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCcCHHHHHHHHHHH
Confidence            47788888888877775421   001233568999999999999999988764

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=97.54  E-value=9e-05  Score=69.28  Aligned_cols=151  Identities=17%  Similarity=0.138  Sum_probs=80.6

Q ss_pred             CceecchhhHHHHHHHHhcC---C---CCCCCCcEEEEEeeeCCCcHHHHHHHHhcCC-hHHHHHHHHHHhcCCC---C-
Q 038234           75 SEICGRDYKKNELLSKLLSD---S---SDQQKPIKMISIVGMGGIGKITLAQMAYNDK-DFRVAKAIIAALGCET---S-  143 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~---~---~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~-~~~~~~~i~~~l~~~~---~-  143 (406)
                      .+++|.+..++.|.+.+...   .   .....+.+.+.|+|++|+|||+||+++++.. ...+.     .+....   . 
T Consensus        12 ~di~G~~~~k~~l~~~v~~p~~~~~~~~~~~~~~~~iLL~GppGtGKT~la~ala~~~~~~~~~-----~i~~~~l~~~~   86 (322)
T 1xwi_A           12 SDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATEANNSTFF-----SISSSDLVSKW   86 (322)
T ss_dssp             GGSCSCHHHHHHHHHHHHHHHHCGGGSCTTCCCCSEEEEESSSSSCHHHHHHHHHHHTTSCEEE-----EEECCSSCCSS
T ss_pred             HHhcCHHHHHHHHHHHHHHHHhCHHHHhCCCCCCceEEEECCCCccHHHHHHHHHHHcCCCcEE-----EEEhHHHHhhh
Confidence            56889998888887766310   0   0012335678999999999999999998754 11000     000000   0 


Q ss_pred             CCCCHHHHHHHHHhhccCcceeEEeeCCCCcCcc------C-----cchhhhccCC---CCCCcEEEEecCChH-----H
Q 038234          144 NLGSLQSLVRCISESIEGKKYLVVLDDVWTDDYT------K-----WEPFQRCSAN---GQCGNNILVTTHKKT-----V  204 (406)
Q Consensus       144 ~~~~~~~~~~~l~~~l~~kr~LlVlDdvw~~~~~------~-----~~~l~~~l~~---~~~gs~IivTtR~~~-----v  204 (406)
                      .......+...+...-..++.+|+||++......      .     ...+...+..   ...+..||.||....     +
T Consensus        87 ~g~~~~~~~~lf~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~~v~vI~atn~~~~ld~al  166 (322)
T 1xwi_A           87 LGESEKLVKNLFQLARENKPSIIFIDEIDSLCGSRSENESEAARRIKTEFLVQMQGVGVDNDGILVLGATNIPWVLDSAI  166 (322)
T ss_dssp             CCSCHHHHHHHHHHHHHTSSEEEEEETTTGGGCCSSSCCTTHHHHHHHHHHHHHHCSSSCCTTEEEEEEESCTTTSCHHH
T ss_pred             hhHHHHHHHHHHHHHHhcCCcEEEeecHHHhccccccccchHHHHHHHHHHHHHhcccccCCCEEEEEecCCcccCCHHH
Confidence            0112222333333333467889999999543110      0     0112222211   223445555554431     2


Q ss_pred             HHHhccCCccccCCCChHHHHHhhhhhc
Q 038234          205 ARMMESTNFISIKELSTQECWSLFKQES  232 (406)
Q Consensus       205 ~~~~~~~~~~~l~~L~~~~a~~Lf~~~~  232 (406)
                      ..  .-...+.+...+.++-..+|....
T Consensus       167 ~r--Rf~~~i~i~~P~~~~r~~il~~~l  192 (322)
T 1xwi_A          167 RR--RFEKRIYIPLPEPHARAAMFKLHL  192 (322)
T ss_dssp             HH--TCCEEEECCCCCHHHHHHHHHHHH
T ss_pred             Hh--hcCeEEEeCCcCHHHHHHHHHHHH
Confidence            22  224567788888888888776643

>3d8b_A Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, structural genomics consortium, ATP- hydrolase, magnesium, metal-binding, nucleotide-binding; HET: ADP; 2.00A {Homo sapiens}

Probab=97.52  E-value=2.7e-05  Score=73.95  Aligned_cols=155  Identities=12%  Similarity=0.083  Sum_probs=78.7

Q ss_pred             CceecchhhHHHHHHHHhcC---CCC---CCCCcEEEEEeeeCCCcHHHHHHHHhcCChHHHHHHHHHHhcCCCCCCCCH
Q 038234           75 SEICGRDYKKNELLSKLLSD---SSD---QQKPIKMISIVGMGGIGKITLAQMAYNDKDFRVAKAIIAALGCETSNLGSL  148 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~---~~~---~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~~~i~~~l~~~~~~~~~~  148 (406)
                      .+++|.+..++.|.+.+...   ...   .....+.+.|+|++|+|||+||+.+++.....+..--...+...  .....
T Consensus        84 ~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vLl~GppGtGKT~la~aia~~~~~~~~~i~~~~l~~~--~~g~~  161 (357)
T 3d8b_A           84 EDIAGVEFAKATIKEIVVWPMLRPDIFTGLRGPPKGILLFGPPGTGKTLIGKCIASQSGATFFSISASSLTSK--WVGEG  161 (357)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCTTTSCGGGSCCSEEEEESSTTSSHHHHHHHHHHHTTCEEEEEEGGGGCCS--STTHH
T ss_pred             HHhCChHHHHHHHHHHHHHHhhChHhHhhccCCCceEEEECCCCCCHHHHHHHHHHHcCCeEEEEehHHhhcc--ccchH
Confidence            46899999999988877420   000   01235678999999999999999997654210000000000000  00111


Q ss_pred             HHHHH-HHHhhccCcceeEEeeCCCCcCc-----------cCcchhhhccCC----CCCCcEEEEecCChH-HHHHh--c
Q 038234          149 QSLVR-CISESIEGKKYLVVLDDVWTDDY-----------TKWEPFQRCSAN----GQCGNNILVTTHKKT-VARMM--E  209 (406)
Q Consensus       149 ~~~~~-~l~~~l~~kr~LlVlDdvw~~~~-----------~~~~~l~~~l~~----~~~gs~IivTtR~~~-v~~~~--~  209 (406)
                      ..... .+......++.+|+||++.....           .....+...+..    ...+..||.||.... +...+  .
T Consensus       162 ~~~~~~~~~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~lL~~l~~~~~~~~~~v~vI~atn~~~~l~~~l~~R  241 (357)
T 3d8b_A          162 EKMVRALFAVARCQQPAVIFIDEIDSLLSQRGDGEHESSRRIKTEFLVQLDGATTSSEDRILVVGATNRPQEIDEAARRR  241 (357)
T ss_dssp             HHHHHHHHHHHHHTCSEEEEEETHHHHTBC------CHHHHHHHHHHHHHHC----CCCCEEEEEEESCGGGBCHHHHTT
T ss_pred             HHHHHHHHHHHHhcCCeEEEEeCchhhhccCCCCcchHHHHHHHHHHHHHhcccccCCCCEEEEEecCChhhCCHHHHhh
Confidence            22222 22222345678999999843210           001122222221    123445555665432 11111  1


Q ss_pred             cCCccccCCCChHHHHHhhhhh
Q 038234          210 STNFISIKELSTQECWSLFKQE  231 (406)
Q Consensus       210 ~~~~~~l~~L~~~~a~~Lf~~~  231 (406)
                      -...+.+...+.++...++...
T Consensus       242 f~~~i~i~~p~~~~r~~il~~~  263 (357)
T 3d8b_A          242 LVKRLYIPLPEASARKQIVINL  263 (357)
T ss_dssp             CCEEEECCCCCHHHHHHHHHHH
T ss_pred             CceEEEeCCcCHHHHHHHHHHH
Confidence            1346677888888877777654

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=97.51  E-value=4.2e-05  Score=70.47  Aligned_cols=150  Identities=17%  Similarity=0.165  Sum_probs=77.9

Q ss_pred             CceecchhhHHHHHHHHhcCC------CCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChHHHHHHHHHHhcCCC---CCC
Q 038234           75 SEICGRDYKKNELLSKLLSDS------SDQQKPIKMISIVGMGGIGKITLAQMAYNDKDFRVAKAIIAALGCET---SNL  145 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~------~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~~~i~~~l~~~~---~~~  145 (406)
                      .+++|.+..++.+.+.+....      ..-....+.+.|+|++|+|||+||+.+++.....+.     .+....   ...
T Consensus        21 ~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~la~~la~~~~~~~~-----~i~~~~l~~~~~   95 (297)
T 3b9p_A           21 TDIAGQDVAKQALQEMVILPSVRPELFTGLRAPAKGLLLFGPPGNGKTLLARAVATECSATFL-----NISAASLTSKYV   95 (297)
T ss_dssp             GGSCCCHHHHHHHHHHTHHHHHCGGGSCGGGCCCSEEEEESSSSSCHHHHHHHHHHHTTCEEE-----EEESTTTSSSSC
T ss_pred             HHhCChHHHHHHHHHHHHhhhhCHHHHhcCCCCCCeEEEECcCCCCHHHHHHHHHHHhCCCeE-----EeeHHHHhhccc
Confidence            468999999999888763210      000123567899999999999999999875421000     000000   011


Q ss_pred             CCHHHHH-HHHHhhccCcceeEEeeCCCCcCccC-------cc----hhhhc---cCCC--CCCcEEEEecCChH-----
Q 038234          146 GSLQSLV-RCISESIEGKKYLVVLDDVWTDDYTK-------WE----PFQRC---SANG--QCGNNILVTTHKKT-----  203 (406)
Q Consensus       146 ~~~~~~~-~~l~~~l~~kr~LlVlDdvw~~~~~~-------~~----~l~~~---l~~~--~~gs~IivTtR~~~-----  203 (406)
                      ....... ..+......++.+|+||++.......       -.    .+...   ++..  +.+..||.||....     
T Consensus        96 ~~~~~~~~~~~~~~~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~~v~vi~~tn~~~~l~~~  175 (297)
T 3b9p_A           96 GDGEKLVRALFAVARHMQPSIIFIDEVDSLLSERSSSEHEASRRLKTEFLVEFDGLPGNPDGDRIVVLAATNRPQELDEA  175 (297)
T ss_dssp             SCHHHHHHHHHHHHHHTCSEEEEEETGGGTSBCC-----CCSHHHHHHHHHHHHHCC------CEEEEEEESCGGGBCHH
T ss_pred             chHHHHHHHHHHHHHHcCCcEEEeccHHHhccccccCcchHHHHHHHHHHHHHhcccccCCCCcEEEEeecCChhhCCHH
Confidence            1222222 22333334577899999994321100       00    11111   1211  12445666666532     


Q ss_pred             HHHHhccCCccccCCCChHHHHHhhhhh
Q 038234          204 VARMMESTNFISIKELSTQECWSLFKQE  231 (406)
Q Consensus       204 v~~~~~~~~~~~l~~L~~~~a~~Lf~~~  231 (406)
                      +...  -...+.+...+.++...++...
T Consensus       176 l~~R--~~~~i~~~~p~~~~r~~il~~~  201 (297)
T 3b9p_A          176 ALRR--FTKRVYVSLPDEQTRELLLNRL  201 (297)
T ss_dssp             HHHH--CCEEEECCCCCHHHHHHHHHHH
T ss_pred             HHhh--CCeEEEeCCcCHHHHHHHHHHH
Confidence            2221  2345667777777776666553

>1ojl_A Transcriptional regulatory protein ZRAR; response regulator, two component system, AAA domain, NTRC family, DNA-binding; HET: ATP; 3.0A {Salmonella typhimurium}

Probab=97.49  E-value=3.6e-05  Score=71.40  Aligned_cols=47  Identities=21%  Similarity=0.197  Sum_probs=36.5

Q ss_pred             CceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234           75 SEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ..++|+...+.++.+.+..-.    .....|.|+|.+|+|||++|+.+++.
T Consensus         2 ~~iig~s~~~~~~~~~~~~~a----~~~~~vLi~Ge~GtGKt~lAr~i~~~   48 (304)
T 1ojl_A            2 SHMIGSSPAMQHLLNEIAMVA----PSDATVLIHGDSGTGKELVARALHAC   48 (304)
T ss_dssp             -CCCCCSHHHHHHHHHHHHHC----STTSCEEEESCTTSCHHHHHHHHHHH
T ss_pred             CCcEECCHHHHHHHHHHHHHh----CCCCcEEEECCCCchHHHHHHHHHHh
Confidence            357899999999888876532    12335779999999999999999873

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens}

Probab=97.47  E-value=1.8e-05  Score=76.04  Aligned_cols=153  Identities=14%  Similarity=0.128  Sum_probs=77.1

Q ss_pred             CceecchhhHHHHHHHHhcCCC------CCCCCcEEEEEeeeCCCcHHHHHHHHhcCChHHHHHHHHHHhcCCCC---CC
Q 038234           75 SEICGRDYKKNELLSKLLSDSS------DQQKPIKMISIVGMGGIGKITLAQMAYNDKDFRVAKAIIAALGCETS---NL  145 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~------~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~~~i~~~l~~~~~---~~  145 (406)
                      .+++|.+..++.+.+.+.....      .-....+.+.|+|.+|+|||+||+.+++.....+.     .+.....   ..
T Consensus       115 ~~iiG~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~aia~~~~~~~~-----~v~~~~l~~~~~  189 (389)
T 3vfd_A          115 DDIAGQDLAKQALQEIVILPSLRPELFTGLRAPARGLLLFGPPGNGKTMLAKAVAAESNATFF-----NISAASLTSKYV  189 (389)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCTTTSCGGGCCCSEEEEESSTTSCHHHHHHHHHHHTTCEEE-----EECSCCC-----
T ss_pred             HHhCCHHHHHHHHHHHHHHhccCHHHhcccCCCCceEEEECCCCCCHHHHHHHHHHhhcCcEE-----EeeHHHhhcccc
Confidence            4689999999999887732100      00123467899999999999999999765332000     0000000   00


Q ss_pred             -CCHHHHHHHHHhhccCcceeEEeeCCCCcCc-------cCc----chhhhccC---C-CCCCcEEEEecCChH-HHHHh
Q 038234          146 -GSLQSLVRCISESIEGKKYLVVLDDVWTDDY-------TKW----EPFQRCSA---N-GQCGNNILVTTHKKT-VARMM  208 (406)
Q Consensus       146 -~~~~~~~~~l~~~l~~kr~LlVlDdvw~~~~-------~~~----~~l~~~l~---~-~~~gs~IivTtR~~~-v~~~~  208 (406)
                       .....+...+...-...+.+|+||++.....       ...    ..+...+.   . ......||.||.... +-..+
T Consensus       190 g~~~~~~~~~~~~a~~~~~~il~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~~~l~~~l  269 (389)
T 3vfd_A          190 GEGEKLVRALFAVARELQPSIIFIDQVDSLLCERREGEHDASRRLKTEFLIEFDGVQSAGDDRVLVMGATNRPQELDEAV  269 (389)
T ss_dssp             --CHHHHHHHHHHHHHSSSEEEEEETGGGGC--------CTHHHHHHHHHHHHHHHC-----CEEEEEEESCGGGCCHHH
T ss_pred             chHHHHHHHHHHHHHhcCCeEEEEECchhhcccCCCccchHHHHHHHHHHHHhhcccccCCCCEEEEEecCCchhcCHHH
Confidence             1112222222333344667999999943200       000    11111111   1 122344555565422 11111


Q ss_pred             -cc-CCccccCCCChHHHHHhhhhhc
Q 038234          209 -ES-TNFISIKELSTQECWSLFKQES  232 (406)
Q Consensus       209 -~~-~~~~~l~~L~~~~a~~Lf~~~~  232 (406)
                       .. ...+.+...+.++-..++...+
T Consensus       270 ~~R~~~~i~i~~p~~~~r~~il~~~~  295 (389)
T 3vfd_A          270 LRRFIKRVYVSLPNEETRLLLLKNLL  295 (389)
T ss_dssp             HTTCCEEEECCCCCHHHHHHHHHHHH
T ss_pred             HcCcceEEEcCCcCHHHHHHHHHHHH
Confidence             11 3457788888888877776543

>2zan_A Vacuolar protein sorting-associating protein 4B; SKD1, VPS4B, AAA ATPase, ATP-binding, coiled coil, membrane, nucleotide-binding, phosphorylation; HET: ATP; 3.00A {Mus musculus} PDB: 2zam_A* 2zao_A* 2jqh_A 2jqk_A 1wr0_A 2jq9_A 2k3w_A 1yxr_A

Probab=97.43  E-value=0.0003  Score=68.80  Aligned_cols=149  Identities=18%  Similarity=0.172  Sum_probs=79.2

Q ss_pred             CceecchhhHHHHHHHHhcC----C--CCCCCCcEEEEEeeeCCCcHHHHHHHHhcCC-hH--------HHHHHHHHHhc
Q 038234           75 SEICGRDYKKNELLSKLLSD----S--SDQQKPIKMISIVGMGGIGKITLAQMAYNDK-DF--------RVAKAIIAALG  139 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~----~--~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~-~~--------~~~~~i~~~l~  139 (406)
                      .+++|.+..++.|.+.+...    .  .....+.+.+.|+|++|+|||+||+++++.. ..        .+....   .+
T Consensus       134 ~di~G~~~~k~~l~~~v~~p~~~~~~~~~~~~~~~~vLL~GppGtGKT~lA~aia~~~~~~~~~~v~~~~l~~~~---~g  210 (444)
T 2zan_A          134 SDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATEANNSTFFSISSSDLVSKW---LG  210 (444)
T ss_dssp             GGSCSCHHHHHHHHHHHTHHHHCTTTTSGGGCCCSEEEEECSTTSSHHHHHHHHHHHCCSSEEEEECCC-----------
T ss_pred             HHhcCHHHHHHHHHHHHHHHhhCHHHhhccCCCCceEEEECCCCCCHHHHHHHHHHHcCCCCEEEEeHHHHHhhh---cc
Confidence            46889999888888876310    0  0002335678999999999999999998754 21        111100   00


Q ss_pred             CCCCCCCCHHHHHHHHHhhccCcceeEEeeCCCCcCcc-------Cc----chhhhccCC---CCCCcEEEEecCChHHH
Q 038234          140 CETSNLGSLQSLVRCISESIEGKKYLVVLDDVWTDDYT-------KW----EPFQRCSAN---GQCGNNILVTTHKKTVA  205 (406)
Q Consensus       140 ~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdvw~~~~~-------~~----~~l~~~l~~---~~~gs~IivTtR~~~v~  205 (406)
                       .  .......+.   ...-..++.+|+||++......       ..    ..+...+..   ...+..||.||......
T Consensus       211 -~--~~~~~~~~f---~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~lL~~l~~~~~~~~~v~vI~atn~~~~l  284 (444)
T 2zan_A          211 -E--SEKLVKNLF---QLARENKPSIIFIDEIDSLCGSRSENESEAARRIKTEFLVQMQGVGVDNDGILVLGATNIPWVL  284 (444)
T ss_dssp             ----CCCTHHHHH---HHHHHSCSEEEEESCTTTTCCCSSCCCCGGGHHHHHHHHTTTTCSSCCCSSCEEEEEESCGGGS
T ss_pred             -h--HHHHHHHHH---HHHHHcCCeEEEEechHhhccCCCCccccHHHHHHHHHHHHHhCcccCCCCEEEEecCCCcccc
Confidence             0  111222222   2222457789999999543110       01    112222222   23455666666553211


Q ss_pred             -HH-h-ccCCccccCCCChHHHHHhhhhhc
Q 038234          206 -RM-M-ESTNFISIKELSTQECWSLFKQES  232 (406)
Q Consensus       206 -~~-~-~~~~~~~l~~L~~~~a~~Lf~~~~  232 (406)
                       .. . .-...+.+...+.++-..+|....
T Consensus       285 d~al~rRf~~~i~i~~P~~~~r~~il~~~l  314 (444)
T 2zan_A          285 DSAIRRRFEKRIYIPLPEAHARAAMFRLHL  314 (444)
T ss_dssp             CHHHHTTCCEEEECCCCCHHHHHHHHHHHH
T ss_pred             CHHHHhhcceEEEeCCcCHHHHHHHHHHHH
Confidence             11 1 123466777777777777776643

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=97.27  E-value=0.00012  Score=67.49  Aligned_cols=27  Identities=22%  Similarity=0.302  Sum_probs=23.0

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      ..++.+.++|++|+|||+||+.+++..
T Consensus        34 ~~p~~lLl~GppGtGKT~la~aiA~~l   60 (293)
T 3t15_A           34 KVPLILGIWGGKGQGKSFQCELVFRKM   60 (293)
T ss_dssp             CCCSEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            445688899999999999999998754

>4b4t_J 26S protease regulatory subunit 8 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.20  E-value=0.00019  Score=68.43  Aligned_cols=155  Identities=12%  Similarity=0.038  Sum_probs=81.3

Q ss_pred             CceecchhhHHHHHHHHhcCC-C------CCCCCcEEEEEeeeCCCcHHHHHHHHhcCChHHHHHHHHHHhcCCCCCCCC
Q 038234           75 SEICGRDYKKNELLSKLLSDS-S------DQQKPIKMISIVGMGGIGKITLAQMAYNDKDFRVAKAIIAALGCETSNLGS  147 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~-~------~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~~~i~~~l~~~~~~~~~  147 (406)
                      .++.|.++.+++|.+.+.-.- .      -+-.+.+-|.++|++|.|||.||+++++.....+..--...+.... ...+
T Consensus       148 ~dIgGl~~~k~~l~e~v~~Pl~~pe~f~~~gi~~prGvLL~GPPGTGKTllAkAiA~e~~~~f~~v~~s~l~sk~-vGes  226 (405)
T 4b4t_J          148 DMVGGLTKQIKEIKEVIELPVKHPELFESLGIAQPKGVILYGPPGTGKTLLARAVAHHTDCKFIRVSGAELVQKY-IGEG  226 (405)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCCEEEESCSSSSHHHHHHHHHHHHTCEEEEEEGGGGSCSS-TTHH
T ss_pred             HHhCCHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCceEEeCCCCCCHHHHHHHHHHhhCCCceEEEhHHhhccc-cchH
Confidence            356788888888776543210 0      0134467789999999999999999987643211100000000000 0011


Q ss_pred             HHHHHHHHHhhccCcceeEEeeCCCCcCc-----c---C------cchhhhccCC--CCCCcEEEEecCChHH-----HH
Q 038234          148 LQSLVRCISESIEGKKYLVVLDDVWTDDY-----T---K------WEPFQRCSAN--GQCGNNILVTTHKKTV-----AR  206 (406)
Q Consensus       148 ~~~~~~~l~~~l~~kr~LlVlDdvw~~~~-----~---~------~~~l~~~l~~--~~~gs~IivTtR~~~v-----~~  206 (406)
                      ...+...+...-...+++|++|++..--.     .   .      ...+...+..  ...+-.||.||...+.     .+
T Consensus       227 e~~vr~lF~~Ar~~aP~IIFiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~~~~~V~vIaATNrpd~LDpAllR  306 (405)
T 4b4t_J          227 SRMVRELFVMAREHAPSIIFMDEIDSIGSTRVEGSGGGDSEVQRTMLELLNQLDGFETSKNIKIIMATNRLDILDPALLR  306 (405)
T ss_dssp             HHHHHHHHHHHHHTCSEEEEEESSSCCTTSCSCSSSGGGGHHHHHHHHHHHHHHTTTCCCCEEEEEEESCSSSSCHHHHS
T ss_pred             HHHHHHHHHHHHHhCCceEeeecchhhccCCCCCCCCCcHHHHHHHHHHHHhhhccCCCCCeEEEeccCChhhCCHhHcC
Confidence            22233333333456789999999853210     0   0      1112222222  2234455666655422     11


Q ss_pred             HhccCCccccCCCChHHHHHhhhh
Q 038234          207 MMESTNFISIKELSTQECWSLFKQ  230 (406)
Q Consensus       207 ~~~~~~~~~l~~L~~~~a~~Lf~~  230 (406)
                      .-.-...+.+...+.++-.++|+.
T Consensus       307 pGRfD~~I~i~lPd~~~R~~Il~~  330 (405)
T 4b4t_J          307 PGRIDRKIEFPPPSVAARAEILRI  330 (405)
T ss_dssp             TTSSCCEEECCCCCHHHHHHHHHH
T ss_pred             CCcCceEEEcCCcCHHHHHHHHHH
Confidence            112267788888888877777764

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=97.17  E-value=7.8e-05  Score=78.03  Aligned_cols=151  Identities=15%  Similarity=0.162  Sum_probs=79.1

Q ss_pred             CceecchhhHHHHHHHHhcCCC---CCCCCcEEEEEeeeCCCcHHHHHHHHhcCChH---HHHHHHHHHhcCCCCCCCCH
Q 038234           75 SEICGRDYKKNELLSKLLSDSS---DQQKPIKMISIVGMGGIGKITLAQMAYNDKDF---RVAKAIIAALGCETSNLGSL  148 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~---~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~---~~~~~i~~~l~~~~~~~~~~  148 (406)
                      ..++|.+..++.+...+.....   ....+...+.++|++|+|||+||+.+++....   .+..-=...+..  ......
T Consensus       491 ~~viGq~~a~~~l~~~i~~~~~~~~~~~~p~~~~Ll~Gp~GtGKT~lA~ala~~l~~~~~~~i~i~~s~~~~--~~~~~~  568 (758)
T 3pxi_A          491 SRVIGQDEAVVAVAKAVRRARAGLKDPKRPIGSFIFLGPTGVGKTELARALAESIFGDEESMIRIDMSEYME--KHSTSG  568 (758)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHTTTCSCTTSCSEEEEEESCTTSSHHHHHHHHHHHHHSCTTCEEEEEGGGGCS--SCCCC-
T ss_pred             CcCcChHHHHHHHHHHHHHHHcccCCCCCCceEEEEECCCCCCHHHHHHHHHHHhcCCCcceEEEechhccc--cccccc
Confidence            4688999988888887764221   01233457999999999999999988764210   000000000000  000011


Q ss_pred             HHHHHHHHhhccCcceeEEeeCCCCcCccCcchhhhccCC-----------CCCCcEEEEecCC-----hHHH----HHh
Q 038234          149 QSLVRCISESIEGKKYLVVLDDVWTDDYTKWEPFQRCSAN-----------GQCGNNILVTTHK-----KTVA----RMM  208 (406)
Q Consensus       149 ~~~~~~l~~~l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~-----------~~~gs~IivTtR~-----~~v~----~~~  208 (406)
                      ..+...++.   ....+|+||++...+....+.+...+..           ...+..||+||..     ..+.    ...
T Consensus       569 ~~l~~~~~~---~~~~vl~lDEi~~~~~~~~~~Ll~~le~g~~~~~~g~~~~~~~~~iI~ttn~~~~~~~~~~~~~~~~f  645 (758)
T 3pxi_A          569 GQLTEKVRR---KPYSVVLLDAIEKAHPDVFNILLQVLEDGRLTDSKGRTVDFRNTILIMTSNVGASEKDKVMGELKRAF  645 (758)
T ss_dssp             --CHHHHHH---CSSSEEEEECGGGSCHHHHHHHHHHHHHSBCC-----CCBCTTCEEEEEESSSTTCCHHHHHHHHHHS
T ss_pred             chhhHHHHh---CCCeEEEEeCccccCHHHHHHHHHHhccCeEEcCCCCEeccCCeEEEEeCCCChhhHHHHHHHHHhhC
Confidence            112222222   2345899999966554444555544432           1234578888873     1111    111


Q ss_pred             -----cc-CCccccCCCChHHHHHhhhh
Q 038234          209 -----ES-TNFISIKELSTQECWSLFKQ  230 (406)
Q Consensus       209 -----~~-~~~~~l~~L~~~~a~~Lf~~  230 (406)
                           .. ..++.+.+++.++-..++..
T Consensus       646 ~p~l~~Rl~~~i~~~~l~~~~~~~i~~~  673 (758)
T 3pxi_A          646 RPEFINRIDEIIVFHSLEKKHLTEIVSL  673 (758)
T ss_dssp             CHHHHTTSSEEEECC--CHHHHHHHHHH
T ss_pred             CHHHHhhCCeEEecCCCCHHHHHHHHHH
Confidence                 11 35778888888877766654

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=97.13  E-value=8.6e-05  Score=61.08  Aligned_cols=24  Identities=29%  Similarity=0.268  Sum_probs=21.1

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ...+.|+|..|+|||||++.+++.
T Consensus        36 g~~~~l~G~~G~GKTtL~~~i~~~   59 (149)
T 2kjq_A           36 GQFIYVWGEEGAGKSHLLQAWVAQ   59 (149)
T ss_dssp             CSEEEEESSSTTTTCHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHH
Confidence            458999999999999999998764

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3}

Probab=97.09  E-value=0.00016  Score=67.01  Aligned_cols=42  Identities=19%  Similarity=0.102  Sum_probs=29.0

Q ss_pred             hhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234           82 YKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus        82 ~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      ..++.+.+++....   ......+.|+|++|+|||+||.++++..
T Consensus       135 ~~~~~~~~~i~~~~---~~~~~~lll~G~~GtGKT~La~aia~~~  176 (308)
T 2qgz_A          135 EAFSAILDFVEQYP---SAEQKGLYLYGDMGIGKSYLLAAMAHEL  176 (308)
T ss_dssp             HHHHHHHHHHHHCS---CSSCCEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcc---ccCCceEEEECCCCCCHHHHHHHHHHHH
Confidence            34445556665432   1124678899999999999999887654

>2ce7_A Cell division protein FTSH; metalloprotease; HET: ADP; 2.44A {Thermotoga maritima} SCOP: a.269.1.1 c.37.1.20 PDB: 2cea_A* 3kds_E*

Probab=97.01  E-value=0.00011  Score=72.09  Aligned_cols=156  Identities=11%  Similarity=0.050  Sum_probs=78.6

Q ss_pred             CceecchhhHHHHHHHHhcCCCC------CCCCcEEEEEeeeCCCcHHHHHHHHhcCChHHHHHHHHHHhcCCCCCCCCH
Q 038234           75 SEICGRDYKKNELLSKLLSDSSD------QQKPIKMISIVGMGGIGKITLAQMAYNDKDFRVAKAIIAALGCETSNLGSL  148 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~------~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~~~i~~~l~~~~~~~~~~  148 (406)
                      .+++|.++.++++.+.+..-...      +....+-+.|+|++|+|||+||+.+++.....+..--...+... ......
T Consensus        16 ~di~G~~~~~~~l~e~v~~l~~~~~~~~~g~~~p~gvLL~GppGtGKT~Laraia~~~~~~f~~is~~~~~~~-~~g~~~   94 (476)
T 2ce7_A           16 KDVGGAEEAIEELKEVVEFLKDPSKFNRIGARMPKGILLVGPPGTGKTLLARAVAGEANVPFFHISGSDFVEL-FVGVGA   94 (476)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHCTHHHHTTTCCCCSEEEEECCTTSSHHHHHHHHHHHHTCCEEEEEGGGTTTC-CTTHHH
T ss_pred             HHhCCcHHHHHHHHHHHHHhhChHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHHcCCCeeeCCHHHHHHH-HhcccH
Confidence            45889988777666554311000      01123448899999999999999998643210000000000000 000112


Q ss_pred             HHHHHHHHhhccCcceeEEeeCCCCcCcc--------------CcchhhhccCC--CCCCcEEEEecCChHHHH-H-hcc
Q 038234          149 QSLVRCISESIEGKKYLVVLDDVWTDDYT--------------KWEPFQRCSAN--GQCGNNILVTTHKKTVAR-M-MES  210 (406)
Q Consensus       149 ~~~~~~l~~~l~~kr~LlVlDdvw~~~~~--------------~~~~l~~~l~~--~~~gs~IivTtR~~~v~~-~-~~~  210 (406)
                      ..+...+.....+.+.+|+||++..-...              ....+...+..  ...+..||.||...+... . ...
T Consensus        95 ~~~r~lf~~A~~~~p~ILfIDEid~l~~~r~~~~~g~~~~~~~~l~~LL~~ld~~~~~~~viVIaaTn~~~~Ld~allR~  174 (476)
T 2ce7_A           95 ARVRDLFAQAKAHAPCIVFIDEIDAVGRHRGAGLGGGHDEREQTLNQLLVEMDGFDSKEGIIVMAATNRPDILDPALLRP  174 (476)
T ss_dssp             HHHHHHHHHHHHTCSEEEEEETGGGTCCC---------CHHHHHHHHHHHHHHHSCGGGTEEEEEEESCGGGSCGGGGST
T ss_pred             HHHHHHHHHHHhcCCCEEEEechhhhhhhcccccCcCcHHHHHHHHHHHHHHhccCCCCCEEEEEecCChhhhchhhccc
Confidence            22333444555577899999999442110              11222222211  123556666776654322 1 111


Q ss_pred             ---CCccccCCCChHHHHHhhhhh
Q 038234          211 ---TNFISIKELSTQECWSLFKQE  231 (406)
Q Consensus       211 ---~~~~~l~~L~~~~a~~Lf~~~  231 (406)
                         ...+.+...+.++-.+++...
T Consensus       175 gRFd~~i~i~~Pd~~~R~~Il~~~  198 (476)
T 2ce7_A          175 GRFDKKIVVDPPDMLGRKKILEIH  198 (476)
T ss_dssp             TSSCEEEECCCCCHHHHHHHHHHH
T ss_pred             CcceeEeecCCCCHHHHHHHHHHH
Confidence               336778888877766776543

>3m6a_A ATP-dependent protease LA 1; alpha, beta, ATP-binding, hydrolase, nucleotide-binding, Pro serine protease, stress response; HET: ADP; 3.40A {Bacillus subtilis} PDB: 1x37_A

Probab=96.97  E-value=0.0008  Score=67.44  Aligned_cols=151  Identities=14%  Similarity=0.102  Sum_probs=73.1

Q ss_pred             ceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChH----------HHHHHHHHHhcCCCCCC
Q 038234           76 EICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDF----------RVAKAIIAALGCETSNL  145 (406)
Q Consensus        76 ~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~----------~~~~~i~~~l~~~~~~~  145 (406)
                      +++|.+.-...+.+.+.-..-...-+...+.++|++|+||||||+.++.....          .....+..... ... .
T Consensus        82 di~G~~~vk~~i~~~~~l~~~~~~~~g~~vll~Gp~GtGKTtlar~ia~~l~~~~~~i~~~~~~~~~~~~g~~~-~~i-g  159 (543)
T 3m6a_A           82 EHHGLEKVKERILEYLAVQKLTKSLKGPILCLAGPPGVGKTSLAKSIAKSLGRKFVRISLGGVRDESEIRGHRR-TYV-G  159 (543)
T ss_dssp             HCSSCHHHHHHHHHHHHHHHHSSSCCSCEEEEESSSSSSHHHHHHHHHHHHTCEEEEECCCC------------------
T ss_pred             HhccHHHHHHHHHHHHHHHHhcccCCCCEEEEECCCCCCHHHHHHHHHHhcCCCeEEEEecccchhhhhhhHHH-HHh-c
Confidence            46787776666644332110000124568999999999999999998764321          00000000000 000 0


Q ss_pred             CCHHHHHHHHHhhccCcceeEEeeCCCCcCcc----CcchhhhccCCCC---------------CCcEEEEecCCh----
Q 038234          146 GSLQSLVRCISESIEGKKYLVVLDDVWTDDYT----KWEPFQRCSANGQ---------------CGNNILVTTHKK----  202 (406)
Q Consensus       146 ~~~~~~~~~l~~~l~~kr~LlVlDdvw~~~~~----~~~~l~~~l~~~~---------------~gs~IivTtR~~----  202 (406)
                      .....+...+....... -+++||++......    ....+...+....               ....||.||...    
T Consensus       160 ~~~~~~~~~~~~a~~~~-~vl~lDEid~l~~~~~~~~~~~LL~~ld~~~~~~~~~~~~~~~~~~~~v~iI~ttN~~~~l~  238 (543)
T 3m6a_A          160 AMPGRIIQGMKKAGKLN-PVFLLDEIDKMSSDFRGDPSSAMLEVLDPEQNSSFSDHYIEETFDLSKVLFIATANNLATIP  238 (543)
T ss_dssp             ----CHHHHHHTTCSSS-EEEEEEESSSCC---------CCGGGTCTTTTTBCCCSSSCCCCBCSSCEEEEECSSTTTSC
T ss_pred             cCchHHHHHHHHhhccC-CEEEEhhhhhhhhhhccCHHHHHHHHHhhhhcceeecccCCeeecccceEEEeccCccccCC
Confidence            00111222223322233 38889998654322    1233444432111               234566666543    


Q ss_pred             -HHHHHhccCCccccCCCChHHHHHhhhhhc
Q 038234          203 -TVARMMESTNFISIKELSTQECWSLFKQES  232 (406)
Q Consensus       203 -~v~~~~~~~~~~~l~~L~~~~a~~Lf~~~~  232 (406)
                       .+...   ..++.+.+++.++-..++....
T Consensus       239 ~aL~~R---~~vi~~~~~~~~e~~~Il~~~l  266 (543)
T 3m6a_A          239 GPLRDR---MEIINIAGYTEIEKLEIVKDHL  266 (543)
T ss_dssp             HHHHHH---EEEEECCCCCHHHHHHHHHHTH
T ss_pred             HHHHhh---cceeeeCCCCHHHHHHHHHHHH
Confidence             22222   3578999999998877776643

>1um8_A ATP-dependent CLP protease ATP-binding subunit CL; CLPP binding loop, chaperone; HET: ADP; 2.60A {Helicobacter pylori} SCOP: c.37.1.20

Probab=96.90  E-value=0.00031  Score=67.00  Aligned_cols=25  Identities=28%  Similarity=0.300  Sum_probs=21.3

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      ...+.++|++|+|||++|+.+++..
T Consensus        72 ~~~ill~Gp~GtGKT~la~~la~~l   96 (376)
T 1um8_A           72 KSNILLIGPTGSGKTLMAQTLAKHL   96 (376)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             CCCEEEECCCCCCHHHHHHHHHHHh
Confidence            3468899999999999999987654

>3cf2_A TER ATPase, transitional endoplasmic reticulum ATPase, valosi; AAA, CDC48, ERAD, transport protein; HET: ADP ANP; 3.50A {Mus musculus} PDB: 3cf1_A* 3cf3_A* 1r7r_A*

Probab=96.83  E-value=0.00091  Score=69.58  Aligned_cols=157  Identities=11%  Similarity=0.079  Sum_probs=84.8

Q ss_pred             CceecchhhHHHHHHHHh----cCC---CCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChHHHHHHHHHHhcCCCCCCCC
Q 038234           75 SEICGRDYKKNELLSKLL----SDS---SDQQKPIKMISIVGMGGIGKITLAQMAYNDKDFRVAKAIIAALGCETSNLGS  147 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~----~~~---~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~~~i~~~l~~~~~~~~~  147 (406)
                      .++.|.++.+++|.+.+.    ...   .-+-..++-|.++|++|+|||+||+++++.....+..--...+.... ....
T Consensus       204 ~dIgGl~~~~~~l~e~v~~pl~~p~~f~~~g~~~p~GILL~GPPGTGKT~LAraiA~elg~~~~~v~~~~l~sk~-~ges  282 (806)
T 3cf2_A          204 DDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKL-AGES  282 (806)
T ss_dssp             GGCCSCCTTHHHHHHHHHHHHHCCGGGTSCCCCCCCEEEEECCTTSCHHHHHHHHHTTTTCEEEEEEHHHHHSSC-TTHH
T ss_pred             hhhcCHHHHHHHHHHHHHHHccCHHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHHhCCeEEEEEhHHhhccc-chHH
Confidence            357788888887777642    110   01234577899999999999999999998865411100000111111 1122


Q ss_pred             HHHHHHHHHhhccCcceeEEeeCCCCcC------ccCc-----chhhhccCC--CCCCcEEEEecCChH-HHHHhc----
Q 038234          148 LQSLVRCISESIEGKKYLVVLDDVWTDD------YTKW-----EPFQRCSAN--GQCGNNILVTTHKKT-VARMME----  209 (406)
Q Consensus       148 ~~~~~~~l~~~l~~kr~LlVlDdvw~~~------~~~~-----~~l~~~l~~--~~~gs~IivTtR~~~-v~~~~~----  209 (406)
                      ...+...+.......+.+|+||++..--      ....     ..+...+..  ...+..||.||...+ +-..+.    
T Consensus       283 e~~lr~lF~~A~~~~PsIIfIDEiDal~~~r~~~~~~~~~riv~~LL~~mdg~~~~~~V~VIaaTN~~d~LD~ALrR~GR  362 (806)
T 3cf2_A          283 ESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRAHVIVMAATNRPNSIDPALRRFGR  362 (806)
T ss_dssp             HHHHHHHHHHHTTSCSEEEEEESGGGTCCTTTTCCCTTHHHHHHHHHTHHHHCCGGGCEEEEEECSSTTTSCTTTTSTTS
T ss_pred             HHHHHHHHHHHHHcCCeEEEEehhcccccccCCCCChHHHHHHHHHHHHHhcccccCCEEEEEecCChhhcCHHHhCCcc
Confidence            3334445555566789999999984311      0011     111111111  112334555555432 211111    


Q ss_pred             cCCccccCCCChHHHHHhhhhhc
Q 038234          210 STNFISIKELSTQECWSLFKQES  232 (406)
Q Consensus       210 ~~~~~~l~~L~~~~a~~Lf~~~~  232 (406)
                      -...+++...+.++-.++|....
T Consensus       363 Fd~~I~i~~Pd~~~R~~IL~~~l  385 (806)
T 3cf2_A          363 FDREVDIGIPDATGRLEILQIHT  385 (806)
T ss_dssp             SCEEEECCCCCHHHHHHHHHHTC
T ss_pred             cceEEecCCCCHHHHHHHHHHHh
Confidence            14567888888888777776543

>4b4t_L 26S protease subunit RPT4; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=96.80  E-value=0.00018  Score=69.72  Aligned_cols=97  Identities=18%  Similarity=0.138  Sum_probs=55.0

Q ss_pred             CceecchhhHHHHHHHHhcCC-C------CCCCCcEEEEEeeeCCCcHHHHHHHHhcCChHHHHHHHHHHhcCCCCCCCC
Q 038234           75 SEICGRDYKKNELLSKLLSDS-S------DQQKPIKMISIVGMGGIGKITLAQMAYNDKDFRVAKAIIAALGCETSNLGS  147 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~-~------~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~~~i~~~l~~~~~~~~~  147 (406)
                      .++.|.++.+++|.+.+.-.- .      -+-.+.+-|.++|++|+|||.||+++++.....+..--...+..  .-...
T Consensus       181 ~digGl~~~k~~l~e~v~~pl~~p~~f~~~g~~~prGvLL~GPPGtGKTllAkAiA~e~~~~~~~v~~s~l~s--k~~Ge  258 (437)
T 4b4t_L          181 DGIGGLTEQIRELREVIELPLKNPEIFQRVGIKPPKGVLLYGPPGTGKTLLAKAVAATIGANFIFSPASGIVD--KYIGE  258 (437)
T ss_dssp             GGGCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHHHHTCEEEEEEGGGTCC--SSSSH
T ss_pred             hHhCChHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeEEEECCCCCcHHHHHHHHHHHhCCCEEEEehhhhcc--ccchH
Confidence            356788888877766553210 0      01345678999999999999999999876432111000000000  00111


Q ss_pred             -HHHHHHHHHhhccCcceeEEeeCCCC
Q 038234          148 -LQSLVRCISESIEGKKYLVVLDDVWT  173 (406)
Q Consensus       148 -~~~~~~~l~~~l~~kr~LlVlDdvw~  173 (406)
                       ...+.......-...+++|++|++..
T Consensus       259 se~~ir~~F~~A~~~~P~IifiDEiDa  285 (437)
T 4b4t_L          259 SARIIREMFAYAKEHEPCIIFMDEVDA  285 (437)
T ss_dssp             HHHHHHHHHHHHHHSCSEEEEEECCCS
T ss_pred             HHHHHHHHHHHHHhcCCceeeeecccc
Confidence             22222333333456789999999953

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=96.78  E-value=0.0015  Score=56.30  Aligned_cols=42  Identities=21%  Similarity=0.179  Sum_probs=33.2

Q ss_pred             chhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhc
Q 038234           80 RDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus        80 R~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      |++.++++.+.+....   .....+|+|+|..|+|||||++.+..
T Consensus         3 ~~~~~~~l~~~~~~~~---~~~~~~i~i~G~~GsGKstl~~~l~~   44 (201)
T 1rz3_A            3 LRDRIDFLCKTILAIK---TAGRLVLGIDGLSRSGKTTLANQLSQ   44 (201)
T ss_dssp             HHHHHHHHHHHHHTSC---CSSSEEEEEEECTTSSHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhc---cCCCeEEEEECCCCCCHHHHHHHHHH
Confidence            5567788888887542   34568999999999999999988754

>1qvr_A CLPB protein; coiled coil, AAA ATPase, chaperone; HET: ANP; 3.00A {Thermus thermophilus} SCOP: a.174.1.1 c.37.1.20 c.37.1.20

Probab=96.78  E-value=0.00056  Score=72.50  Aligned_cols=50  Identities=22%  Similarity=0.377  Sum_probs=37.0

Q ss_pred             ceecchhhHHHHHHHHhcCC---CCCCCCcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234           76 EICGRDYKKNELLSKLLSDS---SDQQKPIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus        76 ~~vGR~~~~~~l~~~L~~~~---~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      .++|.+..++.+...+....   .+.+.+...+.|+|++|+|||++|+.+++.
T Consensus       559 ~viG~~~a~~~l~~~i~~~~~g~~~~~~p~~~vLl~Gp~GtGKT~lA~~la~~  611 (854)
T 1qvr_A          559 RVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAAT  611 (854)
T ss_dssp             HSCSCHHHHHHHHHHHHHHGGGCSCSSSCSEEEEEBSCSSSSHHHHHHHHHHH
T ss_pred             ccCCcHHHHHHHHHHHHHHhcccCCCCCCceEEEEECCCCCCHHHHHHHHHHH
Confidence            47899998888877775321   101234568899999999999999988764

>1r6b_X CLPA protein; AAA+, N-terminal domain, CLPS, crystal, binding mechanism, hydrolase; HET: ADP; 2.25A {Escherichia coli} SCOP: a.174.1.1 c.37.1.20 c.37.1.20 PDB: 1ksf_X*

Probab=96.77  E-value=0.00029  Score=73.71  Aligned_cols=51  Identities=18%  Similarity=0.281  Sum_probs=37.0

Q ss_pred             CceecchhhHHHHHHHHhcCC---CCCCCCcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234           75 SEICGRDYKKNELLSKLLSDS---SDQQKPIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~---~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ..++|.+..++.+...+....   ...+.+...+.++|++|+|||++|+.+++.
T Consensus       458 ~~v~g~~~~~~~l~~~i~~~~~g~~~~~~p~~~~ll~G~~GtGKT~la~~la~~  511 (758)
T 1r6b_X          458 MLVFGQDKAIEALTEAIKMARAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKA  511 (758)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHHTTCSCTTSCSEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             hhccCHHHHHHHHHHHHHHHhcccCCCCCCceEEEEECCCCCcHHHHHHHHHHH
Confidence            457899888888877665321   001234567999999999999999988764

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=96.76  E-value=0.00019  Score=69.37  Aligned_cols=97  Identities=14%  Similarity=0.117  Sum_probs=54.7

Q ss_pred             CceecchhhHHHHHHHHhcCCC-------CCCCCcEEEEEeeeCCCcHHHHHHHHhcCChHHHHHHHHHHhcCCCCCCCC
Q 038234           75 SEICGRDYKKNELLSKLLSDSS-------DQQKPIKMISIVGMGGIGKITLAQMAYNDKDFRVAKAIIAALGCETSNLGS  147 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~-------~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~~~i~~~l~~~~~~~~~  147 (406)
                      .++.|.++.+++|.+.+...-.       -+-...+-+.++|++|+|||.||+++++.....+..--...+.... ....
T Consensus       172 ~digGl~~~k~~l~e~v~~pl~~p~~~~~~g~~~prGiLL~GPPGtGKT~lakAiA~~~~~~~~~v~~~~l~~~~-~Ge~  250 (428)
T 4b4t_K          172 ADVGGLDMQKQEIREAVELPLVQADLYEQIGIDPPRGVLLYGPPGTGKTMLVKAVANSTKAAFIRVNGSEFVHKY-LGEG  250 (428)
T ss_dssp             GGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTTTHHHHHHHHHHHHTCEEEEEEGGGTCCSS-CSHH
T ss_pred             HHhccHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCceEEEECCCCCCHHHHHHHHHHHhCCCeEEEecchhhccc-cchh
Confidence            3567888888887775532100       0134567799999999999999999987543211000000000000 0111


Q ss_pred             HHHHHHHHHhhccCcceeEEeeCCC
Q 038234          148 LQSLVRCISESIEGKKYLVVLDDVW  172 (406)
Q Consensus       148 ~~~~~~~l~~~l~~kr~LlVlDdvw  172 (406)
                      ...+...+...-...+++|++|++.
T Consensus       251 e~~ir~lF~~A~~~aP~IifiDEiD  275 (428)
T 4b4t_K          251 PRMVRDVFRLARENAPSIIFIDEVD  275 (428)
T ss_dssp             HHHHHHHHHHHHHTCSEEEEEECTH
T ss_pred             HHHHHHHHHHHHHcCCCeeechhhh
Confidence            2223333333445678999999984

>4b4t_M 26S protease regulatory subunit 6A; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=96.70  E-value=0.00016  Score=69.89  Aligned_cols=96  Identities=21%  Similarity=0.222  Sum_probs=53.7

Q ss_pred             CceecchhhHHHHHHHHhc----CC---CCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChHHHHHHHHHHhcCCCCCCCC
Q 038234           75 SEICGRDYKKNELLSKLLS----DS---SDQQKPIKMISIVGMGGIGKITLAQMAYNDKDFRVAKAIIAALGCETSNLGS  147 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~----~~---~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~~~i~~~l~~~~~~~~~  147 (406)
                      .++.|.++.+++|.+.+..    ..   .-+-...+-|.++|++|.|||.||+++++.....+..--...+...  -...
T Consensus       181 ~digGl~~~k~~l~e~v~~pl~~pe~f~~~g~~~prGvLLyGPPGTGKTllAkAiA~e~~~~f~~v~~s~l~~~--~vGe  258 (434)
T 4b4t_M          181 SDVGGLDKQIEELVEAIVLPMKRADKFKDMGIRAPKGALMYGPPGTGKTLLARACAAQTNATFLKLAAPQLVQM--YIGE  258 (434)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCSHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHHHHTCEEEEEEGGGGCSS--CSSH
T ss_pred             HhcCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeeEEECcCCCCHHHHHHHHHHHhCCCEEEEehhhhhhc--ccch
Confidence            3577888888888765421    10   0013456789999999999999999998764321100000001000  1111


Q ss_pred             HHHHHH-HHHhhccCcceeEEeeCCC
Q 038234          148 LQSLVR-CISESIEGKKYLVVLDDVW  172 (406)
Q Consensus       148 ~~~~~~-~l~~~l~~kr~LlVlDdvw  172 (406)
                      ....++ .+...-...+++|++|++.
T Consensus       259 se~~ir~lF~~A~~~aP~IifiDEiD  284 (434)
T 4b4t_M          259 GAKLVRDAFALAKEKAPTIIFIDELD  284 (434)
T ss_dssp             HHHHHHHHHHHHHHHCSEEEEEECTH
T ss_pred             HHHHHHHHHHHHHhcCCeEEeecchh
Confidence            222222 2222334568999999984

>2c9o_A RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-binding, chromatin regulator, growth regulation, hydrolase, nuclear protein, DNA recombination; HET: ADP; 2.2A {Homo sapiens} PDB: 2xsz_A*

Probab=96.70  E-value=0.00035  Score=68.50  Aligned_cols=92  Identities=13%  Similarity=0.115  Sum_probs=52.2

Q ss_pred             CceecchhhHHHHHH---HHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChH--HHHHHHHHHhcCCCCCCCCHH
Q 038234           75 SEICGRDYKKNELLS---KLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDF--RVAKAIIAALGCETSNLGSLQ  149 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~---~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~--~~~~~i~~~l~~~~~~~~~~~  149 (406)
                      ..++|.+..++.+..   ++...    ..+.+-+.++|++|+|||+||+.+++....  .+..--...+.  .......+
T Consensus        37 ~~iiG~~~~~~~l~~~~~~~~~~----~~~~~~iLl~GppGtGKT~la~ala~~l~~~~~~~~~~~~~~~--~~~~~~~~  110 (456)
T 2c9o_A           37 SGLVGQENAREACGVIVELIKSK----KMAGRAVLLAGPPGTGKTALALAIAQELGSKVPFCPMVGSEVY--STEIKKTE  110 (456)
T ss_dssp             TTEESCHHHHHHHHHHHHHHHTT----CCTTCEEEEECCTTSSHHHHHHHHHHHHCTTSCEEEEEGGGGC--CSSSCHHH
T ss_pred             hhccCHHHHHHHHHHHHHHHHhC----CCCCCeEEEECCCcCCHHHHHHHHHHHhCCCceEEEEeHHHHH--HHhhhhhH
Confidence            568999988775544   34332    223456889999999999999988765321  00000000000  01112223


Q ss_pred             HHHHHHHhh---ccCcceeEEeeCCC
Q 038234          150 SLVRCISES---IEGKKYLVVLDDVW  172 (406)
Q Consensus       150 ~~~~~l~~~---l~~kr~LlVlDdvw  172 (406)
                      .+...+...   -..++.+|++|++.
T Consensus       111 ~~~~~f~~a~~~~~~~~~il~iDEid  136 (456)
T 2c9o_A          111 VLMENFRRAIGLRIKETKEVYEGEVT  136 (456)
T ss_dssp             HHHHHHHHTEEEEEEEEEEEEEEEEE
T ss_pred             HHHHHHHHHHhhhhcCCcEEEEechh
Confidence            344444444   34567899999984

>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=96.69  E-value=0.00044  Score=63.84  Aligned_cols=67  Identities=19%  Similarity=0.238  Sum_probs=40.3

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCChHHHHHHHHHHhc-CC--CCCCCCHHHHHHHHHhhccCcceeEEeeCCC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDKDFRVAKAIIAALG-CE--TSNLGSLQSLVRCISESIEGKKYLVVLDDVW  172 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~~~i~~~l~-~~--~~~~~~~~~~~~~l~~~l~~kr~LlVlDdvw  172 (406)
                      .+++.|+|++|+|||+||.++......   ..++..+. .+  .....+.+.....+.+.+...+ +||+|++.
T Consensus       123 gsviLI~GpPGsGKTtLAlqlA~~~G~---~VlyIs~~~eE~v~~~~~~le~~l~~i~~~l~~~~-LLVIDsI~  192 (331)
T 2vhj_A          123 SGMVIVTGKGNSGKTPLVHALGEALGG---KDKYATVRFGEPLSGYNTDFNVFVDDIARAMLQHR-VIVIDSLK  192 (331)
T ss_dssp             SEEEEEECSCSSSHHHHHHHHHHHHHT---TSCCEEEEBSCSSTTCBCCHHHHHHHHHHHHHHCS-EEEEECCT
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHhCCC---CEEEEEecchhhhhhhhcCHHHHHHHHHHHHhhCC-EEEEeccc
Confidence            457789999999999999988753000   00000110 00  0001345666666666666556 99999994

>4b4t_H 26S protease regulatory subunit 7 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=96.65  E-value=0.00037  Score=67.46  Aligned_cols=96  Identities=17%  Similarity=0.115  Sum_probs=54.3

Q ss_pred             ceecchhhHHHHHHHHhc----CC---CCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChHHHHHHHHHHhcCCCCCCCCH
Q 038234           76 EICGRDYKKNELLSKLLS----DS---SDQQKPIKMISIVGMGGIGKITLAQMAYNDKDFRVAKAIIAALGCETSNLGSL  148 (406)
Q Consensus        76 ~~vGR~~~~~~l~~~L~~----~~---~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~~~i~~~l~~~~~~~~~~  148 (406)
                      ++.|.++.+++|.+.+.-    ..   .-+-...+-|.++|++|+|||.||+++++.....+..--...+.... ...+.
T Consensus       210 DIgGl~~~k~~L~e~V~~pl~~pe~f~~~Gi~pprGILLyGPPGTGKTlLAkAiA~e~~~~fi~vs~s~L~sk~-vGese  288 (467)
T 4b4t_H          210 DVGGCKDQIEKLREVVELPLLSPERFATLGIDPPKGILLYGPPGTGKTLCARAVANRTDATFIRVIGSELVQKY-VGEGA  288 (467)
T ss_dssp             SCTTCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCSEEEECSCTTSSHHHHHHHHHHHHTCEEEEEEGGGGCCCS-SSHHH
T ss_pred             HhccHHHHHHHHHHHHHHHhcCHHHHHHCCCCCCCceEeeCCCCCcHHHHHHHHHhccCCCeEEEEhHHhhccc-CCHHH
Confidence            577888888888765421    00   00134577899999999999999999987543211100000011000 00112


Q ss_pred             HHHHHHHHhhccCcceeEEeeCCC
Q 038234          149 QSLVRCISESIEGKKYLVVLDDVW  172 (406)
Q Consensus       149 ~~~~~~l~~~l~~kr~LlVlDdvw  172 (406)
                      ..+...+...-...+++|++|++.
T Consensus       289 k~ir~lF~~Ar~~aP~IIfiDEiD  312 (467)
T 4b4t_H          289 RMVRELFEMARTKKACIIFFDEID  312 (467)
T ss_dssp             HHHHHHHHHHHHTCSEEEEEECCT
T ss_pred             HHHHHHHHHHHhcCCceEeecccc
Confidence            223333333445678999999985

>4b4t_I 26S protease regulatory subunit 4 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=96.39  E-value=0.00034  Score=67.14  Aligned_cols=96  Identities=22%  Similarity=0.224  Sum_probs=53.8

Q ss_pred             CceecchhhHHHHHHHHhc---CCC----CCCCCcEEEEEeeeCCCcHHHHHHHHhcCChHHHHHHHHHHhcCCCCCCCC
Q 038234           75 SEICGRDYKKNELLSKLLS---DSS----DQQKPIKMISIVGMGGIGKITLAQMAYNDKDFRVAKAIIAALGCETSNLGS  147 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~---~~~----~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~~~i~~~l~~~~~~~~~  147 (406)
                      .++.|.++.+++|.+.+.-   ...    -+-...+-|.++|++|.|||.||+++++.....+..--...+..  .-..+
T Consensus       182 ~DIgGld~~k~~L~e~v~~Pl~~pe~f~~~Gi~~prGvLLyGPPGTGKTlLAkAiA~e~~~~fi~v~~s~l~s--k~vGe  259 (437)
T 4b4t_I          182 SDIGGLESQIQEIKESVELPLTHPELYEEMGIKPPKGVILYGAPGTGKTLLAKAVANQTSATFLRIVGSELIQ--KYLGD  259 (437)
T ss_dssp             GGTCSCHHHHHHHHHHHHHHHHCCHHHHHHTCCCCSEEEEESSTTTTHHHHHHHHHHHHTCEEEEEESGGGCC--SSSSH
T ss_pred             eecCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCCCceECCCCchHHHHHHHHHHHhCCCEEEEEHHHhhh--ccCch
Confidence            3566888888777765432   100    01345678999999999999999999876432111000000000  01112


Q ss_pred             HHHHH-HHHHhhccCcceeEEeeCCC
Q 038234          148 LQSLV-RCISESIEGKKYLVVLDDVW  172 (406)
Q Consensus       148 ~~~~~-~~l~~~l~~kr~LlVlDdvw  172 (406)
                      .+..+ ..+...-...+++|++|++.
T Consensus       260 sek~ir~lF~~Ar~~aP~IIfiDEiD  285 (437)
T 4b4t_I          260 GPRLCRQIFKVAGENAPSIVFIDEID  285 (437)
T ss_dssp             HHHHHHHHHHHHHHTCSEEEEEEEES
T ss_pred             HHHHHHHHHHHHHhcCCcEEEEehhh
Confidence            22222 22333334678999999985

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=96.31  E-value=0.0031  Score=54.58  Aligned_cols=39  Identities=23%  Similarity=0.268  Sum_probs=28.4

Q ss_pred             hHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234           83 KKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus        83 ~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      -+++|.+.+...    .++..+|+|+|..|.|||||++.+...
T Consensus         7 ~~~~~~~~~~~~----~~~g~~v~I~G~sGsGKSTl~~~l~~~   45 (208)
T 3c8u_A            7 LCQGVLERLDPR----QPGRQLVALSGAPGSGKSTLSNPLAAA   45 (208)
T ss_dssp             HHHHHHHHSCTT----CCSCEEEEEECCTTSCTHHHHHHHHHH
T ss_pred             HHHHHHHHHHhc----CCCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            445555665532    245779999999999999999887543

>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=96.14  E-value=0.0035  Score=53.19  Aligned_cols=26  Identities=27%  Similarity=0.267  Sum_probs=22.8

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          101 PIKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      ...+++|+|++|+|||||++.+....
T Consensus         8 ~g~~i~l~G~~GsGKSTl~~~La~~~   33 (191)
T 1zp6_A            8 GGNILLLSGHPGSGKSTIAEALANLP   33 (191)
T ss_dssp             TTEEEEEEECTTSCHHHHHHHHHTCS
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHhcc
Confidence            35789999999999999999997753

>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=96.10  E-value=0.0026  Score=52.94  Aligned_cols=20  Identities=45%  Similarity=0.670  Sum_probs=18.7

Q ss_pred             EEEEEeeeCCCcHHHHHHHH
Q 038234          103 KMISIVGMGGIGKITLAQMA  122 (406)
Q Consensus       103 ~vi~I~G~gGiGKTtLA~~v  122 (406)
                      .+|.|.|++|+||||+|+.+
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            37899999999999999999

>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=96.09  E-value=0.0025  Score=53.42  Aligned_cols=23  Identities=22%  Similarity=0.268  Sum_probs=20.7

Q ss_pred             EEEEEeeeCCCcHHHHHHHHhcC
Q 038234          103 KMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       103 ~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      .+|.|+|++|+||||+|+.+.+.
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            57899999999999999998764

>2cvh_A DNA repair and recombination protein RADB; filament formation, homologous recombination, ATPase domain, hyperthermophIle; HET: DNA; 2.20A {Thermococcus kodakarensis} PDB: 2cvf_A*

Probab=96.06  E-value=0.017  Score=49.97  Aligned_cols=24  Identities=29%  Similarity=0.193  Sum_probs=21.1

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHhc
Q 038234          101 PIKMISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      ...++.|+|.+|+|||||+..++.
T Consensus        19 ~G~~~~i~G~~GsGKTtl~~~l~~   42 (220)
T 2cvh_A           19 PGVLTQVYGPYASGKTTLALQTGL   42 (220)
T ss_dssp             TTSEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
Confidence            456899999999999999988864

>2r44_A Uncharacterized protein; putative ATPase, structural genomics, joint center for struc genomics, JCSG; HET: MSE PG4; 2.00A {Cytophaga hutchinsonii atcc 33406}

Probab=96.04  E-value=0.0038  Score=58.17  Aligned_cols=43  Identities=21%  Similarity=0.312  Sum_probs=35.3

Q ss_pred             CceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234           75 SEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ..++|++..++.+...+...        .-+.++|.+|+|||+||+.+.+.
T Consensus        27 ~~i~g~~~~~~~l~~~l~~~--------~~vll~G~pGtGKT~la~~la~~   69 (331)
T 2r44_A           27 KVVVGQKYMINRLLIGICTG--------GHILLEGVPGLAKTLSVNTLAKT   69 (331)
T ss_dssp             TTCCSCHHHHHHHHHHHHHT--------CCEEEESCCCHHHHHHHHHHHHH
T ss_pred             cceeCcHHHHHHHHHHHHcC--------CeEEEECCCCCcHHHHHHHHHHH
Confidence            35889999998888887642        24789999999999999998764

>1odf_A YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser2 intergenic region; yeast protein, ATP binding protein; 2.25A {Saccharomyces cerevisiae} SCOP: c.37.1.6

Probab=96.03  E-value=0.0042  Score=56.87  Aligned_cols=27  Identities=30%  Similarity=0.258  Sum_probs=22.8

Q ss_pred             CCCcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234           99 QKPIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus        99 ~~~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      .....+|+|+|..|+||||||+.+...
T Consensus        28 ~~~~~ii~I~G~sGsGKSTla~~L~~~   54 (290)
T 1odf_A           28 NKCPLFIFFSGPQGSGKSFTSIQIYNH   54 (290)
T ss_dssp             CCSCEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            455789999999999999999877554

>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=96.00  E-value=0.003  Score=52.53  Aligned_cols=23  Identities=22%  Similarity=0.131  Sum_probs=20.0

Q ss_pred             EEEEEeeeCCCcHHHHHHHHhcC
Q 038234          103 KMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       103 ~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      .+|.|.|++|+||||+|+.+.+.
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            37899999999999999987654

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=95.97  E-value=0.0037  Score=52.40  Aligned_cols=22  Identities=36%  Similarity=0.416  Sum_probs=20.4

Q ss_pred             EEEEEeeeCCCcHHHHHHHHhc
Q 038234          103 KMISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus       103 ~vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      .+|.|.|++|+||||+|+.+.+
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            5799999999999999999887

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=95.96  E-value=0.0053  Score=54.93  Aligned_cols=93  Identities=16%  Similarity=0.157  Sum_probs=50.7

Q ss_pred             CceecchhhHHHHHHHHh---cCCC---CCCCCcEEEEEeeeCCCcHHHHHHHHhcCChHHHHHHHHHHhcCCC----CC
Q 038234           75 SEICGRDYKKNELLSKLL---SDSS---DQQKPIKMISIVGMGGIGKITLAQMAYNDKDFRVAKAIIAALGCET----SN  144 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~---~~~~---~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~~~i~~~l~~~~----~~  144 (406)
                      .+++|.+..++++.+.+.   ....   -+....+-+.|+|++|+||||||+.+++.....+     ..+....    ..
T Consensus        12 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~~~~~~-----~~i~~~~~~~~~~   86 (257)
T 1lv7_A           12 ADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAKVPF-----FTISGSDFVEMFV   86 (257)
T ss_dssp             GGSCSCHHHHHHTHHHHHHHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHHTCCE-----EEECSCSSTTSCC
T ss_pred             HHhcCcHHHHHHHHHHHHHHhCHHHHHHcCCCCCCeEEEECcCCCCHHHHHHHHHHHcCCCE-----EEEeHHHHHHHhh
Confidence            468898887776655432   1100   0011234588999999999999999876422100     0011100    00


Q ss_pred             CCCHHHHHHHHHhhccCcceeEEeeCCC
Q 038234          145 LGSLQSLVRCISESIEGKKYLVVLDDVW  172 (406)
Q Consensus       145 ~~~~~~~~~~l~~~l~~kr~LlVlDdvw  172 (406)
                      ......+...+.......+.++++|++.
T Consensus        87 ~~~~~~~~~~~~~a~~~~~~il~iDeid  114 (257)
T 1lv7_A           87 GVGASRVRDMFEQAKKAAPCIIFIDEID  114 (257)
T ss_dssp             CCCHHHHHHHHHHHHTTCSEEEEETTHH
T ss_pred             hhhHHHHHHHHHHHHHcCCeeehhhhhh
Confidence            1122333344444444567899999983

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=95.95  E-value=0.0034  Score=53.95  Aligned_cols=24  Identities=29%  Similarity=0.350  Sum_probs=21.2

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ..+|.|+|++|+||||+|+.+.+.
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            458999999999999999998754

>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=95.89  E-value=0.0025  Score=55.90  Aligned_cols=100  Identities=17%  Similarity=0.096  Sum_probs=55.9

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhcCChH--------------HHHHHHHHHhcCCCC--CCCCHHHHHHHHHhhccCcc
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYNDKDF--------------RVAKAIIAALGCETS--NLGSLQSLVRCISESIEGKK  163 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~--------------~~~~~i~~~l~~~~~--~~~~~~~~~~~l~~~l~~kr  163 (406)
                      .+..++.|+|..|+||||++..+..+...              +....+...++....  ......++...+.+.+.+.+
T Consensus        10 ~~G~i~litG~mGsGKTT~ll~~~~r~~~~g~kVli~~~~~d~r~~~~i~srlG~~~~~~~~~~~~~i~~~i~~~~~~~~   89 (223)
T 2b8t_A           10 KIGWIEFITGPMFAGKTAELIRRLHRLEYADVKYLVFKPKIDTRSIRNIQSRTGTSLPSVEVESAPEILNYIMSNSFNDE   89 (223)
T ss_dssp             -CCEEEEEECSTTSCHHHHHHHHHHHHHHTTCCEEEEEECCCGGGCSSCCCCCCCSSCCEEESSTHHHHHHHHSTTSCTT
T ss_pred             CCcEEEEEECCCCCcHHHHHHHHHHHHHhcCCEEEEEEeccCchHHHHHHHhcCCCccccccCCHHHHHHHHHHHhhCCC
Confidence            34678999999999999999766654432              100011111211111  11234556666666655555


Q ss_pred             e-eEEeeCCCCcCccCcchhhhccCCCCCCcEEEEecCCh
Q 038234          164 Y-LVVLDDVWTDDYTKWEPFQRCSANGQCGNNILVTTHKK  202 (406)
Q Consensus       164 ~-LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTtR~~  202 (406)
                      + +||+|.+..-+.+..+.+.. +.+  .|..||+|-+..
T Consensus        90 ~dvViIDEaQ~l~~~~ve~l~~-L~~--~gi~Vil~Gl~~  126 (223)
T 2b8t_A           90 TKVIGIDEVQFFDDRICEVANI-LAE--NGFVVIISGLDK  126 (223)
T ss_dssp             CCEEEECSGGGSCTHHHHHHHH-HHH--TTCEEEEECCSB
T ss_pred             CCEEEEecCccCcHHHHHHHHH-HHh--CCCeEEEEeccc
Confidence            5 99999996543333233322 222  267899998853

>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=95.88  E-value=0.0058  Score=57.78  Aligned_cols=51  Identities=20%  Similarity=0.198  Sum_probs=36.0

Q ss_pred             ceecchhhHHHHHHHHhc-------CC--CCCCCCcEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234           76 EICGRDYKKNELLSKLLS-------DS--SDQQKPIKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus        76 ~~vGR~~~~~~l~~~L~~-------~~--~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      .++|.+..++.+...+..       ..  .........+.++|++|+|||++|+.+++..
T Consensus        16 ~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~~~~vll~GppGtGKT~la~~ia~~~   75 (363)
T 3hws_A           16 YVIGQEQAKKVLAVAVYNHYKRLRNGDTSNGVELGKSNILLIGPTGSGKTLLAETLARLL   75 (363)
T ss_dssp             HCCSCHHHHHHHHHHHHHHHHHHHTTSCSSSCCCCCCCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             hccCHHHHHHHHHHHHHHHHhhhccccccccccCCCCeEEEECCCCCCHHHHHHHHHHHc
Confidence            468988888888777720       00  0001234578999999999999999998754

>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=95.88  E-value=0.0034  Score=58.73  Aligned_cols=148  Identities=14%  Similarity=0.165  Sum_probs=74.5

Q ss_pred             CceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChHHHHHHHHHHhcCCCCCCCCHHHHHHH
Q 038234           75 SEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDFRVAKAIIAALGCETSNLGSLQSLVRC  154 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~  154 (406)
                      ..++|.+..++.+...+..... .......+.|+|++|+||||||+.+++.....+     ....  ........++...
T Consensus        25 ~~~~g~~~~~~~l~~~i~~~~~-~~~~~~~~ll~Gp~G~GKTTLa~~ia~~l~~~~-----~~~s--g~~~~~~~~l~~~   96 (334)
T 1in4_A           25 DEFIGQENVKKKLSLALEAAKM-RGEVLDHVLLAGPPGLGKTTLAHIIASELQTNI-----HVTS--GPVLVKQGDMAAI   96 (334)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHH-HTCCCCCEEEESSTTSSHHHHHHHHHHHHTCCE-----EEEE--TTTCCSHHHHHHH
T ss_pred             HHccCcHHHHHHHHHHHHHHHh-cCCCCCeEEEECCCCCcHHHHHHHHHHHhCCCE-----EEEe--chHhcCHHHHHHH
Confidence            4578887777776665542100 012345789999999999999999876421000     0000  1111122233222


Q ss_pred             HHhhccCcceeEEeeCCCCcCccCcchhhhccCCC--------C----------CCcEE-EEecCChHHHHHhcc--CCc
Q 038234          155 ISESIEGKKYLVVLDDVWTDDYTKWEPFQRCSANG--------Q----------CGNNI-LVTTHKKTVARMMES--TNF  213 (406)
Q Consensus       155 l~~~l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~--------~----------~gs~I-ivTtR~~~v~~~~~~--~~~  213 (406)
                      +.. + .++-++++|++..-.....+.+...+...        +          ....+ -.|++...+...+..  ...
T Consensus        97 ~~~-~-~~~~v~~iDE~~~l~~~~~e~L~~~~~~~~~~i~~~~~~~~~~i~~~l~~~~li~at~~~~~Ls~~l~sR~~l~  174 (334)
T 1in4_A           97 LTS-L-ERGDVLFIDEIHRLNKAVEELLYSAIEDFQIDIMIGKGPSAKSIRIDIQPFTLVGATTRSGLLSSPLRSRFGII  174 (334)
T ss_dssp             HHH-C-CTTCEEEEETGGGCCHHHHHHHHHHHHTSCCCC---------------CCCEEEEEESCGGGSCHHHHTTCSEE
T ss_pred             HHH-c-cCCCEEEEcchhhcCHHHHHHHHHHHHhcccceeeccCcccccccccCCCeEEEEecCCcccCCHHHHHhcCce
Confidence            222 2 24457888988543221122222111110        0          01122 235554333222211  235


Q ss_pred             cccCCCChHHHHHhhhhhc
Q 038234          214 ISIKELSTQECWSLFKQES  232 (406)
Q Consensus       214 ~~l~~L~~~~a~~Lf~~~~  232 (406)
                      +.+++.+.++-..++.+.+
T Consensus       175 ~~Ld~~~~~~l~~iL~~~~  193 (334)
T 1in4_A          175 LELDFYTVKELKEIIKRAA  193 (334)
T ss_dssp             EECCCCCHHHHHHHHHHHH
T ss_pred             eeCCCCCHHHHHHHHHHHH
Confidence            7899999999999988765

>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=95.83  E-value=0.0047  Score=57.24  Aligned_cols=23  Identities=35%  Similarity=0.524  Sum_probs=19.3

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHH
Q 038234          100 KPIKMISIVGMGGIGKITLAQMA  122 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v  122 (406)
                      ++.+||+|.|-|||||||.+..+
T Consensus        46 ~~aKVIAIaGKGGVGKTTtavNL   68 (314)
T 3fwy_A           46 TGAKVFAVYGKGGIGKSTTSSNL   68 (314)
T ss_dssp             -CCEEEEEECSTTSSHHHHHHHH
T ss_pred             CCceEEEEECCCccCHHHHHHHH
Confidence            45899999999999999987544

>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=95.83  E-value=0.0051  Score=52.83  Aligned_cols=25  Identities=32%  Similarity=0.282  Sum_probs=21.7

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          101 PIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ...+|.|+|++|.|||||++.+...
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            4679999999999999999887654

>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=95.82  E-value=0.0053  Score=52.09  Aligned_cols=25  Identities=28%  Similarity=0.332  Sum_probs=21.6

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          101 PIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ...+|.|.|++|+||||+|+.+.+.
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            3578999999999999999988654

>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups, carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}

Probab=95.79  E-value=0.0088  Score=55.46  Aligned_cols=44  Identities=18%  Similarity=0.185  Sum_probs=30.2

Q ss_pred             cchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhc
Q 038234           79 GRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus        79 GR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      |-...+..+...+.....  .....+|+|.|..|+|||||++.+..
T Consensus        71 ~~~~~l~~~~~~~l~~~~--~~~p~iigI~GpsGSGKSTl~~~L~~  114 (321)
T 3tqc_A           71 TARQTLQQATYQFLGKPE--PKVPYIIGIAGSVAVGKSTTSRVLKA  114 (321)
T ss_dssp             HHHHHHHHHHHHHHTCCC--CCCCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             cchHHHHHHHHHHhccCC--CCCCEEEEEECCCCCCHHHHHHHHHH
Confidence            333445555555554422  45677999999999999999987743

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=95.79  E-value=0.0047  Score=52.15  Aligned_cols=23  Identities=17%  Similarity=0.414  Sum_probs=20.4

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhc
Q 038234          102 IKMISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      .++++|+|+.|+|||||++.+..
T Consensus         5 g~~i~i~GpsGsGKSTL~~~L~~   27 (180)
T 1kgd_A            5 RKTLVLLGAHGVGRRHIKNTLIT   27 (180)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHh
Confidence            45899999999999999998765

>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman fold, hydro; HET: ADP; 2.91A {Escherichia coli}

Probab=95.78  E-value=0.007  Score=59.72  Aligned_cols=44  Identities=20%  Similarity=0.134  Sum_probs=36.0

Q ss_pred             CceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234           75 SEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      +.++|++..++.+...+...        .-|.|+|++|+|||+||+.+++..
T Consensus        22 ~~ivGq~~~i~~l~~al~~~--------~~VLL~GpPGtGKT~LAraLa~~l   65 (500)
T 3nbx_X           22 KGLYERSHAIRLCLLAALSG--------ESVFLLGPPGIAKSLIARRLKFAF   65 (500)
T ss_dssp             TTCSSCHHHHHHHHHHHHHT--------CEEEEECCSSSSHHHHHHHGGGGB
T ss_pred             hhhHHHHHHHHHHHHHHhcC--------CeeEeecCchHHHHHHHHHHHHHH
Confidence            34789998888888877653        257899999999999999998754

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=95.77  E-value=0.0087  Score=54.69  Aligned_cols=42  Identities=19%  Similarity=0.336  Sum_probs=29.1

Q ss_pred             hHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234           83 KKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus        83 ~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      .+++++..++.... ......+|.|.|++|+||||+|+.+...
T Consensus        15 ~~~~~~~~~l~~~~-~~~~~~livl~G~sGsGKSTla~~L~~~   56 (287)
T 1gvn_B           15 RLNDNLEELIQGKK-AVESPTAFLLGGQPGSGKTSLRSAIFEE   56 (287)
T ss_dssp             HHHHHHHHHHTTCC-CCSSCEEEEEECCTTSCTHHHHHHHHHH
T ss_pred             HHHHHHHHHhcccc-CCCCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            34445555443321 1345678999999999999999998754

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=95.74  E-value=0.0055  Score=51.90  Aligned_cols=24  Identities=25%  Similarity=0.310  Sum_probs=20.8

Q ss_pred             EEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          103 KMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       103 ~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      ++|.|.|++|+||||+|+.+.+..
T Consensus         2 ~~I~i~G~~GsGKsT~~~~L~~~l   25 (194)
T 1nks_A            2 KIGIVTGIPGVGKSTVLAKVKEIL   25 (194)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHH
Confidence            478999999999999999887643

>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=95.74  E-value=0.0064  Score=50.82  Aligned_cols=25  Identities=20%  Similarity=0.361  Sum_probs=21.5

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhc
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      ....+++|+|++|+||||+++.+..
T Consensus         6 ~~g~~i~l~G~~GsGKSTl~~~l~~   30 (175)
T 1knq_A            6 HDHHIYVLMGVSGSGKSAVASEVAH   30 (175)
T ss_dssp             TTSEEEEEECSTTSCHHHHHHHHHH
T ss_pred             CCCcEEEEEcCCCCCHHHHHHHHHH
Confidence            3457899999999999999998765

>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function; HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*

Probab=95.70  E-value=0.01  Score=55.61  Aligned_cols=51  Identities=18%  Similarity=0.142  Sum_probs=35.3

Q ss_pred             ecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChHHH
Q 038234           78 CGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDFRV  130 (406)
Q Consensus        78 vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~  130 (406)
                      |+-+.-.+++++.+.....  .+....|.|+|++|+||||+++.++......+
T Consensus         2 ~~~~~L~~~il~~l~~~i~--~g~~~~i~l~G~~G~GKTTl~~~la~~l~~~f   52 (359)
T 2ga8_A            2 VDTHKLADDVLQLLDNRIE--DNYRVCVILVGSPGSGKSTIAEELCQIINEKY   52 (359)
T ss_dssp             CCHHHHHHHHHHHHHHTTT--TCSCEEEEEECCTTSSHHHHHHHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHHHhc--cCCeeEEEEECCCCCcHHHHHHHHHHHhCCCe
Confidence            3445556666666643321  33456789999999999999999987765444

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=95.69  E-value=0.0039  Score=51.99  Aligned_cols=23  Identities=30%  Similarity=0.391  Sum_probs=20.5

Q ss_pred             EEEEEeeeCCCcHHHHHHHHhcC
Q 038234          103 KMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       103 ~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      .+|+|+|++|+|||||++.+...
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            47999999999999999988764

>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=95.68  E-value=0.0057  Score=52.95  Aligned_cols=26  Identities=27%  Similarity=0.443  Sum_probs=22.4

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          101 PIKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      ...+++|+|+.|+|||||++.+....
T Consensus         7 ~g~~i~l~GpsGsGKsTl~~~L~~~~   32 (208)
T 3tau_A            7 RGLLIVLSGPSGVGKGTVREAVFKDP   32 (208)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHST
T ss_pred             CCcEEEEECcCCCCHHHHHHHHHhhC
Confidence            35689999999999999999987654

>1g5t_A COB(I)alamin adenosyltransferase; P-loop protein, cobalamin biosynthesis, RECA fold; HET: ATP; 1.80A {Salmonella typhimurium} SCOP: c.37.1.11 PDB: 1g5r_A* 1g64_A*

Probab=95.67  E-value=0.016  Score=49.38  Aligned_cols=49  Identities=16%  Similarity=0.142  Sum_probs=31.1

Q ss_pred             HHHhhccCcce-eEEeeCCCC---cCccCcchhhhccCCCCCCcEEEEecCCh
Q 038234          154 CISESIEGKKY-LVVLDDVWT---DDYTKWEPFQRCSANGQCGNNILVTTHKK  202 (406)
Q Consensus       154 ~l~~~l~~kr~-LlVlDdvw~---~~~~~~~~l~~~l~~~~~gs~IivTtR~~  202 (406)
                      ..++.+...+| |||||++--   -.....+.+...+........||+|+|+.
T Consensus       111 ~a~~~l~~~~yDlvILDEi~~al~~g~l~~~ev~~~l~~Rp~~~~vIlTGr~a  163 (196)
T 1g5t_A          111 HGKRMLADPLLDMVVLDELTYMVAYDYLPLEEVISALNARPGHQTVIITGRGC  163 (196)
T ss_dssp             HHHHHTTCTTCSEEEEETHHHHHHTTSSCHHHHHHHHHTSCTTCEEEEECSSC
T ss_pred             HHHHHHhcCCCCEEEEeCCCccccCCCCCHHHHHHHHHhCcCCCEEEEECCCC
Confidence            34455554554 999999821   12233445556665556677999999985

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=95.66  E-value=0.0049  Score=52.04  Aligned_cols=24  Identities=21%  Similarity=0.362  Sum_probs=21.0

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      .+.|.|+|++|+||||+|+.+.+.
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            457899999999999999998764

>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=95.63  E-value=0.0074  Score=51.60  Aligned_cols=26  Identities=35%  Similarity=0.297  Sum_probs=23.1

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ....+|+|+|+.|+||||+|+.+.+.
T Consensus         6 ~~~~~I~i~G~~GsGKST~~~~La~~   31 (203)
T 1uf9_A            6 KHPIIIGITGNIGSGKSTVAALLRSW   31 (203)
T ss_dssp             CCCEEEEEEECTTSCHHHHHHHHHHT
T ss_pred             cCceEEEEECCCCCCHHHHHHHHHHC
Confidence            45679999999999999999998876

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=95.62  E-value=0.011  Score=52.96  Aligned_cols=43  Identities=21%  Similarity=0.221  Sum_probs=29.7

Q ss_pred             hHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234           83 KKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus        83 ~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      ..+.+++.+..... ......+|.|+|++|+||||+|+.+....
T Consensus        14 ~~~~~~~~~~~~~~-~~~~~~~i~l~G~~GsGKSTla~~L~~~l   56 (253)
T 2p5t_B           14 ALARNLRSLTRGKK-SSKQPIAILLGGQSGAGKTTIHRIKQKEF   56 (253)
T ss_dssp             HHHHHHHHHHTTCC-CCSSCEEEEEESCGGGTTHHHHHHHHHHT
T ss_pred             HHHHHHHHHHccCC-cccCCeEEEEECCCCCCHHHHHHHHHHhc
Confidence            34445555554322 23456789999999999999999886543

>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=95.60  E-value=0.0087  Score=51.57  Aligned_cols=27  Identities=30%  Similarity=0.308  Sum_probs=23.4

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      ....+|+|+|++|+||||+|+.+....
T Consensus        19 ~~~~~i~i~G~~GsGKSTl~~~L~~~~   45 (207)
T 2qt1_A           19 SKTFIIGISGVTNSGKTTLAKNLQKHL   45 (207)
T ss_dssp             CCCEEEEEEESTTSSHHHHHHHHHTTS
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHhc
Confidence            446789999999999999999988764

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=95.59  E-value=0.0057  Score=52.51  Aligned_cols=25  Identities=28%  Similarity=0.614  Sum_probs=21.5

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          101 PIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ...+|+|+|+.|+|||||++.+...
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            3568999999999999999988653

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=95.55  E-value=0.0051  Score=52.82  Aligned_cols=24  Identities=21%  Similarity=0.368  Sum_probs=20.9

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ..+|.|.|++|+||||+|+.+...
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            458999999999999999988654

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=95.54  E-value=0.0079  Score=51.94  Aligned_cols=26  Identities=35%  Similarity=0.267  Sum_probs=21.6

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      .+..+|+|+|..|+|||||++.+...
T Consensus         4 ~~~~~i~i~G~~GsGKSTl~~~l~~~   29 (211)
T 3asz_A            4 PKPFVIGIAGGTASGKTTLAQALART   29 (211)
T ss_dssp             -CCEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CCcEEEEEECCCCCCHHHHHHHHHHH
Confidence            34679999999999999999887653

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=95.54  E-value=0.0088  Score=50.56  Aligned_cols=26  Identities=23%  Similarity=0.268  Sum_probs=22.3

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ....+|.|.|++|+||||+++.+...
T Consensus        11 ~~~~~i~l~G~~GsGKsT~~~~L~~~   36 (186)
T 2yvu_A           11 EKGIVVWLTGLPGSGKTTIATRLADL   36 (186)
T ss_dssp             SCCEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCCcEEEEEcCCCCCHHHHHHHHHHH
Confidence            44678999999999999999988654

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=95.53  E-value=0.007  Score=51.89  Aligned_cols=23  Identities=22%  Similarity=0.340  Sum_probs=20.2

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhc
Q 038234          102 IKMISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      ..+++|+|+.|+|||||++.+..
T Consensus         7 g~ii~l~Gp~GsGKSTl~~~L~~   29 (205)
T 3tr0_A            7 ANLFIISAPSGAGKTSLVRALVK   29 (205)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHH
T ss_pred             CcEEEEECcCCCCHHHHHHHHHh
Confidence            45899999999999999988754

>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=95.52  E-value=0.0069  Score=54.09  Aligned_cols=26  Identities=15%  Similarity=0.098  Sum_probs=22.0

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ....+|+|.|++|+||||+|+.+...
T Consensus        20 ~~~~iI~I~G~~GSGKST~a~~L~~~   45 (252)
T 1uj2_A           20 GEPFLIGVSGGTASGKSSVCAKIVQL   45 (252)
T ss_dssp             -CCEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCcEEEEEECCCCCCHHHHHHHHHHH
Confidence            44679999999999999999988663

>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=95.52  E-value=0.006  Score=51.59  Aligned_cols=23  Identities=30%  Similarity=0.667  Sum_probs=20.5

Q ss_pred             EEEEEeeeCCCcHHHHHHHHhcC
Q 038234          103 KMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       103 ~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      .+|.|.|++|+||||+|+.+.+.
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            47999999999999999988764

>2px0_A Flagellar biosynthesis protein FLHF; SRP GTPase, flagellum, protein transport, biosynthetic protein; HET: GNP; 3.00A {Bacillus subtilis} PDB: 2px3_A* 3syn_A*

Probab=95.51  E-value=0.021  Score=52.31  Aligned_cols=24  Identities=29%  Similarity=0.277  Sum_probs=20.4

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHhc
Q 038234          101 PIKMISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      +..+++++|.+|+||||++..++.
T Consensus       104 ~g~vi~lvG~~GsGKTTl~~~LA~  127 (296)
T 2px0_A          104 HSKYIVLFGSTGAGKTTTLAKLAA  127 (296)
T ss_dssp             CSSEEEEEESTTSSHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH
Confidence            467999999999999999877653

>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=95.50  E-value=0.013  Score=50.74  Aligned_cols=24  Identities=29%  Similarity=0.380  Sum_probs=21.1

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcCCh
Q 038234          104 MISIVGMGGIGKITLAQMAYNDKD  127 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~~~  127 (406)
                      +|.|.|++|+||+|.|+.+.+.+.
T Consensus         2 ~Iil~GpPGsGKgTqa~~La~~~g   25 (206)
T 3sr0_A            2 ILVFLGPPGAGKGTQAKRLAKEKG   25 (206)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHC
Confidence            688999999999999999887654

>3cf2_A TER ATPase, transitional endoplasmic reticulum ATPase, valosi; AAA, CDC48, ERAD, transport protein; HET: ADP ANP; 3.50A {Mus musculus} PDB: 3cf1_A* 3cf3_A* 1r7r_A*

Probab=95.49  E-value=0.0072  Score=62.89  Aligned_cols=99  Identities=17%  Similarity=0.067  Sum_probs=58.1

Q ss_pred             CCCceecchhhHHHHHHHHhcCCC-------CCCCCcEEEEEeeeCCCcHHHHHHHHhcCChHHHHHHHHHHhcCCCCCC
Q 038234           73 DESEICGRDYKKNELLSKLLSDSS-------DQQKPIKMISIVGMGGIGKITLAQMAYNDKDFRVAKAIIAALGCETSNL  145 (406)
Q Consensus        73 ~~~~~vGR~~~~~~l~~~L~~~~~-------~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~~~i~~~l~~~~~~~  145 (406)
                      .-.++.|.++..++|.+.+.-...       .+-...+-+.++|++|.|||.||+++++.....+..--...+..... -
T Consensus       475 ~w~diggl~~~k~~l~e~v~~p~~~p~~f~~~g~~~~~gvLl~GPPGtGKT~lAkaiA~e~~~~f~~v~~~~l~s~~v-G  553 (806)
T 3cf2_A          475 TWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQANFISIKGPELLTMWF-G  553 (806)
T ss_dssp             CSTTCCSCHHHHHHHTTTTTTTTTCSGGGSSSCCCCCSCCEEESSTTSSHHHHHHHHHHTTTCEEEECCHHHHHTTTC-S
T ss_pred             CHHHhCCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCceEEEecCCCCCchHHHHHHHHHhCCceEEeccchhhcccc-c
Confidence            334567888777777766542211       01234556889999999999999999988754211111111111111 1


Q ss_pred             CCHHHHHHHHHhhccCcceeEEeeCCC
Q 038234          146 GSLQSLVRCISESIEGKKYLVVLDDVW  172 (406)
Q Consensus       146 ~~~~~~~~~l~~~l~~kr~LlVlDdvw  172 (406)
                      .+...+...+...-...+++|+||++.
T Consensus       554 ese~~vr~lF~~Ar~~~P~IifiDEiD  580 (806)
T 3cf2_A          554 ESEANVREIFDKARQAAPCVLFFDELD  580 (806)
T ss_dssp             SCHHHHHHHHHHHHTTCSEEEECSCGG
T ss_pred             hHHHHHHHHHHHHHHcCCceeechhhh
Confidence            223344444444445678999999984

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=95.48  E-value=0.0075  Score=51.77  Aligned_cols=25  Identities=28%  Similarity=0.446  Sum_probs=21.7

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      ..+++|+|+.|+|||||++.+....
T Consensus         6 g~~i~l~G~~GsGKSTl~~~L~~~~   30 (207)
T 2j41_A            6 GLLIVLSGPSGVGKGTVRKRIFEDP   30 (207)
T ss_dssp             CCEEEEECSTTSCHHHHHHHHHHCT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhh
Confidence            4589999999999999999887654

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=95.48  E-value=0.0082  Score=51.48  Aligned_cols=27  Identities=26%  Similarity=0.330  Sum_probs=23.0

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      ....+|+|.|++|+||||+|+.+.+..
T Consensus        13 ~~~~~I~l~G~~GsGKsT~~~~L~~~~   39 (203)
T 1ukz_A           13 DQVSVIFVLGGPGAGKGTQCEKLVKDY   39 (203)
T ss_dssp             TTCEEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHc
Confidence            446789999999999999999887643

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=95.48  E-value=0.0057  Score=52.70  Aligned_cols=25  Identities=28%  Similarity=0.456  Sum_probs=21.5

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          101 PIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ..++|.|+|++|+|||||++.+...
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            4568999999999999999987654

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=95.46  E-value=0.0068  Score=50.70  Aligned_cols=23  Identities=26%  Similarity=0.622  Sum_probs=19.9

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHh
Q 038234          101 PIKMISIVGMGGIGKITLAQMAY  123 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~  123 (406)
                      ...+++|+|+.|+|||||++..+
T Consensus         8 ~gei~~l~G~nGsGKSTl~~~~~   30 (171)
T 4gp7_A            8 ELSLVVLIGSSGSGKSTFAKKHF   30 (171)
T ss_dssp             SSEEEEEECCTTSCHHHHHHHHS
T ss_pred             CCEEEEEECCCCCCHHHHHHHHc
Confidence            35689999999999999999644

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=95.45  E-value=0.0075  Score=51.24  Aligned_cols=24  Identities=29%  Similarity=0.321  Sum_probs=21.2

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ..+|.|.|++|+||||+|+.+.+.
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            458999999999999999988754

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=95.45  E-value=0.0076  Score=51.06  Aligned_cols=24  Identities=21%  Similarity=0.192  Sum_probs=21.0

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ..+|.|.|++|+||||+|+.+.+.
T Consensus         3 ~~~I~l~G~~GsGKsT~a~~L~~~   26 (196)
T 1tev_A            3 PLVVFVLGGPGAGKGTQCARIVEK   26 (196)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHH
Confidence            468999999999999999988654

>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=95.44  E-value=0.0072  Score=51.14  Aligned_cols=25  Identities=32%  Similarity=0.377  Sum_probs=22.1

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          101 PIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ....|.|+|++|+||||+++.+.+.
T Consensus         9 ~~~~I~l~G~~GsGKSTv~~~La~~   33 (184)
T 1y63_A            9 KGINILITGTPGTGKTSMAEMIAAE   33 (184)
T ss_dssp             SSCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHh
Confidence            3568999999999999999998876

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=95.43  E-value=0.0067  Score=50.35  Aligned_cols=26  Identities=27%  Similarity=0.354  Sum_probs=21.2

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ....+|+|.|++|+||||+|+.+.+.
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            34678999999999999999998764

>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=95.41  E-value=0.0062  Score=51.20  Aligned_cols=24  Identities=29%  Similarity=0.452  Sum_probs=20.9

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      .++|.|+|++|+||||+|+.+.+.
T Consensus        11 ~~~i~i~G~~GsGKst~~~~l~~~   34 (180)
T 3iij_A           11 LPNILLTGTPGVGKTTLGKELASK   34 (180)
T ss_dssp             CCCEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCeEEEEeCCCCCHHHHHHHHHHH
Confidence            457899999999999999988754

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=95.39  E-value=0.007  Score=51.78  Aligned_cols=22  Identities=32%  Similarity=0.412  Sum_probs=19.6

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcC
Q 038234          104 MISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      .|+|.|+.|+||||+++.+.+.
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            6899999999999999988663

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=95.38  E-value=0.0079  Score=53.83  Aligned_cols=23  Identities=22%  Similarity=0.154  Sum_probs=20.2

Q ss_pred             EEEEEeeeCCCcHHHHHHHHhcC
Q 038234          103 KMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       103 ~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ++|.|+|++|+||||||+.++..
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            47899999999999999988654

>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=0.0084  Score=53.88  Aligned_cols=24  Identities=29%  Similarity=0.479  Sum_probs=21.2

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ..+|.|.|++|+||||+|+.+...
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            568999999999999999988764

>1vma_A Cell division protein FTSY; TM0570, structural genomics, JCS protein structure initiative, PSI, joint center for structu genomics; HET: CIT; 1.60A {Thermotoga maritima} SCOP: a.24.13.1 c.37.1.10

Probab=95.36  E-value=0.035  Score=51.09  Aligned_cols=43  Identities=28%  Similarity=0.270  Sum_probs=28.7

Q ss_pred             hHHHHHHHHhcCCCC--CCCCcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234           83 KKNELLSKLLSDSSD--QQKPIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus        83 ~~~~l~~~L~~~~~~--~~~~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      -.++|.+.|....+-  ......++.|+|.+|+||||++..++..
T Consensus        83 ~~~~l~~~l~~~~~~~~~~~~~~vi~ivG~~GsGKTTl~~~LA~~  127 (306)
T 1vma_A           83 LKEIILEILNFDTKLNVPPEPPFVIMVVGVNGTGKTTSCGKLAKM  127 (306)
T ss_dssp             HHHHHHHHTCSCCCCCCCSSSCEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCCCCCcccCCCCeEEEEEcCCCChHHHHHHHHHHH
Confidence            445555555432210  1245789999999999999999877653

>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=95.34  E-value=0.0092  Score=50.56  Aligned_cols=22  Identities=32%  Similarity=0.421  Sum_probs=19.8

Q ss_pred             EEEEEeeeCCCcHHHHHHHHhc
Q 038234          103 KMISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus       103 ~vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      .+++|+|+.|+|||||++.+..
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            4789999999999999999864

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=95.33  E-value=0.0094  Score=50.23  Aligned_cols=23  Identities=26%  Similarity=0.193  Sum_probs=20.6

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhc
Q 038234          102 IKMISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      ...|.|.|++|+||||+|+.+.+
T Consensus         4 g~~I~l~G~~GsGKST~~~~La~   26 (186)
T 3cm0_A            4 GQAVIFLGPPGAGKGTQASRLAQ   26 (186)
T ss_dssp             EEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            45799999999999999998875

>1g8p_A Magnesium-chelatase 38 kDa subunit; parallel beta sheet, P-loop, rossman fold, AAA+, photosynthesis, metal transport; 2.10A {Rhodobacter capsulatus} SCOP: c.37.1.20 PDB: 2x31_G

Probab=95.29  E-value=0.0075  Score=56.42  Aligned_cols=46  Identities=26%  Similarity=0.237  Sum_probs=32.2

Q ss_pred             CceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234           75 SEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      ..++|.+..+..+...+....      ..-+.|+|.+|+|||+||+.+++..
T Consensus        24 ~~i~G~~~~~~~l~~~~~~~~------~~~vLl~G~~GtGKT~la~~la~~~   69 (350)
T 1g8p_A           24 SAIVGQEDMKLALLLTAVDPG------IGGVLVFGDRGTGKSTAVRALAALL   69 (350)
T ss_dssp             GGSCSCHHHHHHHHHHHHCGG------GCCEEEECCGGGCTTHHHHHHHHHS
T ss_pred             hhccChHHHHHHHHHHhhCCC------CceEEEECCCCccHHHHHHHHHHhC
Confidence            358898876655544443221      2238899999999999999987643

>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=95.29  E-value=0.0086  Score=53.44  Aligned_cols=52  Identities=23%  Similarity=0.286  Sum_probs=32.1

Q ss_pred             CceecchhhHHHHHHHHhcCCCC------CCCCcEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234           75 SEICGRDYKKNELLSKLLSDSSD------QQKPIKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~------~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      .+++|.+..+.++.+....-...      +-...+-+.|+|++|+||||||+.++...
T Consensus        16 ~~i~g~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~g~ll~G~~G~GKTtl~~~i~~~~   73 (254)
T 1ixz_A           16 KDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEA   73 (254)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCSEEEEECCTTSSHHHHHHHHHHHT
T ss_pred             HHhCCcHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEEECCCCCCHHHHHHHHHHHh
Confidence            46788877665554433210000      00111228999999999999999998653

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=95.29  E-value=0.0097  Score=51.21  Aligned_cols=24  Identities=25%  Similarity=0.302  Sum_probs=20.9

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ..+|.|.|++|+||||+|+.+.+.
T Consensus         4 ~~~I~i~G~~GsGKsT~~~~L~~~   27 (213)
T 2plr_A            4 GVLIAFEGIDGSGKSSQATLLKDW   27 (213)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHHH
Confidence            468999999999999999988653

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=95.28  E-value=0.0066  Score=50.81  Aligned_cols=22  Identities=41%  Similarity=0.519  Sum_probs=19.9

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcC
Q 038234          104 MISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      .|.|.|++|+||||+|+.+.+.
T Consensus         6 ~i~i~G~~GsGKsTla~~La~~   27 (175)
T 1via_A            6 NIVFIGFMGSGKSTLARALAKD   27 (175)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHHH
Confidence            5899999999999999998764

>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=95.28  E-value=0.0092  Score=51.13  Aligned_cols=26  Identities=23%  Similarity=0.152  Sum_probs=21.9

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ....+|.|.|++|+||||+|+.+.+.
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            33568999999999999999988764

>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=95.28  E-value=0.016  Score=54.41  Aligned_cols=73  Identities=22%  Similarity=0.270  Sum_probs=45.0

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhcCChH------------HHHHHHHHHhcCCCC-----CCCCHHHHHHHHHhhcc-C
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYNDKDF------------RVAKAIIAALGCETS-----NLGSLQSLVRCISESIE-G  161 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~------------~~~~~i~~~l~~~~~-----~~~~~~~~~~~l~~~l~-~  161 (406)
                      +...++.|+|.+|+||||||.+++.....            .+....+..++....     ...+.+++...+...+. .
T Consensus        59 ~~G~i~~I~GppGsGKSTLal~la~~~~~~gg~VlyId~E~s~~~~ra~rlgv~~~~l~i~~~~~~e~~l~~~~~l~~~~  138 (356)
T 3hr8_A           59 PRGRIVEIFGQESSGKTTLALHAIAEAQKMGGVAAFIDAEHALDPVYAKNLGVDLKSLLISQPDHGEQALEIVDELVRSG  138 (356)
T ss_dssp             ETTEEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEESSCCCCHHHHHHHTCCGGGCEEECCSSHHHHHHHHHHHHHTS
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEecccccchHHHHHcCCchhhhhhhhccCHHHHHHHHHHHhhhc
Confidence            44679999999999999999887654211            111123444443321     23455666655555543 4


Q ss_pred             cceeEEeeCCC
Q 038234          162 KKYLVVLDDVW  172 (406)
Q Consensus       162 kr~LlVlDdvw  172 (406)
                      +.-++|+|.+.
T Consensus       139 ~~dlvVIDSi~  149 (356)
T 3hr8_A          139 VVDLIVVDSVA  149 (356)
T ss_dssp             CCSEEEEECTT
T ss_pred             CCCeEEehHhh
Confidence            56699999883

>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=95.25  E-value=0.0094  Score=51.16  Aligned_cols=22  Identities=45%  Similarity=0.495  Sum_probs=20.0

Q ss_pred             EEEEEeeeCCCcHHHHHHHHhc
Q 038234          103 KMISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus       103 ~vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      .+|+|+|+.|+||||+++.+..
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            3699999999999999999876

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=95.22  E-value=0.009  Score=50.88  Aligned_cols=24  Identities=33%  Similarity=0.353  Sum_probs=21.1

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ..+|+|.|++|+||||+|+.+.+.
T Consensus        12 ~~~I~l~G~~GsGKsT~a~~L~~~   35 (199)
T 2bwj_A           12 CKIIFIIGGPGSGKGTQCEKLVEK   35 (199)
T ss_dssp             SCEEEEEECTTSSHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHH
Confidence            358999999999999999988764

>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=95.22  E-value=0.011  Score=50.90  Aligned_cols=22  Identities=27%  Similarity=0.433  Sum_probs=20.2

Q ss_pred             EEEEEeeeCCCcHHHHHHHHhc
Q 038234          103 KMISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus       103 ~vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      .+|+|+|+.|+||||+++.+..
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            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=95.22  E-value=0.0063  Score=51.31  Aligned_cols=22  Identities=27%  Similarity=0.400  Sum_probs=19.9

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcC
Q 038234          104 MISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      +|.|.|++|+||||+|+.+.+.
T Consensus         4 ~I~l~G~~GsGKsT~a~~La~~   25 (184)
T 2iyv_A            4 KAVLVGLPGSGKSTIGRRLAKA   25 (184)
T ss_dssp             SEEEECSTTSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            5899999999999999998764

>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=95.21  E-value=0.014  Score=51.88  Aligned_cols=25  Identities=24%  Similarity=0.161  Sum_probs=22.1

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          101 PIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ...+|.|.|++|+||||+|+.+.+.
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            4678999999999999999988754

>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=95.21  E-value=0.013  Score=49.45  Aligned_cols=24  Identities=25%  Similarity=0.261  Sum_probs=21.3

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ..+|+|.|++|+||||+|+.+.+.
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            468999999999999999988764

>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=95.20  E-value=0.0091  Score=52.01  Aligned_cols=24  Identities=25%  Similarity=0.198  Sum_probs=21.2

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ...|.|.|++|+||||+|+.+.+.
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            457999999999999999988764

>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=95.16  E-value=0.0096  Score=51.98  Aligned_cols=24  Identities=33%  Similarity=0.372  Sum_probs=21.0

Q ss_pred             EEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          103 KMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       103 ~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      .+|+|+|++|+||||+|+.+....
T Consensus         6 ~~i~i~G~~GsGKSTl~~~L~~~~   29 (227)
T 1cke_A            6 PVITIDGPSGAGKGTLCKAMAEAL   29 (227)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            489999999999999999887643

>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=95.16  E-value=0.01  Score=50.10  Aligned_cols=23  Identities=35%  Similarity=0.436  Sum_probs=19.8

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcCC
Q 038234          104 MISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      .++|+|+.|+|||||++.++...
T Consensus         2 ~i~l~G~nGsGKTTLl~~l~g~l   24 (178)
T 1ye8_A            2 KIIITGEPGVGKTTLVKKIVERL   24 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            58999999999999998876543

>2pez_A Bifunctional 3'-phosphoadenosine 5'- phosphosulfate synthetase 1 (PAPS synthetase...; NMP-kinase fold, protein in complex with nucleic acid; HET: GGZ DAT; 1.40A {Homo sapiens} PDB: 2pey_A* 2ax4_A*

Probab=95.15  E-value=0.012  Score=49.44  Aligned_cols=25  Identities=20%  Similarity=0.222  Sum_probs=21.4

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          101 PIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ...+|+|+|+.|+||||+++.+...
T Consensus         4 ~g~~i~l~G~~GsGKST~~~~L~~~   28 (179)
T 2pez_A            4 RGCTVWLTGLSGAGKTTVSMALEEY   28 (179)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHH
Confidence            4568999999999999999887653

>1sq5_A Pantothenate kinase; P-loop, transferase; HET: PAU ADP; 2.20A {Escherichia coli} SCOP: c.37.1.6 PDB: 1esm_A* 1esn_A*

Probab=95.14  E-value=0.026  Score=52.06  Aligned_cols=25  Identities=32%  Similarity=0.337  Sum_probs=21.5

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhc
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      ....+|+|+|..|+|||||++.+..
T Consensus        78 ~~g~iigI~G~~GsGKSTl~~~L~~  102 (308)
T 1sq5_A           78 RIPYIISIAGSVAVGKSTTARVLQA  102 (308)
T ss_dssp             CCCEEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHH
Confidence            4567999999999999999987654

>3tui_C Methionine import ATP-binding protein METN; ABC-transporter, type I ABC type importer, methionine uptake transporter, membrane protein; HET: ADP; 2.90A {Escherichia coli} PDB: 3tuj_C 3tuz_C* 3dhw_C

Probab=95.11  E-value=0.035  Score=52.23  Aligned_cols=24  Identities=25%  Similarity=0.328  Sum_probs=21.3

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ..+++|+|+.|.|||||.+.+..-
T Consensus        54 Gei~~IiGpnGaGKSTLlr~i~GL   77 (366)
T 3tui_C           54 GQIYGVIGASGAGKSTLIRCVNLL   77 (366)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHTS
T ss_pred             CCEEEEEcCCCchHHHHHHHHhcC
Confidence            558999999999999999988764

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=95.11  E-value=0.0084  Score=51.45  Aligned_cols=23  Identities=26%  Similarity=0.436  Sum_probs=19.5

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhc
Q 038234          102 IKMISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      .+.++|+|+.|+|||||++.+..
T Consensus         4 g~~i~lvGpsGaGKSTLl~~L~~   26 (198)
T 1lvg_A            4 PRPVVLSGPSGAGKSTLLKKLFQ   26 (198)
T ss_dssp             -CCEEEECCTTSSHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHh
Confidence            45789999999999999988754

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=95.08  E-value=0.018  Score=50.09  Aligned_cols=24  Identities=21%  Similarity=0.295  Sum_probs=20.7

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHhc
Q 038234          101 PIKMISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      ....|+|+|.+|+|||||+..+..
T Consensus        37 ~~~~i~ivG~~gvGKTtl~~~l~~   60 (226)
T 2hf9_A           37 GVVAFDFMGAIGSGKTLLIEKLID   60 (226)
T ss_dssp             TCEEEEEEESTTSSHHHHHHHHHH
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHH
Confidence            467899999999999999987754

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=95.08  E-value=0.01  Score=49.15  Aligned_cols=22  Identities=23%  Similarity=0.315  Sum_probs=19.8

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcC
Q 038234          104 MISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      .|.|.|++|+||||+|+.+.+.
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            5899999999999999988764

>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=95.08  E-value=0.008  Score=49.98  Aligned_cols=23  Identities=26%  Similarity=0.317  Sum_probs=20.3

Q ss_pred             EEEEEeeeCCCcHHHHHHHHhcC
Q 038234          103 KMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       103 ~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ++|.|.|++|+||||+|+.+.+.
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            36899999999999999988764

>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=95.07  E-value=0.012  Score=50.87  Aligned_cols=24  Identities=21%  Similarity=0.234  Sum_probs=21.0

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ..+|+|.|+.|+||||+|+.+.+.
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            458999999999999999988653

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=95.06  E-value=0.0067  Score=51.00  Aligned_cols=24  Identities=29%  Similarity=0.267  Sum_probs=17.0

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ..+|.|.|++|+||||+|+.+.+.
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            458999999999999999988654

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=95.05  E-value=0.01  Score=50.27  Aligned_cols=22  Identities=36%  Similarity=0.581  Sum_probs=19.6

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcC
Q 038234          104 MISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      +|+|.|+.|+||||+|+.+.+.
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            6899999999999999988663

>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=95.03  E-value=0.011  Score=49.34  Aligned_cols=23  Identities=26%  Similarity=0.323  Sum_probs=20.0

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhc
Q 038234          102 IKMISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      .++++|+|..|+|||||+..+..
T Consensus         4 ~~~i~i~G~sGsGKTTl~~~L~~   26 (169)
T 1xjc_A            4 MNVWQVVGYKHSGKTTLMEKWVA   26 (169)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHH
Confidence            56899999999999999987654

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=95.00  E-value=0.012  Score=50.74  Aligned_cols=24  Identities=25%  Similarity=0.268  Sum_probs=21.1

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ..+|+|.|+.|+||||+|+.+.+.
T Consensus        10 ~~~I~l~G~~GsGKST~~~~L~~~   33 (212)
T 2wwf_A           10 GKFIVFEGLDRSGKSTQSKLLVEY   33 (212)
T ss_dssp             SCEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHH
Confidence            568999999999999999988654

>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=94.97  E-value=0.0092  Score=50.71  Aligned_cols=23  Identities=35%  Similarity=0.531  Sum_probs=19.5

Q ss_pred             EEEEEeeeCCCcHHHHHHHHhcC
Q 038234          103 KMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       103 ~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      +.|.|+|++|+|||||++.+...
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            34889999999999999887654

>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=94.97  E-value=0.012  Score=50.49  Aligned_cols=25  Identities=16%  Similarity=0.434  Sum_probs=21.4

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          101 PIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ..++++|+|+.|+|||||++.+...
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            4568999999999999999887643

>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=94.97  E-value=0.012  Score=52.19  Aligned_cols=22  Identities=32%  Similarity=0.282  Sum_probs=20.5

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHh
Q 038234          102 IKMISIVGMGGIGKITLAQMAY  123 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~  123 (406)
                      ..+|+|+|+.|+|||||++.+.
T Consensus        27 ~~~i~l~G~~GsGKSTl~k~La   48 (246)
T 2bbw_A           27 LLRAVILGPPGSGKGTVCQRIA   48 (246)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHH
Confidence            4689999999999999999998

>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=94.96  E-value=0.015  Score=53.81  Aligned_cols=25  Identities=24%  Similarity=0.252  Sum_probs=21.7

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhc
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      +...+|+|+|..|+|||||++.+..
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            4577999999999999999987754

>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=94.96  E-value=0.015  Score=49.75  Aligned_cols=26  Identities=27%  Similarity=0.382  Sum_probs=23.0

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ....+|+|+|+.|+||||+|+.+.+.
T Consensus        10 ~~~~iIgltG~~GSGKSTva~~L~~~   35 (192)
T 2grj_A           10 HHHMVIGVTGKIGTGKSTVCEILKNK   35 (192)
T ss_dssp             CCEEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             ccceEEEEECCCCCCHHHHHHHHHHh
Confidence            45789999999999999999988765

>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+ protein; 2.10A {Human papillomavirus type 18} SCOP: c.37.1.20

Probab=94.96  E-value=0.018  Score=49.45  Aligned_cols=38  Identities=16%  Similarity=0.019  Sum_probs=27.2

Q ss_pred             hHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234           83 KKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus        83 ~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      -+..+..++..     -+..+.+.|+|++|+|||++|..+++.
T Consensus        44 f~~~l~~~~~~-----iPkkn~ili~GPPGtGKTt~a~ala~~   81 (212)
T 1tue_A           44 FLGALKSFLKG-----TPKKNCLVFCGPANTGKSYFGMSFIHF   81 (212)
T ss_dssp             HHHHHHHHHHT-----CTTCSEEEEESCGGGCHHHHHHHHHHH
T ss_pred             HHHHHHHHHhc-----CCcccEEEEECCCCCCHHHHHHHHHHH
Confidence            35566666653     222446899999999999999887653

>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=94.93  E-value=0.0086  Score=51.71  Aligned_cols=21  Identities=38%  Similarity=0.567  Sum_probs=18.7

Q ss_pred             EEEEeeeCCCcHHHHHHHHhc
Q 038234          104 MISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      +|+|.|..|+||||+|+.+..
T Consensus         2 ~I~i~G~~GsGKsTl~~~L~~   22 (214)
T 1gtv_A            2 LIAIEGVDGAGKRTLVEKLSG   22 (214)
T ss_dssp             EEEEEEEEEEEHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHH
Confidence            689999999999999988654

>3umf_A Adenylate kinase; rossmann fold, transferase; 2.05A {Schistosoma mansoni}

Probab=94.89  E-value=0.015  Score=50.66  Aligned_cols=29  Identities=24%  Similarity=0.195  Sum_probs=24.7

Q ss_pred             CCCcEEEEEeeeCCCcHHHHHHHHhcCCh
Q 038234           99 QKPIKMISIVGMGGIGKITLAQMAYNDKD  127 (406)
Q Consensus        99 ~~~~~vi~I~G~gGiGKTtLA~~v~~~~~  127 (406)
                      -...++|.|.|++|+||+|.|+.+.+.+.
T Consensus        26 ~~k~kiI~llGpPGsGKgTqa~~L~~~~g   54 (217)
T 3umf_A           26 LAKAKVIFVLGGPGSGKGTQCEKLVQKFH   54 (217)
T ss_dssp             TTSCEEEEEECCTTCCHHHHHHHHHHHHC
T ss_pred             ccCCcEEEEECCCCCCHHHHHHHHHHHHC
Confidence            35578999999999999999998887654

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=94.88  E-value=0.016  Score=51.44  Aligned_cols=24  Identities=21%  Similarity=0.227  Sum_probs=21.0

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHhc
Q 038234          101 PIKMISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      ...+|+|.|..|+|||||++.+..
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            457899999999999999987755

>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=94.88  E-value=0.015  Score=49.74  Aligned_cols=25  Identities=20%  Similarity=0.166  Sum_probs=21.9

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      ...|+|.|+.|+||||+++.+.+..
T Consensus         4 ~~~I~l~G~~GsGKsT~~~~L~~~l   28 (204)
T 2v54_A            4 GALIVFEGLDKSGKTTQCMNIMESI   28 (204)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHTS
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHHH
Confidence            4589999999999999999987764

>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=94.88  E-value=0.018  Score=52.41  Aligned_cols=25  Identities=28%  Similarity=0.485  Sum_probs=21.8

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhc
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      ....+|+|.|+.|+||||+|+.+..
T Consensus        73 ~~~~iI~I~G~~GSGKSTva~~La~   97 (281)
T 2f6r_A           73 SGLYVLGLTGISGSGKSSVAQRLKN   97 (281)
T ss_dssp             TTCEEEEEEECTTSCHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHH
Confidence            4467999999999999999998863

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=94.84  E-value=0.013  Score=51.28  Aligned_cols=25  Identities=24%  Similarity=0.215  Sum_probs=21.6

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      ...|.|.|++|+||||+|+.+.+..
T Consensus         7 ~~~I~l~G~~GsGKsT~a~~La~~l   31 (227)
T 1zd8_A            7 LLRAVIMGAPGSGKGTVSSRITTHF   31 (227)
T ss_dssp             CCEEEEEECTTSSHHHHHHHHHHHS
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHc
Confidence            4689999999999999999987643

>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II}

Probab=94.83  E-value=0.012  Score=51.29  Aligned_cols=24  Identities=21%  Similarity=0.320  Sum_probs=20.9

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ...|.|.|++|+||||+|+.+.+.
T Consensus         5 ~~~I~l~G~~GsGKsT~a~~La~~   28 (217)
T 3be4_A            5 KHNLILIGAPGSGKGTQCEFIKKE   28 (217)
T ss_dssp             CCEEEEEECTTSSHHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHH
Confidence            457899999999999999988764

>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=94.83  E-value=0.014  Score=50.30  Aligned_cols=23  Identities=17%  Similarity=0.332  Sum_probs=20.1

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhc
Q 038234          102 IKMISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      ..+++|+|+.|+|||||++.+..
T Consensus        20 Gei~~l~GpnGsGKSTLl~~l~g   42 (207)
T 1znw_A           20 GRVVVLSGPSAVGKSTVVRCLRE   42 (207)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHh
Confidence            55899999999999999988754

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=94.79  E-value=0.019  Score=49.70  Aligned_cols=39  Identities=18%  Similarity=0.159  Sum_probs=27.6

Q ss_pred             chhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhc
Q 038234           80 RDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus        80 R~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      .++..+.+.+.+..      ....+|+|+|.+|+|||||+..+..
T Consensus        14 ~~~~~~~~~~~~~~------~~~~~i~i~G~~g~GKTTl~~~l~~   52 (221)
T 2wsm_A           14 NKRLAEKNREALRE------SGTVAVNIMGAIGSGKTLLIERTIE   52 (221)
T ss_dssp             HHHHHHHHHHHHHH------HTCEEEEEEECTTSCHHHHHHHHHH
T ss_pred             cHHHHHHHHHhhcc------cCceEEEEEcCCCCCHHHHHHHHHH
Confidence            33445555555432      3477999999999999999987654

>3jvv_A Twitching mobility protein; hexameric P-loop ATPase, secretion ATPase, ATP-binding, FIMB nucleotide-binding, transport; HET: ACP CIT; 2.60A {Pseudomonas aeruginosa} PDB: 3jvu_A*

Probab=94.77  E-value=0.026  Score=53.12  Aligned_cols=101  Identities=12%  Similarity=0.166  Sum_probs=57.8

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCChHHHHHHHH---HH--hcCCC--------CCCCCHHHHHHHHHhhccCcceeEEe
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDKDFRVAKAII---AA--LGCET--------SNLGSLQSLVRCISESIEGKKYLVVL  168 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~~~i~---~~--l~~~~--------~~~~~~~~~~~~l~~~l~~kr~LlVl  168 (406)
                      ..+++|+|+.|.|||||.+.+.......-...++   ..  .....        ............+...|...+=+|++
T Consensus       123 ~g~i~I~GptGSGKTTlL~~l~g~~~~~~~~~i~t~ed~~e~~~~~~~~~v~q~~~~~~~~~~~~~La~aL~~~Pdvill  202 (356)
T 3jvv_A          123 RGLVLVTGPTGSGKSTTLAAMLDYLNNTKYHHILTIEDPIEFVHESKKCLVNQREVHRDTLGFSEALRSALREDPDIILV  202 (356)
T ss_dssp             SEEEEEECSTTSCHHHHHHHHHHHHHHHCCCEEEEEESSCCSCCCCSSSEEEEEEBTTTBSCHHHHHHHHTTSCCSEEEE
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhcccCCCCcEEEEccCcHHhhhhccccceeeeeeccccCCHHHHHHHHhhhCcCEEec
Confidence            4499999999999999998876532210000000   00  00000        00011123445788888889999999


Q ss_pred             eCCCCcCccCcchhhhccCCCCCCcEEEEecCChHHHHH
Q 038234          169 DDVWTDDYTKWEPFQRCSANGQCGNNILVTTHKKTVARM  207 (406)
Q Consensus       169 Ddvw~~~~~~~~~l~~~l~~~~~gs~IivTtR~~~v~~~  207 (406)
                      |.+.  +.+.+..+....   ..|..||+|+.....+..
T Consensus       203 DEp~--d~e~~~~~~~~~---~~G~~vl~t~H~~~~~~~  236 (356)
T 3jvv_A          203 GEMR--DLETIRLALTAA---ETGHLVFGTLHTTSAAKT  236 (356)
T ss_dssp             SCCC--SHHHHHHHHHHH---HTTCEEEEEESCSSHHHH
T ss_pred             CCCC--CHHHHHHHHHHH---hcCCEEEEEEccChHHHH
Confidence            9994  333444433332   235568999988776644

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=94.73  E-value=0.013  Score=51.19  Aligned_cols=23  Identities=39%  Similarity=0.483  Sum_probs=20.0

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhc
Q 038234          102 IKMISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      ..+++|+|+.|+|||||++.+..
T Consensus        23 G~~~~lvGpsGsGKSTLl~~L~g   45 (218)
T 1z6g_A           23 IYPLVICGPSGVGKGTLIKKLLN   45 (218)
T ss_dssp             CCCEEEECSTTSSHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHh
Confidence            45899999999999999988754

>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=94.72  E-value=0.017  Score=49.88  Aligned_cols=26  Identities=27%  Similarity=0.174  Sum_probs=22.1

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          101 PIKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      ...+|.|.|+.|+||||+++.+....
T Consensus        24 ~~~~i~~~G~~GsGKsT~~~~l~~~l   49 (211)
T 1m7g_A           24 RGLTIWLTGLSASGKSTLAVELEHQL   49 (211)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHh
Confidence            35789999999999999999886643

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=94.72  E-value=0.016  Score=51.74  Aligned_cols=24  Identities=29%  Similarity=0.382  Sum_probs=21.5

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ..+|+|+|+.|+||||+++.+.+.
T Consensus        27 g~~I~I~G~~GsGKSTl~k~La~~   50 (252)
T 4e22_A           27 APVITVDGPSGAGKGTLCKALAES   50 (252)
T ss_dssp             SCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHh
Confidence            458999999999999999999854

>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=94.70  E-value=0.031  Score=52.60  Aligned_cols=36  Identities=31%  Similarity=0.446  Sum_probs=26.7

Q ss_pred             HHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHh
Q 038234           84 KNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAY  123 (406)
Q Consensus        84 ~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~  123 (406)
                      ..++.+.+...    .....+|+|+|.+|+|||||+..+.
T Consensus        65 ~~~~~~~~~~~----~~~~~~I~i~G~~G~GKSTl~~~L~  100 (355)
T 3p32_A           65 AQQLLLRLLPD----SGNAHRVGITGVPGVGKSTAIEALG  100 (355)
T ss_dssp             HHHHHHHHGGG----CCCSEEEEEECCTTSSHHHHHHHHH
T ss_pred             HHHHHHHhHhh----cCCceEEEEECCCCCCHHHHHHHHH
Confidence            44555555432    3457899999999999999998775

>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=94.70  E-value=0.017  Score=53.23  Aligned_cols=24  Identities=25%  Similarity=0.391  Sum_probs=20.8

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHhc
Q 038234          101 PIKMISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      +..+++|+|++|+|||||+..++.
T Consensus       101 ~g~vi~lvG~nGsGKTTll~~Lag  124 (304)
T 1rj9_A          101 KGRVVLVVGVNGVGKTTTIAKLGR  124 (304)
T ss_dssp             SSSEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHH
Confidence            467999999999999999988653

>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=94.69  E-value=0.016  Score=50.55  Aligned_cols=26  Identities=19%  Similarity=0.207  Sum_probs=21.5

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      +...+++|+|+.|+|||||.+.+...
T Consensus        14 ~~G~ii~l~GpsGsGKSTLlk~L~g~   39 (219)
T 1s96_A           14 AQGTLYIVSAPSGAGKSSLIQALLKT   39 (219)
T ss_dssp             -CCCEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHhcc
Confidence            34569999999999999999887653

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=94.65  E-value=0.014  Score=50.88  Aligned_cols=24  Identities=21%  Similarity=0.153  Sum_probs=21.0

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ...|.|.|++|+||||+|+.+.+.
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            457899999999999999988764

>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=94.62  E-value=0.022  Score=46.98  Aligned_cols=25  Identities=28%  Similarity=0.309  Sum_probs=21.0

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhc
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      ++..+++|+|+.|.|||||.+.++.
T Consensus        31 ~~Ge~v~L~G~nGaGKTTLlr~l~g   55 (158)
T 1htw_A           31 EKAIMVYLNGDLGAGKTTLTRGMLQ   55 (158)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHH
Confidence            3466999999999999999988643

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=94.60  E-value=0.016  Score=50.10  Aligned_cols=22  Identities=32%  Similarity=0.425  Sum_probs=19.3

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcC
Q 038234          104 MISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      .|+|.|++|+||||+|+.+.+.
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            4789999999999999988654

>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=94.56  E-value=0.021  Score=49.55  Aligned_cols=23  Identities=26%  Similarity=0.303  Sum_probs=20.8

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhc
Q 038234          102 IKMISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      ..+|+|.|+.|+||||+++.+..
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            46899999999999999998876

>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=94.56  E-value=0.023  Score=50.01  Aligned_cols=24  Identities=17%  Similarity=0.277  Sum_probs=21.2

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ..+|+|.|++|+||||+|+.+...
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            458999999999999999988754

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=94.53  E-value=0.03  Score=47.14  Aligned_cols=27  Identities=26%  Similarity=0.245  Sum_probs=22.3

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      .....|+|+|.+|+|||||...+....
T Consensus        46 ~~~~~i~vvG~~g~GKSsll~~l~~~~   72 (193)
T 2ged_A           46 SYQPSIIIAGPQNSGKTSLLTLLTTDS   72 (193)
T ss_dssp             CCCCEEEEECCTTSSHHHHHHHHHHSS
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            345578999999999999998887654

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=94.52  E-value=0.015  Score=52.61  Aligned_cols=52  Identities=21%  Similarity=0.252  Sum_probs=31.4

Q ss_pred             CceecchhhHHHHHHHHhcCCCC-------CCCCcEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234           75 SEICGRDYKKNELLSKLLSDSSD-------QQKPIKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~-------~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      .++.|.++.+++|.+.+...-..       +-...+-+.|+|++|+||||||+.++...
T Consensus        10 ~di~g~~~~~~~l~~~i~~~~~~~~~l~~~~l~~~~GvlL~Gp~GtGKTtLakala~~~   68 (274)
T 2x8a_A           10 ADIGALEDIREELTMAILAPVRNPDQFKALGLVTPAGVLLAGPPGCGKTLLAKAVANES   68 (274)
T ss_dssp             --CCHHHHHHHHHHHHHTHHHHSHHHHHHTTCCCCSEEEEESSTTSCHHHHHHHHHHHT
T ss_pred             HHhCCHHHHHHHHHHHHHHHhhCHHHHHHcCCCCCCeEEEECCCCCcHHHHHHHHHHHc
Confidence            45677777777666543210000       00111229999999999999999987643

>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=94.52  E-value=0.018  Score=49.93  Aligned_cols=23  Identities=22%  Similarity=0.316  Sum_probs=19.9

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcCC
Q 038234          104 MISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      .|+|.|++|+||||+|+.+.+..
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~~   24 (216)
T 3dl0_A            2 NLVLMGLPGAGKGTQGERIVEKY   24 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999886644

>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=94.46  E-value=0.02  Score=49.79  Aligned_cols=25  Identities=24%  Similarity=0.256  Sum_probs=21.5

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhc
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      +.-.+++|+|++|+|||||++.++.
T Consensus        23 ~~G~~~~l~G~nGsGKSTll~~l~g   47 (231)
T 4a74_A           23 ETQAITEVFGEFGSGKTQLAHTLAV   47 (231)
T ss_dssp             ESSEEEEEEESTTSSHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHH
Confidence            3467999999999999999998754

>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=94.45  E-value=0.032  Score=52.70  Aligned_cols=72  Identities=22%  Similarity=0.202  Sum_probs=42.7

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHhcCChH------------HHHHHHHHHhcCCCC-----CCCCHHHHHHHHHhhcc-Cc
Q 038234          101 PIKMISIVGMGGIGKITLAQMAYNDKDF------------RVAKAIIAALGCETS-----NLGSLQSLVRCISESIE-GK  162 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~------------~~~~~i~~~l~~~~~-----~~~~~~~~~~~l~~~l~-~k  162 (406)
                      ...++.|.|.+|+||||||.++......            .+.......++....     ...+.+++...+..... ++
T Consensus        73 ~G~li~I~G~pGsGKTtlal~la~~~~~~g~~vlyi~~E~s~~~~~a~~~g~d~~~l~i~~~~~~e~~l~~l~~l~~~~~  152 (366)
T 1xp8_A           73 RGRITEIYGPESGGKTTLALAIVAQAQKAGGTCAFIDAEHALDPVYARALGVNTDELLVSQPDNGEQALEIMELLVRSGA  152 (366)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEESSCCCCHHHHHHTTCCGGGCEEECCSSHHHHHHHHHHHHTTTC
T ss_pred             CCcEEEEEcCCCCChHHHHHHHHHHHHHCCCeEEEEECCCChhHHHHHHcCCCHHHceeecCCcHHHHHHHHHHHHhcCC
Confidence            3558899999999999999777543211            011112333433211     22355666666655544 34


Q ss_pred             ceeEEeeCCC
Q 038234          163 KYLVVLDDVW  172 (406)
Q Consensus       163 r~LlVlDdvw  172 (406)
                      .-+||+|.+.
T Consensus       153 ~~lVVIDsl~  162 (366)
T 1xp8_A          153 IDVVVVDSVA  162 (366)
T ss_dssp             CSEEEEECTT
T ss_pred             CCEEEEeChH
Confidence            5699999884

>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=94.35  E-value=0.068  Score=51.55  Aligned_cols=25  Identities=36%  Similarity=0.320  Sum_probs=21.5

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhc
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      .+..+|.++|.+|+||||++..++.
T Consensus        95 ~~~~vI~lvG~~GsGKTTt~~kLA~  119 (433)
T 3kl4_A           95 KLPFIIMLVGVQGSGKTTTAGKLAY  119 (433)
T ss_dssp             SSSEEEEECCCTTSCHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHH
Confidence            3478999999999999999877764

>1zu4_A FTSY; GTPase, signal recognition particle, SRP, receptor, protein transport; 1.95A {Mycoplasma mycoides} PDB: 1zu5_A

Probab=94.35  E-value=0.052  Score=50.26  Aligned_cols=25  Identities=28%  Similarity=0.456  Sum_probs=21.5

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhc
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      .+..+++|+|.+|+||||++..++.
T Consensus       103 ~~~~vI~ivG~~G~GKTT~~~~LA~  127 (320)
T 1zu4_A          103 NRLNIFMLVGVNGTGKTTSLAKMAN  127 (320)
T ss_dssp             TSCEEEEEESSTTSSHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHH
Confidence            4578999999999999999987653

>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=94.32  E-value=0.21  Score=46.44  Aligned_cols=128  Identities=4%  Similarity=-0.107  Sum_probs=80.2

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCChHHHHHHHHHHhcCCCCCCCCHHHHHHHHHhh-ccCcceeEEeeCCCC-cCccCc
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDKDFRVAKAIIAALGCETSNLGSLQSLVRCISES-IEGKKYLVVLDDVWT-DDYTKW  179 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~-l~~kr~LlVlDdvw~-~~~~~~  179 (406)
                      .++..++|..|.||++.+..+.+.....   ..-...........+..++...+... +-+++-++|+|++.. .+...+
T Consensus        18 ~~~yl~~G~e~~~~~~~~~~l~~~~~~~---~~~~~~~~~~~~~~~~~~l~~~~~~~plf~~~kvvii~~~~~kl~~~~~   94 (343)
T 1jr3_D           18 RAAYLLLGNDPLLLQESQDAVRQVAAAQ---GFEEHHTFSIDPNTDWNAIFSLCQAMSLFASRQTLLLLLPENGPNAAIN   94 (343)
T ss_dssp             CSEEEEEESCHHHHHHHHHHHHHHHHHH---TCCEEEEEECCTTCCHHHHHHHHHHHHHCCSCEEEEEECCSSCCCTTHH
T ss_pred             CcEEEEECCcHHHHHHHHHHHHHHHHhC---CCCeeEEEEecCCCCHHHHHHHhcCcCCccCCeEEEEECCCCCCChHHH
Confidence            5588999999999999998775532110   00000000011235566666655433 456777899999865 444566


Q ss_pred             chhhhccCCCCCCcEEEEecCC-------hHHHHHhc-cCCccccCCCChHHHHHhhhhhc
Q 038234          180 EPFQRCSANGQCGNNILVTTHK-------KTVARMME-STNFISIKELSTQECWSLFKQES  232 (406)
Q Consensus       180 ~~l~~~l~~~~~gs~IivTtR~-------~~v~~~~~-~~~~~~l~~L~~~~a~~Lf~~~~  232 (406)
                      +.+...+....+++.+|+++..       ..+...+. ...+++..+++.++....+.+.+
T Consensus        95 ~aLl~~le~p~~~~~~il~~~~~~~~~~~~k~~~~i~sr~~~~~~~~l~~~~l~~~l~~~~  155 (343)
T 1jr3_D           95 EQLLTLTGLLHDDLLLIVRGNKLSKAQENAAWFTALANRSVQVTCQTPEQAQLPRWVAARA  155 (343)
T ss_dssp             HHHHHHHTTCBTTEEEEEEESCCCTTTTTSHHHHHHTTTCEEEEECCCCTTHHHHHHHHHH
T ss_pred             HHHHHHHhcCCCCeEEEEEcCCCChhhHhhHHHHHHHhCceEEEeeCCCHHHHHHHHHHHH
Confidence            7777777665567777765532       24555443 35678999999998887776655

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=94.29  E-value=0.026  Score=51.88  Aligned_cols=26  Identities=31%  Similarity=0.321  Sum_probs=21.9

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      .+..+++|+|+.|+||||+++.++..
T Consensus        98 ~~g~vi~lvG~nGsGKTTll~~Lag~  123 (302)
T 3b9q_A           98 RKPAVIMIVGVNGGGKTTSLGKLAHR  123 (302)
T ss_dssp             SSCEEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCCcEEEEEcCCCCCHHHHHHHHHHH
Confidence            35679999999999999999887543

>1sky_E F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alpha3BETA3 SUBC F1-ATPase, hydrolase; 3.20A {Bacillus SP} SCOP: a.69.1.1 b.49.1.1 c.37.1.11

Probab=94.28  E-value=0.065  Score=52.02  Aligned_cols=23  Identities=30%  Similarity=0.475  Sum_probs=19.5

Q ss_pred             EEEEEeeeCCCcHHHHHHHHhcC
Q 038234          103 KMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       103 ~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ..++|+|.+|+|||||+..+...
T Consensus       152 q~~~i~G~sGvGKTtL~~~l~~~  174 (473)
T 1sky_E          152 GKIGLFGGAGVGKTVLIQELIHN  174 (473)
T ss_dssp             CEEEEECCSSSCHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCccHHHHHHHhh
Confidence            36899999999999999877554

>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=94.23  E-value=0.022  Score=48.75  Aligned_cols=22  Identities=23%  Similarity=0.339  Sum_probs=20.2

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcC
Q 038234          104 MISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      +|+|.|+.|+||||+|+.+...
T Consensus         4 ~i~i~G~~GsGKst~~~~la~~   25 (208)
T 3ake_A            4 IVTIDGPSASGKSSVARRVAAA   25 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHh
Confidence            8999999999999999998764

>2xxa_A Signal recognition particle protein; protein transport, RNA/RNA binding protein, hydrolase, gtpas; HET: GCP; 3.94A {Escherichia coli} PDB: 2j28_9

Probab=94.22  E-value=0.051  Score=52.57  Aligned_cols=41  Identities=22%  Similarity=0.363  Sum_probs=27.9

Q ss_pred             hHHHHHHHHhcCCCC---CCCCcEEEEEeeeCCCcHHHHHHHHh
Q 038234           83 KKNELLSKLLSDSSD---QQKPIKMISIVGMGGIGKITLAQMAY  123 (406)
Q Consensus        83 ~~~~l~~~L~~~~~~---~~~~~~vi~I~G~gGiGKTtLA~~v~  123 (406)
                      -.+++.+.|......   ...+.++|.++|.+|+||||++..++
T Consensus        78 ~~~~l~~~l~~~~~~~~~~~~~~~vI~ivG~~GvGKTT~a~~LA  121 (433)
T 2xxa_A           78 VRNELVAAMGEENQTLNLAAQPPAVVLMAGLQGAGKTTSVGKLG  121 (433)
T ss_dssp             HHHHHHHHHCSSSCCCCCCSSSSEEEEEECSTTSSHHHHHHHHH
T ss_pred             HHHHHHHHhccccccccccCCCCeEEEEECCCCCCHHHHHHHHH
Confidence            345666666432110   12457899999999999999987665

>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP; 2.37A {Humulus lupulus}

Probab=94.19  E-value=0.032  Score=51.84  Aligned_cols=26  Identities=23%  Similarity=0.271  Sum_probs=23.4

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCCh
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDKD  127 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~~  127 (406)
                      .++|.|+|+.|+||||||..+++...
T Consensus        40 ~~lIvI~GPTgsGKTtLa~~LA~~l~   65 (339)
T 3a8t_A           40 EKLLVLMGATGTGKSRLSIDLAAHFP   65 (339)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHTTSC
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHCC
Confidence            46899999999999999999998764

>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=94.18  E-value=0.04  Score=49.08  Aligned_cols=25  Identities=28%  Similarity=0.295  Sum_probs=21.0

Q ss_pred             CCCcEEEEEeeeCCCcHHHHHHHHh
Q 038234           99 QKPIKMISIVGMGGIGKITLAQMAY  123 (406)
Q Consensus        99 ~~~~~vi~I~G~gGiGKTtLA~~v~  123 (406)
                      .....++.+.|.||+|||||+..+.
T Consensus        11 ~~~~~i~~~~GkgGvGKTTl~~~La   35 (262)
T 1yrb_A           11 GMASMIVVFVGTAGSGKTTLTGEFG   35 (262)
T ss_dssp             TCCCEEEEEECSTTSSHHHHHHHHH
T ss_pred             CcceEEEEEeCCCCCCHHHHHHHHH
Confidence            3446788999999999999998764

>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB); structural genomics, PSI, protein structure initiative; 2.10A {Archaeoglobus fulgidus}

Probab=94.13  E-value=0.015  Score=48.67  Aligned_cols=23  Identities=35%  Similarity=0.365  Sum_probs=19.9

Q ss_pred             EEEEEeeeCCCcHHHHHHHHhcC
Q 038234          103 KMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       103 ~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      .+++|+|..|+|||||++.+...
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            47999999999999999887543

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=94.12  E-value=0.022  Score=51.58  Aligned_cols=52  Identities=23%  Similarity=0.286  Sum_probs=32.8

Q ss_pred             CceecchhhHHHHHHHHhcCCCC------CCCCcEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234           75 SEICGRDYKKNELLSKLLSDSSD------QQKPIKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~------~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      .+++|.+..+.++.+....-...      +-...+-+.|+|++|+||||||+.++...
T Consensus        40 ~~i~g~~~~~~~l~~l~~~~~~~~~l~~~~~~~~~gvll~Gp~GtGKTtl~~~i~~~~   97 (278)
T 1iy2_A           40 KDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEA   97 (278)
T ss_dssp             GGSSSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCCEEEEECCTTSSHHHHHHHHHHHT
T ss_pred             HHhCChHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEEECCCcChHHHHHHHHHHHc
Confidence            56889887666665443211000      00111228999999999999999988653

>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography, emerald biostructures, ATP-binding, cytoplasm, nucleotide-binding; HET: 5GP; 1.95A {Anaplasma phagocytophilum}

Probab=94.10  E-value=0.014  Score=51.15  Aligned_cols=22  Identities=23%  Similarity=0.271  Sum_probs=16.1

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHh
Q 038234          102 IKMISIVGMGGIGKITLAQMAY  123 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~  123 (406)
                      ..+++|+|+.|+|||||++.+.
T Consensus        27 G~ii~l~Gp~GsGKSTl~~~L~   48 (231)
T 3lnc_A           27 GVILVLSSPSGCGKTTVANKLL   48 (231)
T ss_dssp             CCEEEEECSCC----CHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHH
Confidence            4589999999999999999887

>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=94.09  E-value=0.054  Score=49.82  Aligned_cols=70  Identities=16%  Similarity=0.266  Sum_probs=41.3

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcCCh-------H-------HHHHHHHHHhcCCCC-----CCCCHHHH-HHHHHh---hcc
Q 038234          104 MISIVGMGGIGKITLAQMAYNDKD-------F-------RVAKAIIAALGCETS-----NLGSLQSL-VRCISE---SIE  160 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~~~-------~-------~~~~~i~~~l~~~~~-----~~~~~~~~-~~~l~~---~l~  160 (406)
                      ++-|.|.+|+|||||+.+++....       +       .+....+..++....     ...+.+++ ...+..   .-+
T Consensus        30 iteI~G~pGsGKTtL~Lq~~~~~~~~g~g~~vlyId~E~s~~~~ra~~lGvd~d~llv~~~~~~E~~~l~i~~~l~~i~~  109 (333)
T 3io5_A           30 LLILAGPSKSFKSNFGLTMVSSYMRQYPDAVCLFYDSEFGITPAYLRSMGVDPERVIHTPVQSLEQLRIDMVNQLDAIER  109 (333)
T ss_dssp             EEEEEESSSSSHHHHHHHHHHHHHHHCTTCEEEEEESSCCCCHHHHHHTTCCGGGEEEEECSBHHHHHHHHHHHHHTCCT
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHHhcCCCceEEEEeccchhhHHHHHHhCCCHHHeEEEcCCCHHHHHHHHHHHHHHhhc
Confidence            789999999999999866543221       0       122233555554432     12345554 333222   234


Q ss_pred             CcceeEEeeCCCC
Q 038234          161 GKKYLVVLDDVWT  173 (406)
Q Consensus       161 ~kr~LlVlDdvw~  173 (406)
                      ++.-|||+|-+..
T Consensus       110 ~~~~lvVIDSI~a  122 (333)
T 3io5_A          110 GEKVVVFIDSLGN  122 (333)
T ss_dssp             TCCEEEEEECSTT
T ss_pred             cCceEEEEecccc
Confidence            6778999998843

>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=94.09  E-value=0.031  Score=51.97  Aligned_cols=26  Identities=31%  Similarity=0.272  Sum_probs=22.3

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ++..+++|+|+.|+||||++..+...
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            45789999999999999999887643

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=94.03  E-value=0.019  Score=51.18  Aligned_cols=23  Identities=30%  Similarity=0.453  Sum_probs=20.6

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhc
Q 038234          102 IKMISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      ..+|+|+|+.|+||||+++.+..
T Consensus        48 g~~i~l~G~~GsGKSTl~~~La~   70 (250)
T 3nwj_A           48 GRSMYLVGMMGSGKTTVGKIMAR   70 (250)
T ss_dssp             TCCEEEECSTTSCHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHH
Confidence            34799999999999999999876

>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=94.02  E-value=0.027  Score=49.49  Aligned_cols=25  Identities=24%  Similarity=0.090  Sum_probs=21.5

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      ...|.|.|++|+||||+|+.+.+..
T Consensus        16 ~~~I~l~G~~GsGKsT~a~~La~~l   40 (233)
T 1ak2_A           16 GVRAVLLGPPGAGKGTQAPKLAKNF   40 (233)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            4579999999999999999887653

>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=94.00  E-value=0.028  Score=48.64  Aligned_cols=22  Identities=32%  Similarity=0.283  Sum_probs=19.4

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcC
Q 038234          104 MISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      .|.|.|++|+||||+|+.+.+.
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            4789999999999999988764

>3d3q_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2; 2.70A {Staphylococcus epidermidis atcc 12228}

Probab=93.94  E-value=0.028  Score=52.31  Aligned_cols=24  Identities=29%  Similarity=0.250  Sum_probs=21.2

Q ss_pred             EEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          103 KMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       103 ~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      .+|+|.|+.|+||||||..++...
T Consensus         8 ~lI~I~GptgSGKTtla~~La~~l   31 (340)
T 3d3q_A            8 FLIVIVGPTASGKTELSIEVAKKF   31 (340)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             ceEEEECCCcCcHHHHHHHHHHHc
Confidence            589999999999999999887654

>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11

Probab=93.94  E-value=0.025  Score=48.16  Aligned_cols=22  Identities=32%  Similarity=0.415  Sum_probs=19.2

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcC
Q 038234          104 MISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      +++|+|..|+|||||++.++..
T Consensus         3 ~i~i~G~nG~GKTTll~~l~g~   24 (189)
T 2i3b_A            3 HVFLTGPPGVGKTTLIHKASEV   24 (189)
T ss_dssp             CEEEESCCSSCHHHHHHHHHHH
T ss_pred             EEEEECCCCChHHHHHHHHHhh
Confidence            6899999999999999887643

>3b5x_A Lipid A export ATP-binding/permease protein MSBA; ABC transporter, lipid flippase, hydrolase, inner membrane, lipid transport, membrane; 5.50A {Vibrio cholerae}

Probab=93.92  E-value=0.056  Score=54.52  Aligned_cols=26  Identities=31%  Similarity=0.349  Sum_probs=22.3

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          101 PIKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      +..+++|+|+.|.|||||++.+..-.
T Consensus       368 ~G~~~~ivG~sGsGKSTll~~l~g~~  393 (582)
T 3b5x_A          368 QGKTVALVGRSGSGKSTIANLFTRFY  393 (582)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            35689999999999999999887654

>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=93.91  E-value=0.026  Score=54.36  Aligned_cols=27  Identities=26%  Similarity=0.314  Sum_probs=23.1

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      ....+|.|+|++|+||||+|+.+....
T Consensus       256 ~~~~lIil~G~pGSGKSTla~~L~~~~  282 (416)
T 3zvl_A          256 PNPEVVVAVGFPGAGKSTFIQEHLVSA  282 (416)
T ss_dssp             SSCCEEEEESCTTSSHHHHHHHHTGGG
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHhc
Confidence            346799999999999999999987653

>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase; HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A* 3l0p_A*

Probab=93.88  E-value=0.029  Score=48.99  Aligned_cols=22  Identities=32%  Similarity=0.367  Sum_probs=19.5

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcC
Q 038234          104 MISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      .|.|.|++|+||||+|+.+.+.
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            5889999999999999988754

>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=93.88  E-value=0.03  Score=51.19  Aligned_cols=23  Identities=35%  Similarity=0.406  Sum_probs=20.7

Q ss_pred             EEEEEeeeCCCcHHHHHHHHhcC
Q 038234          103 KMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       103 ~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      .+|.|.|++|+||||+|+.+.+.
T Consensus         3 ~~I~l~G~~GsGKST~a~~L~~~   25 (301)
T 1ltq_A            3 KIILTIGCPGSGKSTWAREFIAK   25 (301)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHh
Confidence            57999999999999999998863

>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=93.87  E-value=0.03  Score=49.42  Aligned_cols=24  Identities=29%  Similarity=0.325  Sum_probs=20.9

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ..+++|+|+.|+|||||.+.+..-
T Consensus        31 Ge~~~iiG~nGsGKSTLl~~l~Gl   54 (235)
T 3tif_A           31 GEFVSIMGPSGSGKSTMLNIIGCL   54 (235)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CCEEEEECCCCCcHHHHHHHHhcC
Confidence            458999999999999999987654

>2onk_A Molybdate/tungstate ABC transporter, ATP-binding protein; membrane protein; 3.10A {Archaeoglobus fulgidus} SCOP: c.37.1.12

Probab=93.85  E-value=0.03  Score=49.57  Aligned_cols=23  Identities=17%  Similarity=0.271  Sum_probs=20.4

Q ss_pred             EEEEEeeeCCCcHHHHHHHHhcC
Q 038234          103 KMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       103 ~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      .+++|+|+.|.|||||.+.+..-
T Consensus        25 e~~~liG~nGsGKSTLl~~l~Gl   47 (240)
T 2onk_A           25 DYCVLLGPTGAGKSVFLELIAGI   47 (240)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHTS
T ss_pred             EEEEEECCCCCCHHHHHHHHhCC
Confidence            68999999999999999987654

>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=93.85  E-value=0.071  Score=51.50  Aligned_cols=24  Identities=25%  Similarity=0.344  Sum_probs=20.8

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHhc
Q 038234          101 PIKMISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      +..+|.++|.+|+||||++..++.
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            478999999999999999876653

>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=93.84  E-value=0.057  Score=52.20  Aligned_cols=52  Identities=21%  Similarity=0.242  Sum_probs=35.0

Q ss_pred             CceecchhhHHHHHHHHhcC--------CCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234           75 SEICGRDYKKNELLSKLLSD--------SSDQQKPIKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~--------~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      ..++|.+..++.+...+...        .-......+-+.++|++|+|||++|+.++...
T Consensus        15 ~~IvGqe~ak~~l~~av~~~~~r~~~~~~~~~~~~~~~iLl~GppGtGKT~lar~lA~~l   74 (444)
T 1g41_A           15 QHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLA   74 (444)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHHHHSCTTTTTTCCCCCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             HHhCCHHHHHHHHHHHHHHHHhhhccccccccccCCceEEEEcCCCCCHHHHHHHHHHHc
Confidence            45788888777776655221        00001234568899999999999999887643

>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=93.83  E-value=0.029  Score=47.00  Aligned_cols=23  Identities=26%  Similarity=0.420  Sum_probs=20.2

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhc
Q 038234          102 IKMISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      ..+++|+|..|+|||||+..+..
T Consensus         6 ~~~i~i~G~sGsGKTTl~~~l~~   28 (174)
T 1np6_A            6 IPLLAFAAWSGTGKTTLLKKLIP   28 (174)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHH
T ss_pred             ceEEEEEeCCCCCHHHHHHHHHH
Confidence            56899999999999999988754

>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=93.80  E-value=0.035  Score=50.98  Aligned_cols=26  Identities=27%  Similarity=0.395  Sum_probs=22.4

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCCh
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDKD  127 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~~  127 (406)
                      .++|.|+|+.|+||||||..++....
T Consensus         3 ~~~i~i~GptgsGKt~la~~La~~~~   28 (322)
T 3exa_A            3 EKLVAIVGPTAVGKTKTSVMLAKRLN   28 (322)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHTTT
T ss_pred             CcEEEEECCCcCCHHHHHHHHHHhCc
Confidence            45899999999999999999887653

>2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding protein; structural genomics; 1.70A {Aquifex aeolicus} PDB: 2pcl_A

Probab=93.79  E-value=0.033  Score=48.76  Aligned_cols=24  Identities=33%  Similarity=0.331  Sum_probs=20.7

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ..+++|+|+.|+|||||.+.+..-
T Consensus        30 Ge~~~iiG~nGsGKSTLl~~l~Gl   53 (224)
T 2pcj_A           30 GEFVSIIGASGSGKSTLLYILGLL   53 (224)
T ss_dssp             TCEEEEEECTTSCHHHHHHHHTTS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcC
Confidence            458999999999999999987654

>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET: ADP; 3.90A {Thermus thermophilus}

Probab=93.79  E-value=0.041  Score=54.22  Aligned_cols=153  Identities=12%  Similarity=0.095  Sum_probs=75.8

Q ss_pred             CceecchhhHHHHHHHHh---cCC---CCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChHHHHHHHHHHhcCCCCCCCCH
Q 038234           75 SEICGRDYKKNELLSKLL---SDS---SDQQKPIKMISIVGMGGIGKITLAQMAYNDKDFRVAKAIIAALGCETSNLGSL  148 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~---~~~---~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~~~i~~~l~~~~~~~~~~  148 (406)
                      .+++|.+..+.++.+...   ...   .-+-...+-+.|+|++|+|||+||+.++......+.     .+........-.
T Consensus        31 ~dv~G~~~~k~~l~~lv~~l~~~~~~~~lg~~ip~GvLL~GppGtGKTtLaraIa~~~~~~~i-----~i~g~~~~~~~~  105 (499)
T 2dhr_A           31 KDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVPFI-----TASGSDFVEMFV  105 (499)
T ss_dssp             TSSCSCHHHHHHHHHHHHHHHCGGGTTTTSCCCCSEEEEECSSSSSHHHHHHHHHHHTTCCEE-----EEEGGGGTSSCT
T ss_pred             HHcCCcHHHHHHHHHHHHHhhchhhhhhccCCCCceEEEECCCCCCHHHHHHHHHHHhCCCEE-----EEehhHHHHhhh
Confidence            568898887666655432   110   000111233899999999999999999865321000     000000000001


Q ss_pred             HHHHHHHHhhc----cCcceeEEeeCCCCcCc----------cC----cchhhhccCCC--CCCcEEEEecCChHHHHH-
Q 038234          149 QSLVRCISESI----EGKKYLVVLDDVWTDDY----------TK----WEPFQRCSANG--QCGNNILVTTHKKTVARM-  207 (406)
Q Consensus       149 ~~~~~~l~~~l----~~kr~LlVlDdvw~~~~----------~~----~~~l~~~l~~~--~~gs~IivTtR~~~v~~~-  207 (406)
                      ......+...+    ...+.++++|++.....          ..    ...+...+...  ..+..|+.||........ 
T Consensus       106 g~~~~~v~~lfq~a~~~~p~il~IDEId~l~~~r~~~~~~~~~e~~~~l~~LL~~Ldg~~~~~~viviAatn~p~~LD~a  185 (499)
T 2dhr_A          106 GVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDTAIVVMAATNRPDILDPA  185 (499)
T ss_dssp             THHHHHHHHHTTTSSSSSSCEEEEECGGGTCCCSSSSTTTSSHHHHHHHHHHHHHGGGCCSSCCCEEEECCSCGGGSCTT
T ss_pred             hhHHHHHHHHHHHHHhcCCCEEEEehHHHHHHhhccCcCCCcHHHHHHHHHHHHHhcccccCccEEEEEecCChhhcCcc
Confidence            11122222222    23458999999943211          00    11222223222  223455666666544221 


Q ss_pred             -h---ccCCccccCCCChHHHHHhhhhhc
Q 038234          208 -M---ESTNFISIKELSTQECWSLFKQES  232 (406)
Q Consensus       208 -~---~~~~~~~l~~L~~~~a~~Lf~~~~  232 (406)
                       .   .-...+.+...+.++-.+++...+
T Consensus       186 Llr~gRfdr~i~i~~Pd~~~R~~IL~~~~  214 (499)
T 2dhr_A          186 LLRPGRFDRQIAIDAPDVKGREQILRIHA  214 (499)
T ss_dssp             TSSTTSSCCEEECCCCCHHHHHHHHHHTT
T ss_pred             cccccccceEEecCCCCHHHHHHHHHHHH
Confidence             1   114567888888887777776543

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=93.76  E-value=0.037  Score=52.10  Aligned_cols=26  Identities=31%  Similarity=0.321  Sum_probs=22.1

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      .+..+++|+|..|+|||||+..++..
T Consensus       155 ~~g~vi~lvG~nGsGKTTll~~Lag~  180 (359)
T 2og2_A          155 RKPAVIMIVGVNGGGKTTSLGKLAHR  180 (359)
T ss_dssp             SSSEEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCCeEEEEEcCCCChHHHHHHHHHhh
Confidence            35689999999999999999887543

>1a7j_A Phosphoribulokinase; transferase, calvin cycle; 2.50A {Rhodobacter sphaeroides} SCOP: c.37.1.6

Probab=93.73  E-value=0.016  Score=52.99  Aligned_cols=25  Identities=24%  Similarity=0.282  Sum_probs=18.4

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          101 PIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ...+|+|.|..|+||||+|+.+.+.
T Consensus         4 ~~~iIgItG~sGSGKSTva~~L~~~   28 (290)
T 1a7j_A            4 KHPIISVTGSSGAGTSTVKHTFDQI   28 (290)
T ss_dssp             TSCEEEEESCC---CCTHHHHHHHH
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHH
Confidence            3568999999999999999887664

>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding, nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A {Thermococcus onnurineus}

Probab=93.72  E-value=0.043  Score=55.59  Aligned_cols=44  Identities=16%  Similarity=0.237  Sum_probs=35.7

Q ss_pred             CceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234           75 SEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      ..++|.+..++.+...+...        ..+.|+|++|+||||||+.++...
T Consensus        41 ~~i~G~~~~l~~l~~~i~~g--------~~vll~Gp~GtGKTtlar~ia~~l   84 (604)
T 3k1j_A           41 DQVIGQEHAVEVIKTAANQK--------RHVLLIGEPGTGKSMLGQAMAELL   84 (604)
T ss_dssp             HHCCSCHHHHHHHHHHHHTT--------CCEEEECCTTSSHHHHHHHHHHTS
T ss_pred             ceEECchhhHhhccccccCC--------CEEEEEeCCCCCHHHHHHHHhccC
Confidence            46889888888877777642        378999999999999999997754

>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding, nucleotide-binding, nucleotidyltransferase, tRNA processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A 3crr_A

Probab=93.71  E-value=0.034  Score=51.42  Aligned_cols=25  Identities=24%  Similarity=0.199  Sum_probs=21.8

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      .++|.|+|+.|+||||||..+++..
T Consensus         5 ~~~i~i~GptGsGKTtla~~La~~l   29 (323)
T 3crm_A            5 PPAIFLMGPTAAGKTDLAMALADAL   29 (323)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHc
Confidence            3589999999999999999887754

>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=93.67  E-value=0.039  Score=46.70  Aligned_cols=24  Identities=21%  Similarity=0.389  Sum_probs=20.7

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      .-.|+|+|.+|+|||||.+.+...
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            457899999999999999987654

>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=93.67  E-value=0.046  Score=44.87  Aligned_cols=23  Identities=22%  Similarity=0.352  Sum_probs=20.5

Q ss_pred             EEEEEeeeCCCcHHHHHHHHhcC
Q 038234          103 KMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       103 ~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ..|+|+|.+|+|||||...+...
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            46899999999999999998764

>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=93.67  E-value=0.034  Score=49.11  Aligned_cols=25  Identities=24%  Similarity=0.375  Sum_probs=21.8

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      ..+++|+|..|.|||||.+.+..-.
T Consensus        31 Ge~~~i~G~nGsGKSTLl~~l~Gl~   55 (237)
T 2cbz_A           31 GALVAVVGQVGCGKSSLLSALLAEM   55 (237)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTCS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCC
Confidence            4589999999999999999887654

>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=93.66  E-value=0.068  Score=52.28  Aligned_cols=26  Identities=31%  Similarity=0.390  Sum_probs=22.1

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ....+++|+|..|+|||||++.+...
T Consensus       291 ~~GeVI~LVGpNGSGKTTLl~~LAgl  316 (503)
T 2yhs_A          291 KAPFVILMVGVNGVGKTTTIGKLARQ  316 (503)
T ss_dssp             CTTEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             cCCeEEEEECCCcccHHHHHHHHHHH
Confidence            45779999999999999999887643

>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=93.65  E-value=0.032  Score=46.77  Aligned_cols=22  Identities=41%  Similarity=0.472  Sum_probs=19.8

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcC
Q 038234          104 MISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      -|+|+|.+|+|||||...+...
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            4789999999999999998875

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=93.63  E-value=0.036  Score=48.21  Aligned_cols=23  Identities=22%  Similarity=0.236  Sum_probs=20.3

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhc
Q 038234          102 IKMISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      ..+++|+|.+|+|||||+..++.
T Consensus        23 G~~~~i~G~~GsGKTtl~~~l~~   45 (235)
T 2w0m_A           23 GFFIALTGEPGTGKTIFSLHFIA   45 (235)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHH
Confidence            46899999999999999988763

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=93.62  E-value=0.044  Score=44.40  Aligned_cols=24  Identities=25%  Similarity=0.397  Sum_probs=20.6

Q ss_pred             EEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          103 KMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       103 ~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      ..|.|+|.+|+|||||...+....
T Consensus         2 ~ki~v~G~~~~GKSsli~~l~~~~   25 (161)
T 2dyk_A            2 HKVVIVGRPNVGKSSLFNRLLKKR   25 (161)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHCC
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC
Confidence            468999999999999999887654

>3e1s_A Exodeoxyribonuclease V, subunit RECD; alpha and beta protein, ATP-binding, nucleotide-binding, HYD; 2.20A {Deinococcus radiodurans} PDB: 3gp8_A 3gpl_A*

Probab=93.59  E-value=0.05  Score=54.67  Aligned_cols=22  Identities=23%  Similarity=0.434  Sum_probs=19.2

Q ss_pred             EEEEEeeeCCCcHHHHHHHHhc
Q 038234          103 KMISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus       103 ~vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      +++.|.|.+|+||||++..+..
T Consensus       205 ~~~~I~G~pGTGKTt~i~~l~~  226 (574)
T 3e1s_A          205 RLVVLTGGPGTGKSTTTKAVAD  226 (574)
T ss_dssp             SEEEEECCTTSCHHHHHHHHHH
T ss_pred             CEEEEEcCCCCCHHHHHHHHHH
Confidence            4788999999999999987765

>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=93.59  E-value=0.039  Score=48.42  Aligned_cols=27  Identities=22%  Similarity=0.041  Sum_probs=22.5

Q ss_pred             CCCcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234           99 QKPIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus        99 ~~~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ..+..+|+|.|..|+|||||++.+...
T Consensus        17 ~~~g~~i~i~G~~GsGKSTl~~~L~~~   43 (230)
T 2vp4_A           17 GTQPFTVLIEGNIGSGKTTYLNHFEKY   43 (230)
T ss_dssp             TCCCEEEEEECSTTSCHHHHHHTTGGG
T ss_pred             CCCceEEEEECCCCCCHHHHHHHHHhc
Confidence            345679999999999999999887543

>1q3t_A Cytidylate kinase; nucleotide monophosphate kinase, CMP kinase, transferase; NMR {Streptococcus pneumoniae} SCOP: c.37.1.1

Probab=93.58  E-value=0.036  Score=48.79  Aligned_cols=27  Identities=30%  Similarity=0.329  Sum_probs=22.5

Q ss_pred             CCCcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234           99 QKPIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus        99 ~~~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      .....+|+|.|+.|+||||+++.+...
T Consensus        13 ~~~~~~i~i~G~~gsGKst~~~~l~~~   39 (236)
T 1q3t_A           13 KMKTIQIAIDGPASSGKSTVAKIIAKD   39 (236)
T ss_dssp             -CCCCEEEEECSSCSSHHHHHHHHHHH
T ss_pred             ccCCcEEEEECCCCCCHHHHHHHHHHH
Confidence            345668999999999999999988763

>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=93.58  E-value=0.042  Score=48.69  Aligned_cols=25  Identities=28%  Similarity=0.351  Sum_probs=21.7

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          101 PIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ...+++|+|..|.|||||.+.++.-
T Consensus        27 ~Ge~~~i~G~nGsGKSTLl~~l~Gl   51 (243)
T 1mv5_A           27 PNSIIAFAGPSGGGKSTIFSLLERF   51 (243)
T ss_dssp             TTEEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcC
Confidence            3568999999999999999988654

>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=93.58  E-value=0.041  Score=46.97  Aligned_cols=24  Identities=25%  Similarity=0.170  Sum_probs=20.6

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      .+.|.|.|.+|+||||||..+...
T Consensus        34 g~~ilI~GpsGsGKStLA~~La~~   57 (205)
T 2qmh_A           34 GLGVLITGDSGVGKSETALELVQR   57 (205)
T ss_dssp             TEEEEEECCCTTTTHHHHHHHHTT
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHh
Confidence            457899999999999999887655

>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=93.56  E-value=0.045  Score=50.20  Aligned_cols=27  Identities=26%  Similarity=0.117  Sum_probs=22.7

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      ...++|.|+|+.|+||||||..+++..
T Consensus         8 ~~~~~i~i~GptgsGKt~la~~La~~~   34 (316)
T 3foz_A            8 SLPKAIFLMGPTASGKTALAIELRKIL   34 (316)
T ss_dssp             CCCEEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             CCCcEEEEECCCccCHHHHHHHHHHhC
Confidence            345789999999999999999887654

>3gmt_A Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucleotide biosynthesis, nucleotide-BIND transferase, structural genomics; 2.10A {Burkholderia pseudomallei 1710B}

Probab=93.56  E-value=0.11  Score=45.50  Aligned_cols=26  Identities=23%  Similarity=0.199  Sum_probs=21.0

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          101 PIKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      ....++|.|++|+||||+|+.+.+..
T Consensus         7 ~~~~~~~~G~pGsGKsT~a~~L~~~~   32 (230)
T 3gmt_A            7 HHMRLILLGAPGAGKGTQANFIKEKF   32 (230)
T ss_dssp             --CEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             cccceeeECCCCCCHHHHHHHHHHHh
Confidence            35578999999999999999887654

>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=93.56  E-value=0.038  Score=48.53  Aligned_cols=24  Identities=13%  Similarity=0.081  Sum_probs=20.8

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHhc
Q 038234          101 PIKMISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      ...++.|+|.+|+|||||+..++.
T Consensus        23 ~G~~~~i~G~~GsGKTtl~~~l~~   46 (243)
T 1n0w_A           23 TGSITEMFGEFRTGKTQICHTLAV   46 (243)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHH
Confidence            356899999999999999988764

>1b0u_A Histidine permease; ABC transporter, transport protein; HET: ATP; 1.50A {Salmonella typhimurium} SCOP: c.37.1.12

Probab=93.54  E-value=0.037  Score=49.69  Aligned_cols=24  Identities=33%  Similarity=0.333  Sum_probs=20.9

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ..+++|+|+.|+|||||.+.+..-
T Consensus        32 Ge~~~liG~nGsGKSTLlk~l~Gl   55 (262)
T 1b0u_A           32 GDVISIIGSSGSGKSTFLRCINFL   55 (262)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcC
Confidence            558999999999999999987654

>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=93.49  E-value=0.041  Score=50.20  Aligned_cols=24  Identities=21%  Similarity=0.231  Sum_probs=20.4

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHhc
Q 038234          101 PIKMISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      ...+++|.|.+|+|||||+..++.
T Consensus        34 ~G~~~~i~G~~G~GKTTl~~~ia~   57 (296)
T 1cr0_A           34 GGEVIMVTSGSGMGKSTFVRQQAL   57 (296)
T ss_dssp             TTCEEEEEESTTSSHHHHHHHHHH
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHH
Confidence            356899999999999999987654

>1cp2_A CP2, nitrogenase iron protein; oxidoreductase; 1.93A {Clostridium pasteurianum} SCOP: c.37.1.10

Probab=93.40  E-value=0.047  Score=48.93  Aligned_cols=21  Identities=43%  Similarity=0.610  Sum_probs=17.8

Q ss_pred             EEEEEeeeCCCcHHHHHHHHh
Q 038234          103 KMISIVGMGGIGKITLAQMAY  123 (406)
Q Consensus       103 ~vi~I~G~gGiGKTtLA~~v~  123 (406)
                      ++|+|.|-||+||||+|..+.
T Consensus         2 ~vI~vs~KGGvGKTT~a~nLA   22 (269)
T 1cp2_A            2 RQVAIYGKGGIGKSTTTQNLT   22 (269)
T ss_dssp             EEEEEEECTTSSHHHHHHHHH
T ss_pred             cEEEEecCCCCcHHHHHHHHH
Confidence            578889999999999986654

>4a1f_A DNAB helicase, replicative DNA helicase; hydrolase, DNA replication, ATPase; HET: FLC; 2.50A {Helicobacter pylori}

Probab=93.37  E-value=0.14  Score=47.72  Aligned_cols=25  Identities=16%  Similarity=0.088  Sum_probs=20.9

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          101 PIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      +..++.|.|.+|+||||||..++..
T Consensus        45 ~G~LiiIaG~pG~GKTt~al~ia~~   69 (338)
T 4a1f_A           45 KGSLVIIGARPSMGKTSLMMNMVLS   69 (338)
T ss_dssp             TTCEEEEEECTTSCHHHHHHHHHHH
T ss_pred             CCcEEEEEeCCCCCHHHHHHHHHHH
Confidence            3568999999999999999877653

>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=93.35  E-value=0.042  Score=49.38  Aligned_cols=25  Identities=20%  Similarity=0.239  Sum_probs=21.3

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          101 PIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ...+++|+|+.|.|||||.+.+..-
T Consensus        49 ~Gei~~liG~NGsGKSTLlk~l~Gl   73 (263)
T 2olj_A           49 EGEVVVVIGPSGSGKSTFLRCLNLL   73 (263)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CCCEEEEEcCCCCcHHHHHHHHHcC
Confidence            3558999999999999999987654

>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM: PF02562, ST genomics, PSI-2, protein structure initiative; 2.35A {Corynebacterium glutamicum atcc 13032}

Probab=93.35  E-value=0.033  Score=48.19  Aligned_cols=22  Identities=27%  Similarity=0.258  Sum_probs=19.4

Q ss_pred             EEEEEeeeCCCcHHHHHHHHhc
Q 038234          103 KMISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus       103 ~vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      .+++|+|+.|.|||||.+.+..
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            3899999999999999988754

>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=93.32  E-value=0.05  Score=47.76  Aligned_cols=25  Identities=28%  Similarity=0.401  Sum_probs=21.6

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          101 PIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ....|+|.|++|+||||+++.+.+.
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            4678999999999999999887654

>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=93.32  E-value=0.041  Score=49.81  Aligned_cols=24  Identities=33%  Similarity=0.326  Sum_probs=21.0

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ..+++|+|+.|+|||||.+.+..-
T Consensus        34 Ge~~~iiGpnGsGKSTLl~~l~Gl   57 (275)
T 3gfo_A           34 GEVTAILGGNGVGKSTLFQNFNGI   57 (275)
T ss_dssp             TSEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CCEEEEECCCCCCHHHHHHHHHcC
Confidence            458999999999999999988654

>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=93.31  E-value=0.053  Score=52.40  Aligned_cols=25  Identities=32%  Similarity=0.351  Sum_probs=21.2

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          101 PIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      +..+|.|+|.+|+||||++..+...
T Consensus        98 ~~~vI~ivG~~GvGKTTla~~La~~  122 (432)
T 2v3c_C           98 KQNVILLVGIQGSGKTTTAAKLARY  122 (432)
T ss_dssp             SCCCEEEECCSSSSTTHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHH
Confidence            4578999999999999999777654

>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=93.28  E-value=0.052  Score=49.29  Aligned_cols=23  Identities=39%  Similarity=0.540  Sum_probs=19.1

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhc
Q 038234          102 IKMISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      .++|+|.|.||+||||+|..++.
T Consensus         2 MkvIavs~KGGvGKTT~a~nLA~   24 (289)
T 2afh_E            2 MRQCAIYGKGGIGKSTTTQNLVA   24 (289)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHH
T ss_pred             ceEEEEeCCCcCcHHHHHHHHHH
Confidence            46888899999999999876643

>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=93.27  E-value=0.063  Score=44.12  Aligned_cols=25  Identities=24%  Similarity=0.473  Sum_probs=20.9

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      .--|+|+|.+|+|||||...+....
T Consensus         4 ~~ki~i~G~~~vGKSsl~~~l~~~~   28 (175)
T 2nzj_A            4 LYRVVLLGDPGVGKTSLASLFAGKQ   28 (175)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHCC-
T ss_pred             EEEEEEECCCCccHHHHHHHHhcCC
Confidence            4568999999999999999887653

>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=93.25  E-value=0.044  Score=44.38  Aligned_cols=22  Identities=32%  Similarity=0.613  Sum_probs=19.0

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcC
Q 038234          104 MISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      .|.++|.+|+|||||...+...
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            4789999999999999887654

>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=93.24  E-value=0.046  Score=49.42  Aligned_cols=23  Identities=30%  Similarity=0.261  Sum_probs=20.0

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhc
Q 038234          102 IKMISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      ..++.|+|.+|+|||||+..++.
T Consensus        30 G~i~~i~G~~GsGKTtl~~~l~~   52 (279)
T 1nlf_A           30 GTVGALVSPGGAGKSMLALQLAA   52 (279)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHH
Confidence            45899999999999999988753

>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=93.22  E-value=0.047  Score=49.15  Aligned_cols=24  Identities=29%  Similarity=0.331  Sum_probs=21.0

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ..+++|+|+.|.|||||.+.++.-
T Consensus        46 Ge~~~l~G~NGsGKSTLlk~l~Gl   69 (267)
T 2zu0_C           46 GEVHAIMGPNGSGKSTLSATLAGR   69 (267)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHTC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            458999999999999999987653

>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=93.21  E-value=0.044  Score=50.29  Aligned_cols=25  Identities=16%  Similarity=0.235  Sum_probs=21.0

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhc
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      ++..+++|+|+.|.|||||++.+..
T Consensus       124 ~~Ge~vaIvGpsGsGKSTLl~lL~g  148 (305)
T 2v9p_A          124 PKKNCLAFIGPPNTGKSMLCNSLIH  148 (305)
T ss_dssp             TTCSEEEEECSSSSSHHHHHHHHHH
T ss_pred             cCCCEEEEECCCCCcHHHHHHHHhh
Confidence            3456899999999999999987653

>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=93.20  E-value=0.044  Score=49.35  Aligned_cols=24  Identities=33%  Similarity=0.484  Sum_probs=21.1

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ..+++|+|+.|.|||||++.+..-
T Consensus        37 Ge~~~liG~nGsGKSTLl~~l~Gl   60 (266)
T 4g1u_C           37 GEMVAIIGPNGAGKSTLLRLLTGY   60 (266)
T ss_dssp             TCEEEEECCTTSCHHHHHHHHTSS
T ss_pred             CCEEEEECCCCCcHHHHHHHHhcC
Confidence            458999999999999999988654

>2ghi_A Transport protein; multidrug resistance protein, MDR, structural genomics, structural genomics consortium, SGC; 2.20A {Plasmodium yoelii yoelii str}

Probab=93.20  E-value=0.045  Score=49.10  Aligned_cols=24  Identities=33%  Similarity=0.454  Sum_probs=20.9

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ..+++|+|+.|.|||||.+.+..-
T Consensus        46 Ge~~~i~G~nGsGKSTLl~~l~Gl   69 (260)
T 2ghi_A           46 GTTCALVGHTGSGKSTIAKLLYRF   69 (260)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcc
Confidence            458999999999999999988654

>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=93.20  E-value=0.046  Score=48.91  Aligned_cols=24  Identities=21%  Similarity=0.333  Sum_probs=20.9

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ..+++|+|+.|.|||||.+.++.-
T Consensus        41 Gei~~l~G~NGsGKSTLlk~l~Gl   64 (256)
T 1vpl_A           41 GEIFGLIGPNGAGKTTTLRIISTL   64 (256)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CcEEEEECCCCCCHHHHHHHHhcC
Confidence            458999999999999999987654

>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=93.19  E-value=0.051  Score=49.72  Aligned_cols=25  Identities=28%  Similarity=0.232  Sum_probs=21.3

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          101 PIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ...+++|+|.+|+||||++..++..
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            5679999999999999999877543

>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=93.18  E-value=0.056  Score=44.05  Aligned_cols=24  Identities=25%  Similarity=0.404  Sum_probs=20.4

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      .--|.|+|.+|+|||||...+...
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            456789999999999999988654

>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=93.15  E-value=0.045  Score=48.46  Aligned_cols=24  Identities=21%  Similarity=0.338  Sum_probs=20.8

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ..+++|+|+.|.|||||.+.++.-
T Consensus        32 Ge~~~l~G~nGsGKSTLl~~l~Gl   55 (240)
T 1ji0_A           32 GQIVTLIGANGAGKTTTLSAIAGL   55 (240)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            458999999999999999987654

>2ocp_A DGK, deoxyguanosine kinase; protein-nucleotide complex, transferase; HET: DTP; 2.80A {Homo sapiens} SCOP: c.37.1.1

Probab=93.15  E-value=0.054  Score=47.76  Aligned_cols=24  Identities=25%  Similarity=0.329  Sum_probs=20.7

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ...|+|.|..|+||||+++.+.+.
T Consensus         2 ~~~i~~~G~~g~GKtt~~~~l~~~   25 (241)
T 2ocp_A            2 PRRLSIEGNIAVGKSTFVKLLTKT   25 (241)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHH
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHHH
Confidence            468999999999999999887654

>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=93.15  E-value=0.074  Score=50.38  Aligned_cols=25  Identities=24%  Similarity=0.129  Sum_probs=21.7

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhc
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      +...+++|+|++|+|||||++.+..
T Consensus       167 ~~~~~i~l~G~~GsGKSTl~~~l~~  191 (377)
T 1svm_A          167 PKKRYWLFKGPIDSGKTTLAAALLE  191 (377)
T ss_dssp             TTCCEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHh
Confidence            3456999999999999999998874

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=93.15  E-value=0.061  Score=44.96  Aligned_cols=24  Identities=21%  Similarity=0.313  Sum_probs=21.0

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ...|+|+|.+|+|||||...+...
T Consensus         7 ~~~i~lvG~~gvGKStL~~~l~~~   30 (188)
T 2wjg_A            7 SYEIALIGNPNVGKSTIFNALTGE   30 (188)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            457899999999999999988764

>2ixe_A Antigen peptide transporter 1; ABC ATPase, hydrolase; HET: ATP; 2.0A {Rattus norvegicus} PDB: 2ixg_A* 2ixf_A* 1jj7_A*

Probab=93.14  E-value=0.046  Score=49.34  Aligned_cols=25  Identities=36%  Similarity=0.381  Sum_probs=21.5

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      ..+++|+|..|.|||||.+.++.-.
T Consensus        45 Ge~~~i~G~nGsGKSTLlk~l~Gl~   69 (271)
T 2ixe_A           45 GKVTALVGPNGSGKSTVAALLQNLY   69 (271)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCC
Confidence            5589999999999999999886543

>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=93.13  E-value=0.048  Score=48.61  Aligned_cols=24  Identities=29%  Similarity=0.455  Sum_probs=20.8

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ..+++|+|..|.|||||.+.++.-
T Consensus        29 Ge~~~l~G~nGsGKSTLlk~l~Gl   52 (250)
T 2d2e_A           29 GEVHALMGPNGAGKSTLGKILAGD   52 (250)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHTC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            458999999999999999987653

>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=93.13  E-value=0.043  Score=46.67  Aligned_cols=24  Identities=21%  Similarity=0.389  Sum_probs=20.6

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      .-.|+|+|.+|+|||||.+.+...
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            456899999999999999888654

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=93.12  E-value=0.056  Score=48.49  Aligned_cols=101  Identities=16%  Similarity=0.186  Sum_probs=52.7

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCChHHHHHHHH------HHhcCCCCC--CC-----CHHHHHHHHHhhccCcceeEEe
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDKDFRVAKAII------AALGCETSN--LG-----SLQSLVRCISESIEGKKYLVVL  168 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~~~i~------~~l~~~~~~--~~-----~~~~~~~~l~~~l~~kr~LlVl  168 (406)
                      ..+++|+|+.|+|||||.+.+...........+.      ..+......  ..     +...+...+...|..++=+|++
T Consensus        25 g~~v~i~Gp~GsGKSTll~~l~g~~~~~~~G~I~~~g~~i~~~~~~~~~~v~q~~~gl~~~~l~~~la~aL~~~p~illl  104 (261)
T 2eyu_A           25 MGLILVTGPTGSGKSTTIASMIDYINQTKSYHIITIEDPIEYVFKHKKSIVNQREVGEDTKSFADALRAALREDPDVIFV  104 (261)
T ss_dssp             SEEEEEECSTTCSHHHHHHHHHHHHHHHCCCEEEEEESSCCSCCCCSSSEEEEEEBTTTBSCHHHHHHHHHHHCCSEEEE
T ss_pred             CCEEEEECCCCccHHHHHHHHHHhCCCCCCCEEEEcCCcceeecCCcceeeeHHHhCCCHHHHHHHHHHHHhhCCCEEEe
Confidence            5689999999999999998876532210000000      000000000  00     0112344566666667778999


Q ss_pred             eCCCCcCccCcchhhhccCCCCCCcEEEEecCChHHHHH
Q 038234          169 DDVWTDDYTKWEPFQRCSANGQCGNNILVTTHKKTVARM  207 (406)
Q Consensus       169 Ddvw~~~~~~~~~l~~~l~~~~~gs~IivTtR~~~v~~~  207 (406)
                      |...  +......+....   ..|.-|++||.+..+...
T Consensus       105 DEp~--D~~~~~~~l~~~---~~g~~vl~t~H~~~~~~~  138 (261)
T 2eyu_A          105 GEMR--DLETVETALRAA---ETGHLVFGTLHTNTAIDT  138 (261)
T ss_dssp             SCCC--SHHHHHHHHHHH---HTTCEEEEEECCSSHHHH
T ss_pred             CCCC--CHHHHHHHHHHH---ccCCEEEEEeCcchHHHH
Confidence            9884  322222222221   236678888887665443

>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=93.12  E-value=0.045  Score=48.98  Aligned_cols=24  Identities=29%  Similarity=0.288  Sum_probs=20.9

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ..+++|+|+.|.|||||.+.++.-
T Consensus        33 Ge~~~liG~nGsGKSTLlk~l~Gl   56 (257)
T 1g6h_A           33 GDVTLIIGPNGSGKSTLINVITGF   56 (257)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            458999999999999999987654

>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=93.10  E-value=0.041  Score=48.33  Aligned_cols=24  Identities=25%  Similarity=0.497  Sum_probs=20.9

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ..+++|+|+.|.|||||.+.++.-
T Consensus        34 Ge~~~i~G~nGsGKSTLl~~l~Gl   57 (229)
T 2pze_A           34 GQLLAVAGSTGAGKTSLLMMIMGE   57 (229)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            458999999999999999988654

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=93.09  E-value=0.1  Score=51.32  Aligned_cols=24  Identities=29%  Similarity=0.353  Sum_probs=20.0

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHh
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAY  123 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~  123 (406)
                      ...++|+|+|.+|+||||++..+.
T Consensus        99 ~~~~vI~ivG~~GvGKTTl~~kLA  122 (504)
T 2j37_W           99 GKQNVIMFVGLQGSGKTTTCSKLA  122 (504)
T ss_dssp             S--EEEEEECSTTSSHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHH
Confidence            457899999999999999998777

>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=93.04  E-value=0.047  Score=48.53  Aligned_cols=24  Identities=38%  Similarity=0.458  Sum_probs=20.9

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ..+++|+|..|.|||||.+.+..-
T Consensus        35 Ge~~~i~G~nGsGKSTLl~~l~Gl   58 (247)
T 2ff7_A           35 GEVIGIVGRSGSGKSTLTKLIQRF   58 (247)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcC
Confidence            458999999999999999988654

>1u0j_A DNA replication protein; AAA+ protein, P-loop atpases, helicase; HET: DNA ADP; 2.10A {Adeno-associated virus - 2} SCOP: c.37.1.20 PDB: 1s9h_A

Probab=93.02  E-value=0.09  Score=47.11  Aligned_cols=37  Identities=16%  Similarity=0.130  Sum_probs=27.0

Q ss_pred             HHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234           85 NELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus        85 ~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      .-+..+|...    .++...+.++|++|+|||.+|.++++.
T Consensus        91 ~~l~~~l~~~----~~~~n~~~l~GppgtGKt~~a~ala~~  127 (267)
T 1u0j_A           91 SVFLGWATKK----FGKRNTIWLFGPATTGKTNIAEAIAHT  127 (267)
T ss_dssp             HHHHHHHTTC----STTCCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             HHHHHHHhCC----CCCCcEEEEECCCCCCHHHHHHHHHhh
Confidence            3356666542    133457999999999999999988763

>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=93.02  E-value=0.041  Score=47.82  Aligned_cols=24  Identities=29%  Similarity=0.369  Sum_probs=20.6

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ..+++|+|+.|.|||||.+.++.-
T Consensus        35 Ge~~~iiG~NGsGKSTLlk~l~Gl   58 (214)
T 1sgw_A           35 GNVVNFHGPNGIGKTTLLKTISTY   58 (214)
T ss_dssp             TCCEEEECCTTSSHHHHHHHHTTS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcC
Confidence            447899999999999999987654

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=92.98  E-value=0.048  Score=47.91  Aligned_cols=24  Identities=21%  Similarity=0.242  Sum_probs=20.1

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHhc
Q 038234          101 PIKMISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      ...++.|.|.+|+||||||.+++.
T Consensus        22 ~G~~~~i~G~~GsGKTtl~~~~~~   45 (247)
T 2dr3_A           22 ERNVVLLSGGPGTGKTIFSQQFLW   45 (247)
T ss_dssp             TTCEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH
Confidence            355899999999999999977643

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A*

Probab=92.97  E-value=0.064  Score=44.26  Aligned_cols=26  Identities=23%  Similarity=0.291  Sum_probs=21.8

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      .....|+|+|.+|+|||||...+...
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            34567899999999999999888654

>2yz2_A Putative ABC transporter ATP-binding protein TM_0; cobalt transport, TM02 hydrolase, inner membrane, membrane, nucleotide-binding; 2.30A {Thermotoga maritima}

Probab=92.96  E-value=0.051  Score=48.91  Aligned_cols=24  Identities=29%  Similarity=0.288  Sum_probs=21.1

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ..+++|+|..|.|||||.+.++.-
T Consensus        33 Ge~~~liG~nGsGKSTLl~~i~Gl   56 (266)
T 2yz2_A           33 GECLLVAGNTGSGKSTLLQIVAGL   56 (266)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CCEEEEECCCCCcHHHHHHHHhCC
Confidence            458999999999999999988654

>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=92.90  E-value=0.072  Score=44.80  Aligned_cols=26  Identities=23%  Similarity=0.388  Sum_probs=21.8

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          101 PIKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      ....|+|+|.+|+|||||...+....
T Consensus        22 ~~~~i~v~G~~~~GKSsli~~l~~~~   47 (195)
T 1svi_A           22 GLPEIALAGRSNVGKSSFINSLINRK   47 (195)
T ss_dssp             CCCEEEEEEBTTSSHHHHHHHHHTC-
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            35678999999999999999987653

>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=92.89  E-value=0.054  Score=44.14  Aligned_cols=22  Identities=27%  Similarity=0.431  Sum_probs=19.3

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcC
Q 038234          104 MISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      -|+|+|.+|+|||||...+.+.
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            4789999999999999988654

>2aka_B Dynamin-1; fusion protein, GTPase domain, myosin, contractIle protein; 1.90A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 3l43_A*

Probab=92.84  E-value=0.15  Score=46.34  Aligned_cols=42  Identities=17%  Similarity=0.190  Sum_probs=28.9

Q ss_pred             HHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234           84 KNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus        84 ~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ++++.+.|.............|+|+|.+|+|||||...+...
T Consensus         8 ~~~l~~~l~~~~~~~~~~~~~i~vvG~~~~GKSSLln~l~g~   49 (299)
T 2aka_B            8 VNRLQDAFSAIGQNADLDLPQIAVVGGQSAGKSSVLENFVGR   49 (299)
T ss_dssp             HHHHHHHHTTSCCCTTCCCCEEEEEEBTTSCHHHHHHHHHTS
T ss_pred             HHHHHHHHHhcCCCCCCCCCeEEEEeCCCCCHHHHHHHHHCC
Confidence            455555555432211344668999999999999999988754

>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=92.80  E-value=0.074  Score=44.41  Aligned_cols=26  Identities=23%  Similarity=0.322  Sum_probs=22.0

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      .....|+|+|.+|+|||||...+...
T Consensus        14 ~~~~ki~ivG~~~vGKSsL~~~l~~~   39 (181)
T 1fzq_A           14 DQEVRILLLGLDNAGKTTLLKQLASE   39 (181)
T ss_dssp             SSCEEEEEEESTTSSHHHHHHHHCCS
T ss_pred             CCceEEEEECCCCCCHHHHHHHHhcC
Confidence            34567899999999999999988765

>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=92.80  E-value=0.052  Score=45.51  Aligned_cols=23  Identities=30%  Similarity=0.556  Sum_probs=19.8

Q ss_pred             EEEEEeeeCCCcHHHHHHHHhcC
Q 038234          103 KMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       103 ~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      -.|+++|.+|+|||||+..+...
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            46789999999999999888654

>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=92.79  E-value=0.064  Score=51.04  Aligned_cols=24  Identities=33%  Similarity=0.451  Sum_probs=20.9

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ..+|+|.|+.|+||||||..++..
T Consensus         2 ~~~i~i~GptgsGKttla~~La~~   25 (409)
T 3eph_A            2 KKVIVIAGTTGVGKSQLSIQLAQK   25 (409)
T ss_dssp             CEEEEEEECSSSSHHHHHHHHHHH
T ss_pred             CcEEEEECcchhhHHHHHHHHHHH
Confidence            358999999999999999888754

>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=92.78  E-value=0.055  Score=48.15  Aligned_cols=25  Identities=28%  Similarity=0.327  Sum_probs=21.2

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      ..+++|+|+.|.|||||.+.++.-.
T Consensus        26 Ge~~~liG~NGsGKSTLlk~l~Gl~   50 (249)
T 2qi9_C           26 GEILHLVGPNGAGKSTLLARMAGMT   50 (249)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCcHHHHHHHHhCCC
Confidence            4589999999999999999886543

>3vkw_A Replicase large subunit; alpha/beta domain, helicase, transferase; 1.90A {Tomato mosaic virus}

Probab=92.75  E-value=0.25  Score=47.59  Aligned_cols=76  Identities=13%  Similarity=0.104  Sum_probs=43.8

Q ss_pred             CCCcEEEEEeeeCCCcHHHHHHHHhcCChH-------HHHHHHHHHhcCC---CCCCCCHHHHHHHHHhhccCc---cee
Q 038234           99 QKPIKMISIVGMGGIGKITLAQMAYNDKDF-------RVAKAIIAALGCE---TSNLGSLQSLVRCISESIEGK---KYL  165 (406)
Q Consensus        99 ~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~-------~~~~~i~~~l~~~---~~~~~~~~~~~~~l~~~l~~k---r~L  165 (406)
                      ....++..|.|.+|.||||+..+.++....       ....++-..+...   ..........-..+.+....+   -=+
T Consensus       158 ~~~~~v~~I~G~aGsGKTt~I~~~~~~~~~lVlTpT~~aa~~l~~kl~~~~~~~~~~~~V~T~dsfL~~~~~~~~~~~d~  237 (446)
T 3vkw_A          158 VSSAKVVLVDGVPGCGKTKEILSRVNFEEDLILVPGRQAAEMIRRRANASGIIVATKDNVRTVDSFLMNYGKGARCQFKR  237 (446)
T ss_dssp             CCCSEEEEEEECTTSCHHHHHHHHCCTTTCEEEESCHHHHHHHHHHHTTTSCCCCCTTTEEEHHHHHHTTTSSCCCCCSE
T ss_pred             cccccEEEEEcCCCCCHHHHHHHHhccCCeEEEeCCHHHHHHHHHHhhhcCccccccceEEEeHHhhcCCCCCCCCcCCE
Confidence            466889999999999999999988764221       4445555555422   111122222222333322211   348


Q ss_pred             EEeeCCCCc
Q 038234          166 VVLDDVWTD  174 (406)
Q Consensus       166 lVlDdvw~~  174 (406)
                      ||+|++.-.
T Consensus       238 liiDE~sm~  246 (446)
T 3vkw_A          238 LFIDEGLML  246 (446)
T ss_dssp             EEEETGGGS
T ss_pred             EEEeCcccC
Confidence            999998433

>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative iron chelatin ABC transporter, nucleotide binding domain; 2.40A {Haemophilus influenzae}

Probab=92.74  E-value=0.057  Score=48.19  Aligned_cols=24  Identities=25%  Similarity=0.434  Sum_probs=20.9

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ..+++|+|+.|.|||||.+.++.-
T Consensus        31 Ge~~~l~G~nGsGKSTLl~~l~Gl   54 (253)
T 2nq2_C           31 GDILAVLGQNGCGKSTLLDLLLGI   54 (253)
T ss_dssp             TCEEEEECCSSSSHHHHHHHHTTS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            458999999999999999988654

>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=92.73  E-value=0.062  Score=43.91  Aligned_cols=23  Identities=35%  Similarity=0.339  Sum_probs=19.8

Q ss_pred             EEEEEeeeCCCcHHHHHHHHhcC
Q 038234          103 KMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       103 ~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      --|+|+|.+|+|||||...+...
T Consensus         3 ~ki~ivG~~~~GKSsli~~l~~~   25 (169)
T 3q85_A            3 FKVMLVGESGVGKSTLAGTFGGL   25 (169)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHCC
T ss_pred             EEEEEECCCCCCHHHHHHHHHhc
Confidence            35789999999999999988654

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=92.67  E-value=0.065  Score=43.78  Aligned_cols=23  Identities=26%  Similarity=0.488  Sum_probs=19.8

Q ss_pred             EEEEEeeeCCCcHHHHHHHHhcC
Q 038234          103 KMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       103 ~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      --|+|+|.+|+|||||...+...
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            35789999999999999888764

>2ihy_A ABC transporter, ATP-binding protein; ATPase, ABC cassette, hydrolase; HET: MSE; 1.90A {Staphylococcus aureus}

Probab=92.67  E-value=0.057  Score=48.93  Aligned_cols=24  Identities=25%  Similarity=0.284  Sum_probs=21.0

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ..+++|+|+.|.|||||.+.++.-
T Consensus        47 Ge~~~liG~NGsGKSTLlk~l~Gl   70 (279)
T 2ihy_A           47 GDKWILYGLNGAGKTTLLNILNAY   70 (279)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CCEEEEECCCCCcHHHHHHHHhCC
Confidence            458999999999999999988654

>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=92.65  E-value=0.08  Score=43.84  Aligned_cols=23  Identities=22%  Similarity=0.224  Sum_probs=20.2

Q ss_pred             EEEEEeeeCCCcHHHHHHHHhcC
Q 038234          103 KMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       103 ~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ..|+|+|.+|+|||||...+...
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            46889999999999999988764

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=92.64  E-value=0.085  Score=44.17  Aligned_cols=26  Identities=27%  Similarity=0.422  Sum_probs=21.5

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          101 PIKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      ....|+|+|.+|+|||||...+....
T Consensus        22 ~~~~i~v~G~~~~GKSsli~~l~~~~   47 (195)
T 3pqc_A           22 LKGEVAFVGRSNVGKSSLLNALFNRK   47 (195)
T ss_dssp             TTCEEEEEEBTTSSHHHHHHHHHTSC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHcCc
Confidence            34578899999999999998887653

>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=92.63  E-value=0.07  Score=44.54  Aligned_cols=22  Identities=27%  Similarity=0.299  Sum_probs=19.4

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcC
Q 038234          104 MISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      -|+|+|.+|+|||||...+...
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            4789999999999999888765

>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=92.60  E-value=0.041  Score=49.29  Aligned_cols=27  Identities=33%  Similarity=0.240  Sum_probs=22.3

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      .+...|+|.|..|+||||+|+.+.+..
T Consensus        22 ~~~~~I~ieG~~GsGKST~~~~L~~~l   48 (263)
T 1p5z_B           22 TRIKKISIEGNIAAGKSTFVNILKQLC   48 (263)
T ss_dssp             -CCEEEEEECSTTSSHHHHHTTTGGGC
T ss_pred             cCceEEEEECCCCCCHHHHHHHHHHhc
Confidence            346799999999999999998876654

>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=92.56  E-value=0.086  Score=43.49  Aligned_cols=26  Identities=27%  Similarity=0.442  Sum_probs=21.8

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      .....|+|+|.+|+|||||...+...
T Consensus         7 ~~~~~i~v~G~~~~GKssli~~l~~~   32 (181)
T 2fn4_A            7 SETHKLVVVGGGGVGKSALTIQFIQS   32 (181)
T ss_dssp             SCEEEEEEEECTTSSHHHHHHHHHHS
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHhC
Confidence            34567899999999999999887655

>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=92.55  E-value=0.088  Score=42.69  Aligned_cols=24  Identities=33%  Similarity=0.585  Sum_probs=20.2

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ..-|+|+|.+|+|||||...+...
T Consensus         4 ~~~i~v~G~~~~GKssl~~~l~~~   27 (168)
T 1u8z_A            4 LHKVIMVGSGGVGKSALTLQFMYD   27 (168)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECCCCCCHHHHHHHHHhC
Confidence            346889999999999999887654

>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=92.54  E-value=0.063  Score=43.88  Aligned_cols=24  Identities=21%  Similarity=0.340  Sum_probs=20.4

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      .-.|+|+|.+|+|||||...+...
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            456899999999999999887654

>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=92.52  E-value=0.062  Score=43.70  Aligned_cols=22  Identities=27%  Similarity=0.530  Sum_probs=19.0

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcC
Q 038234          104 MISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      -|+|+|.+|+|||||...+.+.
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            5789999999999999887653

>3sop_A Neuronal-specific septin-3; hydrolase; HET: GDP; 2.88A {Homo sapiens}

Probab=92.52  E-value=0.069  Score=48.13  Aligned_cols=23  Identities=35%  Similarity=0.634  Sum_probs=19.9

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcCC
Q 038234          104 MISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      .++|+|..|+|||||.+.++...
T Consensus         4 ~v~lvG~nGaGKSTLln~L~g~~   26 (270)
T 3sop_A            4 NIMVVGQSGLGKSTLVNTLFKSQ   26 (270)
T ss_dssp             EEEEEESSSSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            57999999999999999887643

>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=92.50  E-value=0.093  Score=44.56  Aligned_cols=24  Identities=29%  Similarity=0.476  Sum_probs=20.6

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ...|+|+|.+|+|||||...+...
T Consensus        25 ~~ki~lvG~~~vGKSsLi~~l~~~   48 (198)
T 1f6b_A           25 TGKLVFLGLDNAGKTTLLHMLKDD   48 (198)
T ss_dssp             CEEEEEEEETTSSHHHHHHHHSCC
T ss_pred             CcEEEEECCCCCCHHHHHHHHhcC
Confidence            345789999999999999998765

>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=92.50  E-value=0.07  Score=45.89  Aligned_cols=27  Identities=26%  Similarity=0.245  Sum_probs=22.2

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      .....|.|+|.+|+|||||...+....
T Consensus        10 ~~~~~i~~~G~~g~GKTsl~~~l~~~~   36 (218)
T 1nrj_B           10 SYQPSIIIAGPQNSGKTSLLTLLTTDS   36 (218)
T ss_dssp             CCCCEEEEECSTTSSHHHHHHHHHHSS
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            345678999999999999998887653

>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=92.48  E-value=0.069  Score=49.38  Aligned_cols=25  Identities=36%  Similarity=0.573  Sum_probs=21.6

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          101 PIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ...+++|+|+.|.|||||.+.+...
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            3789999999999999999887643

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A*

Probab=92.46  E-value=0.098  Score=43.08  Aligned_cols=25  Identities=24%  Similarity=0.319  Sum_probs=21.1

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          101 PIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ..--|+|+|.+|+|||||...+...
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            3456899999999999999888765

>3ch4_B Pmkase, phosphomevalonate kinase; parallel beta-sheet with the strand order 23145, walker A motif, cholesterol biosynthesis, lipid synthesis; 1.76A {Homo sapiens}

Probab=92.46  E-value=0.092  Score=44.94  Aligned_cols=26  Identities=15%  Similarity=0.137  Sum_probs=22.2

Q ss_pred             CCCcEEEEEeeeCCCcHHHHHHHHhc
Q 038234           99 QKPIKMISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus        99 ~~~~~vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      +.+..+|+|+|++|+||+++|..+.+
T Consensus         8 ~~~~~II~itGk~~SGKd~va~~l~~   33 (202)
T 3ch4_B            8 GAPRLVLLFSGKRKSGKDFVTEALQS   33 (202)
T ss_dssp             CCCSEEEEEEECTTSSHHHHHHHHHH
T ss_pred             cCCCEEEEEECCCCCChHHHHHHHHH
Confidence            34678999999999999999987655

>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=92.44  E-value=0.067  Score=50.17  Aligned_cols=25  Identities=24%  Similarity=0.256  Sum_probs=21.6

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhc
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      +...++.|+|.+|+|||||+..++.
T Consensus       129 ~~G~i~~I~G~~GsGKTTL~~~l~~  153 (349)
T 1pzn_A          129 ETQAITEVFGEFGSGKTQLAHTLAV  153 (349)
T ss_dssp             ESSEEEEEEESTTSSHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHH
Confidence            4578999999999999999988753

>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=92.44  E-value=0.067  Score=43.64  Aligned_cols=24  Identities=21%  Similarity=0.324  Sum_probs=20.2

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      .--|+|+|.+|+|||||...+...
T Consensus         6 ~~~i~v~G~~~~GKSsli~~l~~~   29 (170)
T 1z0j_A            6 ELKVCLLGDTGVGKSSIMWRFVED   29 (170)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECcCCCCHHHHHHHHHcC
Confidence            346899999999999999887654

>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=92.43  E-value=0.13  Score=48.10  Aligned_cols=24  Identities=21%  Similarity=0.225  Sum_probs=21.2

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHh
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAY  123 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~  123 (406)
                      ....+|+|+|.+|+|||||+..+.
T Consensus        54 ~~~~~i~i~G~~g~GKSTl~~~l~   77 (341)
T 2p67_A           54 GNTLRLGVTGTPGAGKSTFLEAFG   77 (341)
T ss_dssp             SCSEEEEEEECTTSCHHHHHHHHH
T ss_pred             CCCEEEEEEcCCCCCHHHHHHHHH
Confidence            457899999999999999998875

>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=92.43  E-value=0.065  Score=43.48  Aligned_cols=23  Identities=26%  Similarity=0.478  Sum_probs=19.4

Q ss_pred             EEEEEeeeCCCcHHHHHHHHhcC
Q 038234          103 KMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       103 ~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      --|+|+|.+|+|||||...+...
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            35899999999999999877653

>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=92.39  E-value=0.056  Score=49.69  Aligned_cols=26  Identities=27%  Similarity=0.494  Sum_probs=22.3

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          101 PIKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      +..+++|+|..|.|||||++.+..-.
T Consensus        79 ~Ge~vaivG~sGsGKSTLl~ll~gl~  104 (306)
T 3nh6_A           79 PGQTLALVGPSGAGKSTILRLLFRFY  104 (306)
T ss_dssp             TTCEEEEESSSCHHHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCchHHHHHHHHHcCC
Confidence            35689999999999999999987654

>3qf4_A ABC transporter, ATP-binding protein; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=92.39  E-value=0.075  Score=53.59  Aligned_cols=26  Identities=27%  Similarity=0.399  Sum_probs=22.2

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          101 PIKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      +..+++|+|+.|.|||||++.+..-.
T Consensus       368 ~Ge~~~ivG~sGsGKSTll~~l~g~~  393 (587)
T 3qf4_A          368 PGSLVAVLGETGSGKSTLMNLIPRLI  393 (587)
T ss_dssp             TTCEEEEECSSSSSHHHHHHTTTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCc
Confidence            35689999999999999999887654

>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=92.37  E-value=0.065  Score=43.66  Aligned_cols=22  Identities=14%  Similarity=0.342  Sum_probs=19.0

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcC
Q 038234          104 MISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      -|.++|.+|+|||||...+...
T Consensus         5 ~i~v~G~~~~GKssli~~l~~~   26 (170)
T 1ek0_A            5 KLVLLGEAAVGKSSIVLRFVSN   26 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            4789999999999999887654

>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=92.34  E-value=0.08  Score=44.23  Aligned_cols=20  Identities=30%  Similarity=0.531  Sum_probs=18.2

Q ss_pred             EEEEeeeCCCcHHHHHHHHh
Q 038234          104 MISIVGMGGIGKITLAQMAY  123 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~  123 (406)
                      +.+|+|..|.|||||+.+++
T Consensus        28 ~~~i~G~NGsGKStll~ai~   47 (182)
T 3kta_A           28 FTAIVGANGSGKSNIGDAIL   47 (182)
T ss_dssp             EEEEEECTTSSHHHHHHHHH
T ss_pred             cEEEECCCCCCHHHHHHHHH
Confidence            78999999999999998864

>3f9v_A Minichromosome maintenance protein MCM; replicative helicase, DNA replication, MCM complex, AAA+ Pro ATP-binding, DNA-binding, helicase; 4.35A {Sulfolobus solfataricus}

Probab=92.34  E-value=0.043  Score=55.42  Aligned_cols=52  Identities=21%  Similarity=0.180  Sum_probs=32.8

Q ss_pred             CceecchhhHHHHHHHHhcCCCC--CC---CCcEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234           75 SEICGRDYKKNELLSKLLSDSSD--QQ---KPIKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~--~~---~~~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      +.++|.+..+..+.-.|......  .+   ....-|.++|.+|+|||+||+.+++..
T Consensus       295 ~~I~G~e~vk~al~~~l~~g~~~~~~~~~~r~~~~vLL~GppGtGKT~LAr~la~~~  351 (595)
T 3f9v_A          295 PSIYGHWELKEALALALFGGVPKVLEDTRIRGDIHILIIGDPGTAKSQMLQFISRVA  351 (595)
T ss_dssp             STTSCCHHHHHHHTTTTTCCCCEETTTTEECCSCCEEEEESSCCTHHHHHHSSSTTC
T ss_pred             chhcChHHHHHHHHHHHhCCCcccccCCCcCCCcceEEECCCchHHHHHHHHHHHhC
Confidence            56788877655554444322100  00   001147899999999999999998764

>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=92.33  E-value=0.087  Score=43.96  Aligned_cols=25  Identities=28%  Similarity=0.264  Sum_probs=20.8

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          101 PIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ..--|+|+|.+|+|||||...+...
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            3456789999999999999887654

>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=92.31  E-value=0.11  Score=47.55  Aligned_cols=32  Identities=22%  Similarity=0.246  Sum_probs=25.9

Q ss_pred             hHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHh
Q 038234           83 KKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAY  123 (406)
Q Consensus        83 ~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~  123 (406)
                      .+++|.+.+.         -.+++++|..|+|||||.+.+.
T Consensus       155 gi~~L~~~l~---------G~i~~l~G~sG~GKSTLln~l~  186 (302)
T 2yv5_A          155 GIDELVDYLE---------GFICILAGPSGVGKSSILSRLT  186 (302)
T ss_dssp             THHHHHHHTT---------TCEEEEECSTTSSHHHHHHHHH
T ss_pred             CHHHHHhhcc---------CcEEEEECCCCCCHHHHHHHHH
Confidence            4677777664         2378999999999999999886

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens}

Probab=92.30  E-value=0.068  Score=44.13  Aligned_cols=27  Identities=22%  Similarity=0.347  Sum_probs=22.2

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      +..--|+|+|.+|+|||||...+....
T Consensus         7 ~~~~~i~v~G~~~~GKssl~~~l~~~~   33 (181)
T 3tw8_B            7 DHLFKLLIIGDSGVGKSSLLLRFADNT   33 (181)
T ss_dssp             CEEEEEEEECCTTSCHHHHHHHHCSCC
T ss_pred             CcceEEEEECCCCCCHHHHHHHHhcCC
Confidence            345578999999999999999887653

>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=92.29  E-value=0.089  Score=43.43  Aligned_cols=26  Identities=38%  Similarity=0.543  Sum_probs=21.1

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      .....|+|+|.+|+|||||...+...
T Consensus         6 ~~~~~i~v~G~~~~GKSsli~~l~~~   31 (182)
T 1ky3_A            6 KNILKVIILGDSGVGKTSLMHRYVND   31 (182)
T ss_dssp             -CEEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             CceEEEEEECCCCCCHHHHHHHHHhC
Confidence            34567899999999999999887654

>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=92.28  E-value=0.068  Score=44.82  Aligned_cols=24  Identities=25%  Similarity=0.195  Sum_probs=19.9

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      .--|+|+|.+|+|||||...+...
T Consensus        20 ~~ki~ivG~~~vGKSsL~~~~~~~   43 (184)
T 3ihw_A           20 ELKVGIVGNLSSGKSALVHRYLTG   43 (184)
T ss_dssp             EEEEEEECCTTSCHHHHHHHHHHS
T ss_pred             eeEEEEECCCCCCHHHHHHHHhcC
Confidence            456899999999999999776544

>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=92.27  E-value=0.071  Score=44.76  Aligned_cols=24  Identities=29%  Similarity=0.206  Sum_probs=19.7

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      .--|.|+|.+|+|||||.+.+.+.
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            456899999999999999766544

>4bas_A ADP-ribosylation factor, putative (small GTPase, putative); hydrolase; HET: GNP; 2.00A {Trypanosoma brucei TREU927}

Probab=92.27  E-value=0.089  Score=44.30  Aligned_cols=28  Identities=18%  Similarity=0.272  Sum_probs=22.8

Q ss_pred             CCCcEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234           99 QKPIKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus        99 ~~~~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      ......|+|+|.+|+|||||...+....
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            3456789999999999999999987764

>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=92.23  E-value=0.076  Score=48.41  Aligned_cols=26  Identities=23%  Similarity=0.420  Sum_probs=22.1

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          101 PIKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      ...+++|+|..|.|||||.+.+..-.
T Consensus        63 ~Ge~~~i~G~NGsGKSTLlk~l~Gl~   88 (290)
T 2bbs_A           63 RGQLLAVAGSTGAGKTSLLMMIMGEL   88 (290)
T ss_dssp             TTCEEEEEESTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhcCC
Confidence            35589999999999999999887653

>1zj6_A ADP-ribosylation factor-like protein 5; ARL, GTP-binding, transport protein; HET: G3D; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=92.20  E-value=0.19  Score=41.93  Aligned_cols=24  Identities=25%  Similarity=0.289  Sum_probs=21.0

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      .-.|+|+|.+|+|||||...+...
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            567899999999999999988754

>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=92.20  E-value=0.086  Score=44.61  Aligned_cols=25  Identities=16%  Similarity=0.377  Sum_probs=20.7

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      .--|.|+|.+|+|||||...+.+..
T Consensus        20 ~~ki~~vG~~~vGKTsLi~~l~~~~   44 (196)
T 3llu_A           20 KPRILLMGLRRSGKSSIQKVVFHKM   44 (196)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHHSCC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhcC
Confidence            4468999999999999998776653

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=92.18  E-value=0.14  Score=47.77  Aligned_cols=25  Identities=24%  Similarity=0.288  Sum_probs=21.7

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhc
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      ....+++|+|.+|+|||||...+..
T Consensus        53 ~~g~~v~i~G~~GaGKSTLl~~l~g   77 (337)
T 2qm8_A           53 GRAIRVGITGVPGVGKSTTIDALGS   77 (337)
T ss_dssp             CCSEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHH
Confidence            4477999999999999999988763

>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=92.18  E-value=0.079  Score=52.56  Aligned_cols=26  Identities=19%  Similarity=0.231  Sum_probs=22.1

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          101 PIKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      ...+|.++|++|.||||+|+.+.+..
T Consensus        34 ~~~lIvlvGlpGSGKSTia~~La~~L   59 (520)
T 2axn_A           34 SPTVIVMVGLPARGKTYISKKLTRYL   59 (520)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            35689999999999999999986543

>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=92.16  E-value=0.075  Score=43.77  Aligned_cols=25  Identities=24%  Similarity=0.474  Sum_probs=20.8

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          101 PIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ..--|+|+|.+|+|||||...+...
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            3456899999999999999887654

>1moz_A ARL1, ADP-ribosylation factor-like protein 1; GTP-binding, protein binding; HET: GDP; 3.17A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=92.15  E-value=0.1  Score=43.21  Aligned_cols=25  Identities=28%  Similarity=0.271  Sum_probs=21.1

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          101 PIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ....|+|+|.+|+|||||...+...
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            3567899999999999999887654

>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=92.13  E-value=0.076  Score=44.58  Aligned_cols=24  Identities=25%  Similarity=0.304  Sum_probs=20.2

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      .--|.|+|.+|+|||||...+...
T Consensus        21 ~~ki~vvG~~~vGKTsLi~~l~~~   44 (187)
T 3c5c_A           21 EVNLAILGRRGAGKSALTVKFLTK   44 (187)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECCCCCcHHHHHHHHHhC
Confidence            456899999999999999887654

>2pjz_A Hypothetical protein ST1066; ATP binding protein, structural genomics, NPPSFA; 1.90A {Sulfolobus tokodaii}

Probab=92.12  E-value=0.075  Score=47.71  Aligned_cols=23  Identities=30%  Similarity=0.361  Sum_probs=19.9

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhc
Q 038234          102 IKMISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      ..+++|+|+.|.|||||.+.++.
T Consensus        30 Ge~~~i~G~NGsGKSTLlk~l~G   52 (263)
T 2pjz_A           30 GEKVIILGPNGSGKTTLLRAISG   52 (263)
T ss_dssp             SSEEEEECCTTSSHHHHHHHHTT
T ss_pred             CEEEEEECCCCCCHHHHHHHHhC
Confidence            34899999999999999998754

>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=92.08  E-value=0.057  Score=46.12  Aligned_cols=26  Identities=19%  Similarity=0.178  Sum_probs=21.6

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          101 PIKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      ....|+|+|.+|+|||||...+....
T Consensus        25 ~~~~v~lvG~~g~GKSTLl~~l~g~~   50 (210)
T 1pui_A           25 TGIEVAFAGRSNAGKSSALNTLTNQK   50 (210)
T ss_dssp             CSEEEEEEECTTSSHHHHHTTTCCC-
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            35689999999999999998887653

>4f4c_A Multidrug resistance protein PGP-1; ABC transporter, ATPase, multi-drug transporter, exporter, A binding, hydrolase,protein transport; HET: NDG NAG BMA MAN 0SA; 3.40A {Caenorhabditis elegans}

Probab=92.06  E-value=0.066  Score=59.27  Aligned_cols=27  Identities=26%  Similarity=0.404  Sum_probs=23.3

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHhcCCh
Q 038234          101 PIKMISIVGMGGIGKITLAQMAYNDKD  127 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~~~~~  127 (406)
                      +...++|+|..|.|||||++.+...+.
T Consensus       443 ~G~~vaivG~sGsGKSTll~ll~~~~~  469 (1321)
T 4f4c_A          443 AGQTVALVGSSGCGKSTIISLLLRYYD  469 (1321)
T ss_dssp             TTCEEEEEECSSSCHHHHHHHHTTSSC
T ss_pred             CCcEEEEEecCCCcHHHHHHHhccccc
Confidence            356899999999999999999987654

>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=92.03  E-value=0.079  Score=44.65  Aligned_cols=23  Identities=35%  Similarity=0.512  Sum_probs=19.9

Q ss_pred             EEEEEeeeCCCcHHHHHHHHhcC
Q 038234          103 KMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       103 ~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ..|+|+|.+|+|||||...+...
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            36799999999999999888754

>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=92.02  E-value=0.064  Score=44.35  Aligned_cols=24  Identities=17%  Similarity=0.188  Sum_probs=20.3

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      .--|+++|.+|+|||||...+...
T Consensus         7 ~~ki~~vG~~~vGKTsli~~l~~~   30 (178)
T 2iwr_A            7 ELRLGVLGDARSGKSSLIHRFLTG   30 (178)
T ss_dssp             EEEEEEECCGGGCHHHHHHHHHHS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhC
Confidence            446889999999999999887654

>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=92.00  E-value=0.074  Score=43.17  Aligned_cols=20  Identities=30%  Similarity=0.350  Sum_probs=17.9

Q ss_pred             EEEeeeCCCcHHHHHHHHhc
Q 038234          105 ISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus       105 i~I~G~gGiGKTtLA~~v~~  124 (406)
                      |+|+|.+|+|||||...+..
T Consensus         3 i~~~G~~~~GKssl~~~l~~   22 (164)
T 1r8s_A            3 ILMVGLDAAGKTTILYKLKL   22 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHc
Confidence            78999999999999988754

>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=92.00  E-value=0.08  Score=43.11  Aligned_cols=24  Identities=17%  Similarity=0.227  Sum_probs=20.1

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      .--|+|+|.+|+|||||...+...
T Consensus         6 ~~~i~v~G~~~~GKssli~~l~~~   29 (170)
T 1r2q_A            6 QFKLVLLGESAVGKSSLVLRFVKG   29 (170)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECCCCCCHHHHHHHHHcC
Confidence            346899999999999999887653

>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=91.99  E-value=0.11  Score=45.29  Aligned_cols=26  Identities=19%  Similarity=0.294  Sum_probs=22.2

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      .....|+|+|.+|+|||||...+...
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            34567899999999999999988765

>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=91.98  E-value=0.081  Score=44.04  Aligned_cols=23  Identities=26%  Similarity=0.462  Sum_probs=19.7

Q ss_pred             EEEEEeeeCCCcHHHHHHHHhcC
Q 038234          103 KMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       103 ~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      --|+|+|.+|+|||||...+...
T Consensus         5 ~ki~v~G~~~~GKSsli~~l~~~   27 (189)
T 4dsu_A            5 YKLVVVGADGVGKSALTIQLIQN   27 (189)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHhC
Confidence            45789999999999999888654

>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=91.98  E-value=0.085  Score=43.89  Aligned_cols=25  Identities=20%  Similarity=0.258  Sum_probs=20.9

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          101 PIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ..--|.|+|.+|+|||||...+...
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            3456899999999999999887654

>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=91.97  E-value=0.11  Score=42.41  Aligned_cols=24  Identities=33%  Similarity=0.445  Sum_probs=20.2

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      .--|+|+|.+|+|||||...+...
T Consensus         3 ~~~i~v~G~~~~GKssli~~l~~~   26 (170)
T 1g16_A            3 IMKILLIGDSGVGKSCLLVRFVED   26 (170)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHC
T ss_pred             ceEEEEECcCCCCHHHHHHHHHhC
Confidence            345899999999999999887654

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=91.97  E-value=0.095  Score=49.14  Aligned_cols=25  Identities=20%  Similarity=0.171  Sum_probs=21.7

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhc
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      .+..+|+|+|.+|+|||||...+..
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            3477999999999999999988764

>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=91.82  E-value=0.091  Score=43.24  Aligned_cols=23  Identities=22%  Similarity=0.291  Sum_probs=19.4

Q ss_pred             EEEEEeeeCCCcHHHHHHHHhcC
Q 038234          103 KMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       103 ~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      -.|+|+|.+|+|||||...+...
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            45789999999999999887643

>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=91.80  E-value=0.1  Score=51.42  Aligned_cols=25  Identities=8%  Similarity=-0.100  Sum_probs=21.5

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          101 PIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ...+|.+.|++|+||||+|+.+.+.
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            4578999999999999999987554

>2r8r_A Sensor protein; KDPD, PFAM02702, MCSG, structural genomics, protein structure initiative, midwest center for structural genomics, kinase; 2.30A {Pseudomonas syringae PV}

Probab=91.79  E-value=0.084  Score=46.04  Aligned_cols=22  Identities=18%  Similarity=0.129  Sum_probs=17.7

Q ss_pred             EEEEEeeeCCCcHHHHHHHHhc
Q 038234          103 KMISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus       103 ~vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      -.|.+.|.||+||||+|..+..
T Consensus         7 l~I~~~~kgGvGKTt~a~~la~   28 (228)
T 2r8r_A            7 LKVFLGAAPGVGKTYAMLQAAH   28 (228)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCcHHHHHHHHHH
Confidence            3478899999999999866544

>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=91.79  E-value=0.092  Score=43.49  Aligned_cols=24  Identities=25%  Similarity=0.391  Sum_probs=20.4

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ...|+|+|.+|+|||||...+...
T Consensus         6 ~~ki~~~G~~~~GKSsli~~l~~~   29 (181)
T 3t5g_A            6 SRKIAILGYRSVGKSSLTIQFVEG   29 (181)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECcCCCCHHHHHHHHHcC
Confidence            457899999999999999887643

>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=91.78  E-value=0.095  Score=49.21  Aligned_cols=24  Identities=29%  Similarity=0.358  Sum_probs=21.2

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ..+++|+|+.|.|||||.+.++--
T Consensus        30 Ge~~~llGpsGsGKSTLLr~iaGl   53 (359)
T 3fvq_A           30 GEILFIIGASGCGKTTLLRCLAGF   53 (359)
T ss_dssp             TCEEEEEESTTSSHHHHHHHHHTS
T ss_pred             CCEEEEECCCCchHHHHHHHHhcC
Confidence            458999999999999999988763

>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=91.77  E-value=0.073  Score=48.72  Aligned_cols=23  Identities=35%  Similarity=0.356  Sum_probs=20.2

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhc
Q 038234          102 IKMISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      ..+++++|.+|+||||++..++.
T Consensus        98 ~~vi~i~G~~G~GKTT~~~~la~  120 (297)
T 1j8m_F           98 PYVIMLVGVQGTGKTTTAGKLAY  120 (297)
T ss_dssp             SEEEEEECSSCSSTTHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            67999999999999999987653

>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=91.74  E-value=0.11  Score=42.81  Aligned_cols=25  Identities=28%  Similarity=0.246  Sum_probs=21.2

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          101 PIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ....|.|+|.+|+|||||...+...
T Consensus        14 ~~~~i~v~G~~~~GKSsli~~l~~~   38 (179)
T 1z0f_A           14 YIFKYIIIGDMGVGKSCLLHQFTEK   38 (179)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             cceEEEEECCCCCCHHHHHHHHHcC
Confidence            3567899999999999999888654

>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=91.69  E-value=0.13  Score=42.70  Aligned_cols=26  Identities=31%  Similarity=0.563  Sum_probs=21.1

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ...-.|.|+|.+|+|||||...+...
T Consensus        16 ~~~~ki~v~G~~~~GKSsl~~~l~~~   41 (183)
T 3kkq_A           16 LPTYKLVVVGDGGVGKSALTIQFFQK   41 (183)
T ss_dssp             CCEEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHhC
Confidence            34556899999999999999887643

>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=91.69  E-value=0.09  Score=43.47  Aligned_cols=24  Identities=25%  Similarity=0.284  Sum_probs=20.2

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      .--|.|+|.+|+|||||...+...
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            446899999999999999887654

>2h92_A Cytidylate kinase; rossmann fold, transferase; HET: C5P PG4; 2.30A {Staphylococcus aureus}

Probab=91.66  E-value=0.074  Score=45.95  Aligned_cols=24  Identities=25%  Similarity=0.279  Sum_probs=20.8

Q ss_pred             EEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          103 KMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       103 ~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      .+|+|.|+.|+||||+++.+....
T Consensus         4 ~~i~i~G~~gsGkst~~~~l~~~~   27 (219)
T 2h92_A            4 INIALDGPAAAGKSTIAKRVASEL   27 (219)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhc
Confidence            478999999999999999887643

>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=91.66  E-value=0.09  Score=44.45  Aligned_cols=23  Identities=30%  Similarity=0.476  Sum_probs=19.6

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhc
Q 038234          102 IKMISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      .--|+|+|.+|+|||||...+..
T Consensus         6 ~~kv~lvG~~~vGKSsL~~~~~~   28 (192)
T 2cjw_A            6 YYRVVLIGEQGVGKSTLANIFAG   28 (192)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEEEECCCCCCHHHHHHHHhc
Confidence            45689999999999999987763

>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=91.66  E-value=0.12  Score=42.18  Aligned_cols=24  Identities=29%  Similarity=0.308  Sum_probs=20.3

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ...|+|+|.+|+|||||...+...
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            456899999999999999888654

>2zts_A Putative uncharacterized protein PH0186; KAIC like protein, ATP-binding, nucleotide-binding, ATP- binding protein; HET: ADP; 2.07A {Pyrococcus horikoshii}

Probab=91.63  E-value=0.084  Score=46.39  Aligned_cols=23  Identities=26%  Similarity=0.265  Sum_probs=19.8

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHh
Q 038234          101 PIKMISIVGMGGIGKITLAQMAY  123 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~  123 (406)
                      +..++.|.|.+|+|||+||.+++
T Consensus        29 ~G~l~~i~G~pG~GKT~l~l~~~   51 (251)
T 2zts_A           29 EGTTVLLTGGTGTGKTTFAAQFI   51 (251)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHH
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHH
Confidence            45689999999999999998764

>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=91.62  E-value=0.092  Score=43.57  Aligned_cols=24  Identities=33%  Similarity=0.585  Sum_probs=20.5

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ..-|.|+|.+|+|||||...+...
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            456899999999999999888754

>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=91.62  E-value=0.11  Score=43.18  Aligned_cols=24  Identities=25%  Similarity=0.289  Sum_probs=20.8

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      .-.|+|+|.+|+|||||...+...
T Consensus        21 ~~~i~v~G~~~~GKSsli~~l~~~   44 (181)
T 2h17_A           21 EHKVIIVGLDNAGKTTILYQFSMN   44 (181)
T ss_dssp             CEEEEEEEETTSSHHHHHHHHHTT
T ss_pred             eeEEEEECCCCCCHHHHHHHHhcC
Confidence            446899999999999999988765

>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=91.59  E-value=0.09  Score=43.52  Aligned_cols=24  Identities=25%  Similarity=0.268  Sum_probs=20.0

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      .--|+|+|.+|+|||||...+...
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            345789999999999999887654

>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=91.56  E-value=0.1  Score=43.90  Aligned_cols=24  Identities=21%  Similarity=0.336  Sum_probs=20.5

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      .--|+|+|.+|+|||||...+...
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            456899999999999999888654

>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=91.55  E-value=0.091  Score=44.34  Aligned_cols=24  Identities=25%  Similarity=0.356  Sum_probs=20.4

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      .--|+|+|.+|+|||||...+...
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            456889999999999999887654

>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=91.54  E-value=0.1  Score=44.26  Aligned_cols=24  Identities=25%  Similarity=0.346  Sum_probs=20.7

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      .--|+|+|.+|+|||||...+...
T Consensus         8 ~~ki~v~G~~~~GKSsli~~l~~~   31 (203)
T 1zbd_A            8 MFKILIIGNSSVGKTSFLFRYADD   31 (203)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHTC
T ss_pred             eeEEEEECCCCCCHHHHHHHHhcC
Confidence            456899999999999999888654

>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=91.54  E-value=0.092  Score=44.10  Aligned_cols=24  Identities=21%  Similarity=0.423  Sum_probs=20.5

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      .--|+|+|.+|+|||||...+...
T Consensus        25 ~~ki~v~G~~~~GKSsLi~~l~~~   48 (193)
T 2oil_A           25 VFKVVLIGESGVGKTNLLSRFTRN   48 (193)
T ss_dssp             EEEEEEESSTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECcCCCCHHHHHHHHhcC
Confidence            456899999999999999887654

>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=91.53  E-value=0.083  Score=49.53  Aligned_cols=73  Identities=21%  Similarity=0.235  Sum_probs=42.4

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhcCChH------------HHHHHHHHHhcCCCC-----CCCCHHHHHHHHHhhcc-C
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYNDKDF------------RVAKAIIAALGCETS-----NLGSLQSLVRCISESIE-G  161 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~------------~~~~~i~~~l~~~~~-----~~~~~~~~~~~l~~~l~-~  161 (406)
                      +...++.|+|.+|+||||||.++......            .+.......++....     ...+.+++...+..... .
T Consensus        59 ~~G~iv~I~G~pGsGKTtLal~la~~~~~~g~~vlyi~~E~~~~~~~a~~lG~~~~~l~i~~~~~~e~~l~~~~~l~~~~  138 (349)
T 2zr9_A           59 PRGRVIEIYGPESSGKTTVALHAVANAQAAGGIAAFIDAEHALDPEYAKKLGVDTDSLLVSQPDTGEQALEIADMLVRSG  138 (349)
T ss_dssp             ETTSEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEESSCCCCHHHHHHTTCCGGGCEEECCSSHHHHHHHHHHHHTTT
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEECCCCcCHHHHHHcCCCHHHeEEecCCCHHHHHHHHHHHHhcC
Confidence            34668999999999999999877643211            011112333432211     12345555555544443 4


Q ss_pred             cceeEEeeCCC
Q 038234          162 KKYLVVLDDVW  172 (406)
Q Consensus       162 kr~LlVlDdvw  172 (406)
                      +.-+||+|.+.
T Consensus       139 ~~~lIVIDsl~  149 (349)
T 2zr9_A          139 ALDIIVIDSVA  149 (349)
T ss_dssp             CCSEEEEECGG
T ss_pred             CCCEEEEcChH
Confidence            56799999884

>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=91.53  E-value=0.095  Score=44.85  Aligned_cols=24  Identities=29%  Similarity=0.300  Sum_probs=20.6

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      .--|+|+|.+|+|||||...+...
T Consensus        28 ~~ki~vvG~~~vGKSsLi~~l~~~   51 (205)
T 1gwn_A           28 KCKIVVVGDSQCGKTALLHVFAKD   51 (205)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eeEEEEECCCCCCHHHHHHHHhcC
Confidence            456899999999999999887654

>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=91.52  E-value=0.13  Score=43.51  Aligned_cols=25  Identities=32%  Similarity=0.566  Sum_probs=20.9

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          101 PIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ...-|+|+|.+|+|||||...+...
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            3557899999999999999887654

>3def_A T7I23.11 protein; chloroplast, TOC33, GTPase, hydrolase; HET: GDP; 1.96A {Arabidopsis thaliana} PDB: 3bb3_A* 3bb4_A* 2j3e_A*

Probab=91.50  E-value=0.23  Score=44.32  Aligned_cols=38  Identities=21%  Similarity=0.351  Sum_probs=26.8

Q ss_pred             HHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234           84 KNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus        84 ~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      +.++.+.+...    ......|+|+|.+|+|||||...+...
T Consensus        22 l~~~~~~~~~~----~~~~~~I~lvG~~g~GKSSLin~l~~~   59 (262)
T 3def_A           22 LIEFFGKLKQK----DMNSMTVLVLGKGGVGKSSTVNSLIGE   59 (262)
T ss_dssp             HHHHHHHHHHT----TCCEEEEEEEECTTSSHHHHHHHHHTS
T ss_pred             HHHHHHHHhhc----cCCCcEEEEECCCCCCHHHHHHHHhCC
Confidence            33444444432    234567899999999999999888764

>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=91.50  E-value=0.099  Score=49.30  Aligned_cols=24  Identities=25%  Similarity=0.245  Sum_probs=20.7

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ...++|+|..|.|||||++.+...
T Consensus       170 g~k~~IvG~nGsGKSTLlk~L~gl  193 (365)
T 1lw7_A          170 AKTVAILGGESSGKSVLVNKLAAV  193 (365)
T ss_dssp             CEEEEEECCTTSHHHHHHHHHHHH
T ss_pred             hCeEEEECCCCCCHHHHHHHHHHH
Confidence            568999999999999999887543

>2ck3_D ATP synthase subunit beta\, mitochondrial; hydrolase; HET: ANP ADP; 1.9A {Bos taurus} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB: 1cow_D* 1bmf_D* 1e1q_D* 1e1r_D* 1efr_D* 1e79_D* 1h8h_D* 1ohh_D* 1qo1_D 1w0j_D* 1w0k_D* 1h8e_D* 2jdi_D* 2jiz_D* 2jj1_D* 2jj2_D* 2v7q_D* 2wss_D* 2w6j_D 2w6e_D ...

Probab=91.49  E-value=0.49  Score=45.88  Aligned_cols=35  Identities=23%  Similarity=0.299  Sum_probs=25.9

Q ss_pred             HHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234           86 ELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus        86 ~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      +.++.|..-.     .-..++|.|.+|+|||+|+..+.+.
T Consensus       142 r~ID~l~pig-----kGQr~~Ifgg~G~GKT~L~~~i~~~  176 (482)
T 2ck3_D          142 KVVDLLAPYA-----KGGKIGLFGGAGVGKTVLIMELINN  176 (482)
T ss_dssp             HHHHHHSCEE-----TTCEEEEEECTTSSHHHHHHHHHHH
T ss_pred             EEEecccccc-----cCCeeeeecCCCCChHHHHHHHHHh
Confidence            4566665432     3457899999999999999777653

>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=91.46  E-value=0.12  Score=43.80  Aligned_cols=26  Identities=31%  Similarity=0.465  Sum_probs=21.2

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      .....|+|+|.+|+|||||...+...
T Consensus         6 ~~~~ki~v~G~~~~GKSsli~~l~~~   31 (207)
T 1vg8_A            6 KVLLKVIILGDSGVGKTSLMNQYVNK   31 (207)
T ss_dssp             -CEEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             CcceEEEEECcCCCCHHHHHHHHHcC
Confidence            34567899999999999999887654

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens}

Probab=91.45  E-value=0.1  Score=44.26  Aligned_cols=24  Identities=25%  Similarity=0.416  Sum_probs=20.7

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ..-|+|+|.+|+|||||...+...
T Consensus        24 ~~ki~vvG~~~~GKSsli~~l~~~   47 (201)
T 3oes_A           24 YRKVVILGYRCVGKTSLAHQFVEG   47 (201)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             cEEEEEECCCCcCHHHHHHHHHhC
Confidence            557899999999999999887754

>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=91.44  E-value=0.12  Score=43.12  Aligned_cols=25  Identities=16%  Similarity=0.223  Sum_probs=20.8

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          101 PIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ..--|+|+|.+|+|||||...+...
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            3456899999999999999887654

>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=91.43  E-value=0.1  Score=47.81  Aligned_cols=22  Identities=32%  Similarity=0.540  Sum_probs=18.7

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcC
Q 038234          104 MISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      -|+|+|..|+|||||.+.++..
T Consensus        20 ~I~lvG~nG~GKSTLl~~L~g~   41 (301)
T 2qnr_A           20 TLMVVGESGLGKSTLINSLFLT   41 (301)
T ss_dssp             EEEEEEETTSSHHHHHHHHHC-
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            3499999999999999997754

>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=91.43  E-value=0.1  Score=44.61  Aligned_cols=24  Identities=25%  Similarity=0.429  Sum_probs=20.4

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      .--|+|+|.+|+|||||...+...
T Consensus        26 ~~ki~lvG~~~vGKSsLi~~l~~~   49 (201)
T 2ew1_A           26 LFKIVLIGNAGVGKTCLVRRFTQG   49 (201)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECcCCCCHHHHHHHHHhC
Confidence            456899999999999999887654

>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=91.43  E-value=0.12  Score=44.09  Aligned_cols=24  Identities=25%  Similarity=0.289  Sum_probs=20.0

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      .-.|+|+|.+|+|||||...+...
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            456789999999999999877643

>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=91.41  E-value=0.1  Score=43.12  Aligned_cols=25  Identities=24%  Similarity=0.275  Sum_probs=20.8

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          101 PIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ..--|+|+|.+|+|||||...+...
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            3456899999999999999887654

>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=91.39  E-value=0.098  Score=44.31  Aligned_cols=24  Identities=38%  Similarity=0.414  Sum_probs=20.4

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHhc
Q 038234          101 PIKMISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      ..-.|+|+|.+|+|||||...+..
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            356789999999999999988753

>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=91.39  E-value=0.076  Score=46.72  Aligned_cols=19  Identities=37%  Similarity=0.683  Sum_probs=16.2

Q ss_pred             EEEeeeCCCcHHHHHHHHh
Q 038234          105 ISIVGMGGIGKITLAQMAY  123 (406)
Q Consensus       105 i~I~G~gGiGKTtLA~~v~  123 (406)
                      |+|.|-||+||||+|..+.
T Consensus         3 I~vs~kGGvGKTt~a~~LA   21 (254)
T 3kjh_A            3 LAVAGKGGVGKTTVAAGLI   21 (254)
T ss_dssp             EEEECSSSHHHHHHHHHHH
T ss_pred             EEEecCCCCCHHHHHHHHH
Confidence            6679999999999997664

>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=91.38  E-value=0.15  Score=46.60  Aligned_cols=35  Identities=26%  Similarity=0.320  Sum_probs=27.7

Q ss_pred             hHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234           83 KKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus        83 ~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      .++++...+.         ..+++|+|++|+|||||.+.+....
T Consensus       159 gv~~lf~~l~---------geiv~l~G~sG~GKSTll~~l~g~~  193 (301)
T 1u0l_A          159 GIEELKEYLK---------GKISTMAGLSGVGKSSLLNAINPGL  193 (301)
T ss_dssp             THHHHHHHHS---------SSEEEEECSTTSSHHHHHHHHSTTC
T ss_pred             CHHHHHHHhc---------CCeEEEECCCCCcHHHHHHHhcccc
Confidence            4667777664         2378999999999999999987654

>2orw_A Thymidine kinase; TMTK, TP4A, transferase; HET: 4TA; 1.50A {Thermotoga maritima} PDB: 2qpo_A 2qq0_A* 2qqe_A*

Probab=91.37  E-value=0.1  Score=44.04  Aligned_cols=22  Identities=27%  Similarity=0.086  Sum_probs=18.3

Q ss_pred             EEEEEeeeCCCcHHHHHHHHhc
Q 038234          103 KMISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus       103 ~vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      .++.|+|..|+||||++..++.
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            4788999999999999965543

>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=91.37  E-value=0.11  Score=49.90  Aligned_cols=24  Identities=29%  Similarity=0.281  Sum_probs=20.7

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHhc
Q 038234          101 PIKMISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      +..++.++|.+|+||||++..++.
T Consensus        97 ~~~vi~i~G~~GsGKTT~~~~LA~  120 (425)
T 2ffh_A           97 DRNLWFLVGLQGSGKTTTAAKLAL  120 (425)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            568999999999999999877654

>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=91.36  E-value=0.14  Score=45.00  Aligned_cols=27  Identities=26%  Similarity=0.300  Sum_probs=22.1

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      .....|+|+|.+|+|||||...+....
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            345678999999999999999887653

>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=91.35  E-value=0.11  Score=44.12  Aligned_cols=24  Identities=21%  Similarity=0.355  Sum_probs=20.2

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      .--|+|+|.+|+|||||...+...
T Consensus        25 ~~ki~v~G~~~~GKSsLi~~l~~~   48 (200)
T 2o52_A           25 LFKFLVIGSAGTGKSCLLHQFIEN   48 (200)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHC-
T ss_pred             ceEEEEECcCCCCHHHHHHHHHhC
Confidence            456889999999999999988755

>4f4c_A Multidrug resistance protein PGP-1; ABC transporter, ATPase, multi-drug transporter, exporter, A binding, hydrolase,protein transport; HET: NDG NAG BMA MAN 0SA; 3.40A {Caenorhabditis elegans}

Probab=91.32  E-value=0.1  Score=57.74  Aligned_cols=26  Identities=27%  Similarity=0.336  Sum_probs=22.8

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCCh
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDKD  127 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~~  127 (406)
                      ...|+|||..|.|||||++.+.+-+.
T Consensus      1105 Ge~vaIVG~SGsGKSTL~~lL~rl~~ 1130 (1321)
T 4f4c_A         1105 GQTLALVGPSGCGKSTVVALLERFYD 1130 (1321)
T ss_dssp             TCEEEEECSTTSSTTSHHHHHTTSSC
T ss_pred             CCEEEEECCCCChHHHHHHHHhcCcc
Confidence            45799999999999999999988654

>4dzz_A Plasmid partitioning protein PARF; deviant walker BOX, DNA segregation, unknown function; HET: ADP; 1.80A {Escherichia coli} PDB: 4e03_A* 4e07_A* 4e09_A*

Probab=91.32  E-value=0.11  Score=44.29  Aligned_cols=22  Identities=36%  Similarity=0.398  Sum_probs=17.5

Q ss_pred             EEEEEe-eeCCCcHHHHHHHHhc
Q 038234          103 KMISIV-GMGGIGKITLAQMAYN  124 (406)
Q Consensus       103 ~vi~I~-G~gGiGKTtLA~~v~~  124 (406)
                      ++|+|+ +.||+||||+|..+..
T Consensus         2 ~vi~v~s~kgG~GKTt~a~~la~   24 (206)
T 4dzz_A            2 KVISFLNPKGGSGKTTAVINIAT   24 (206)
T ss_dssp             EEEEECCSSTTSSHHHHHHHHHH
T ss_pred             eEEEEEeCCCCccHHHHHHHHHH
Confidence            578887 6789999999977643

>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=91.30  E-value=0.11  Score=50.89  Aligned_cols=24  Identities=21%  Similarity=0.290  Sum_probs=21.2

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ..+|.++|++|+||||+++.+.+.
T Consensus        39 ~~~IvlvGlpGsGKSTia~~La~~   62 (469)
T 1bif_A           39 PTLIVMVGLPARGKTYISKKLTRY   62 (469)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             cEEEEEECCCCCCHHHHHHHHHHH
Confidence            568899999999999999988764

>1h65_A Chloroplast outer envelope protein OEP34; GTPase, translocon; HET: GDP; 2.0A {Pisum sativum} SCOP: c.37.1.8 PDB: 3bb1_A*

Probab=91.30  E-value=0.24  Score=44.36  Aligned_cols=26  Identities=23%  Similarity=0.445  Sum_probs=21.9

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          101 PIKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      ....|+++|.+|+|||||...+....
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            35678999999999999998887653

>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=91.30  E-value=0.2  Score=50.24  Aligned_cols=26  Identities=19%  Similarity=0.060  Sum_probs=22.2

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ....+|.|.|++|+||||+|+.+.+.
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            34578999999999999999988665

>3tqf_A HPR(Ser) kinase; transferase, hydrolase; 2.80A {Coxiella burnetii}

Probab=91.29  E-value=0.14  Score=42.63  Aligned_cols=24  Identities=25%  Similarity=0.254  Sum_probs=20.0

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      -+-|.|.|.+|+||||||..+..+
T Consensus        16 G~gvli~G~SGaGKStlal~L~~r   39 (181)
T 3tqf_A           16 KMGVLITGEANIGKSELSLALIDR   39 (181)
T ss_dssp             TEEEEEEESSSSSHHHHHHHHHHT
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHHc
Confidence            356889999999999999887543

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens}

Probab=91.28  E-value=0.11  Score=44.05  Aligned_cols=25  Identities=24%  Similarity=0.264  Sum_probs=20.2

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      .--|.|+|.+|+|||||...+.+..
T Consensus        20 ~~ki~~~G~~~~GKssl~~~l~~~~   44 (201)
T 2q3h_A           20 GVKCVLVGDGAVGKTSLVVSYTTNG   44 (201)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHC--
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhCC
Confidence            4568899999999999999887653

>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=91.28  E-value=0.15  Score=45.79  Aligned_cols=24  Identities=25%  Similarity=0.385  Sum_probs=20.9

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ...|+++|.+|+|||||...+...
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            457899999999999999988754

>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=91.25  E-value=0.12  Score=42.74  Aligned_cols=24  Identities=25%  Similarity=0.289  Sum_probs=19.9

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      .--|+|+|.+|+|||||...+...
T Consensus         5 ~~~i~~~G~~~~GKssl~~~l~~~   28 (186)
T 1mh1_A            5 AIKCVVVGDGAVGKTCLLISYTTN   28 (186)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEEEECCCCCCHHHHHHHHHcC
Confidence            346899999999999999887644

>3ld9_A DTMP kinase, thymidylate kinase; ssgcid, NIH, niaid, SBRI, UW, emerald biostructures, ehrlich chaffeensis; 2.15A {Ehrlichia chaffeensis}

Probab=91.25  E-value=0.13  Score=44.90  Aligned_cols=27  Identities=22%  Similarity=0.281  Sum_probs=22.7

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      .....|.|.|..|+||||+++.+.+..
T Consensus        19 ~~~~~i~~~G~~g~GKst~~~~l~~~l   45 (223)
T 3ld9_A           19 PGSMFITFEGIDGSGKTTQSHLLAEYL   45 (223)
T ss_dssp             CCCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            446789999999999999999876543

>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=91.25  E-value=0.12  Score=47.50  Aligned_cols=27  Identities=26%  Similarity=0.380  Sum_probs=23.5

Q ss_pred             CCCcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234           99 QKPIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus        99 ~~~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      .++...|+|+|.+|+|||||...+...
T Consensus         7 ~~~~g~v~ivG~~nvGKSTLin~l~g~   33 (308)
T 3iev_A            7 HMKVGYVAIVGKPNVGKSTLLNNLLGT   33 (308)
T ss_dssp             CCEEEEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CCCCCEEEEECCCCCcHHHHHHHHhCC
Confidence            456789999999999999999888754

>3fkq_A NTRC-like two-domain protein; RER070207001320, structural GE joint center for structural genomics, JCSG, protein structu initiative, PSI-2; HET: ATP 2PE; 2.10A {Eubacterium rectale}

Probab=91.20  E-value=0.14  Score=48.52  Aligned_cols=25  Identities=20%  Similarity=0.369  Sum_probs=20.6

Q ss_pred             CCCcEEEEEee-eCCCcHHHHHHHHh
Q 038234           99 QKPIKMISIVG-MGGIGKITLAQMAY  123 (406)
Q Consensus        99 ~~~~~vi~I~G-~gGiGKTtLA~~v~  123 (406)
                      ....++|+|+| -||+||||+|..++
T Consensus       140 ~~~~kvIav~s~KGGvGKTT~a~nLA  165 (373)
T 3fkq_A          140 NDKSSVVIFTSPCGGVGTSTVAAACA  165 (373)
T ss_dssp             TTSCEEEEEECSSTTSSHHHHHHHHH
T ss_pred             CCCceEEEEECCCCCChHHHHHHHHH
Confidence            45678999886 89999999997754

>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=91.20  E-value=0.12  Score=44.51  Aligned_cols=24  Identities=29%  Similarity=0.432  Sum_probs=20.2

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      .--|+|+|.+|+|||||...+...
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            456899999999999999888764

>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=91.19  E-value=0.1  Score=43.88  Aligned_cols=24  Identities=29%  Similarity=0.347  Sum_probs=20.5

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      .--|+|+|.+|+|||||...+...
T Consensus        23 ~~ki~~vG~~~~GKSsl~~~l~~~   46 (194)
T 3reg_A           23 ALKIVVVGDGAVGKTCLLLAFSKG   46 (194)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eeEEEEECcCCCCHHHHHHHHhcC
Confidence            456899999999999999887654

>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=91.19  E-value=0.14  Score=42.52  Aligned_cols=25  Identities=16%  Similarity=0.262  Sum_probs=21.4

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          101 PIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ....|+|+|.+|+|||||...+...
T Consensus        17 ~~~~i~v~G~~~~GKssl~~~l~~~   41 (186)
T 1ksh_A           17 RELRLLMLGLDNAGKTTILKKFNGE   41 (186)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHTTC
T ss_pred             CeeEEEEECCCCCCHHHHHHHHhcC
Confidence            3567899999999999999988765

>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=91.16  E-value=0.11  Score=43.70  Aligned_cols=23  Identities=17%  Similarity=0.276  Sum_probs=19.5

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhc
Q 038234          102 IKMISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      .--|+|+|.+|+|||||...+..
T Consensus        23 ~~ki~v~G~~~~GKSsli~~l~~   45 (191)
T 3dz8_A           23 MFKLLIIGNSSVGKTSFLFRYAD   45 (191)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHH
T ss_pred             eeEEEEECCCCcCHHHHHHHHhc
Confidence            34689999999999999988764

>3ea0_A ATPase, para family; alpha-beta-alpha sandwich, structural genomics, PSI-2, prote structure initiative; HET: ATP; 2.20A {Chlorobium tepidum}

Probab=91.16  E-value=0.14  Score=44.94  Aligned_cols=23  Identities=22%  Similarity=0.265  Sum_probs=18.0

Q ss_pred             CcEEEEEee-eCCCcHHHHHHHHh
Q 038234          101 PIKMISIVG-MGGIGKITLAQMAY  123 (406)
Q Consensus       101 ~~~vi~I~G-~gGiGKTtLA~~v~  123 (406)
                      ..++|+|++ -||+||||+|..++
T Consensus         3 ~~~vI~v~s~kGGvGKTt~a~~LA   26 (245)
T 3ea0_A            3 AKRVFGFVSAKGGDGGSCIAANFA   26 (245)
T ss_dssp             CCEEEEEEESSTTSSHHHHHHHHH
T ss_pred             CCeEEEEECCCCCcchHHHHHHHH
Confidence            357888875 68999999997753

>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=91.16  E-value=0.15  Score=42.90  Aligned_cols=24  Identities=25%  Similarity=0.224  Sum_probs=20.5

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      .--|+|+|.+|+|||||...+...
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            456899999999999999988654

>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=91.14  E-value=0.11  Score=43.65  Aligned_cols=24  Identities=21%  Similarity=0.295  Sum_probs=20.3

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      .--|+|+|.+|+|||||...+...
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            446899999999999999888654

>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=91.14  E-value=0.13  Score=43.94  Aligned_cols=24  Identities=33%  Similarity=0.445  Sum_probs=20.4

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ..-|+|+|.+|+|||||...+...
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            456899999999999999887654

>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=91.12  E-value=0.11  Score=43.60  Aligned_cols=24  Identities=17%  Similarity=0.313  Sum_probs=20.4

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      .--|+|+|.+|+|||||...+...
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            456899999999999999887654

>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=91.11  E-value=0.12  Score=48.68  Aligned_cols=24  Identities=25%  Similarity=0.311  Sum_probs=21.2

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ..+++|+|+.|.|||||.+.++.-
T Consensus        29 Ge~~~llGpnGsGKSTLLr~iaGl   52 (359)
T 2yyz_A           29 GEFVALLGPSGCGKTTTLLMLAGI   52 (359)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CCEEEEEcCCCchHHHHHHHHHCC
Confidence            458999999999999999988764

>1z47_A CYSA, putative ABC-transporter ATP-binding protein; alpha/beta motif, beta sandwich, ligand binding protein; 1.90A {Alicyclobacillus acidocaldarius}

Probab=91.10  E-value=0.11  Score=48.68  Aligned_cols=24  Identities=25%  Similarity=0.411  Sum_probs=21.1

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ..+++|+|+.|.|||||.+.++.-
T Consensus        41 Ge~~~llGpnGsGKSTLLr~iaGl   64 (355)
T 1z47_A           41 GEMVGLLGPSGSGKTTILRLIAGL   64 (355)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CCEEEEECCCCCcHHHHHHHHhCC
Confidence            458999999999999999988754

>3fdi_A Uncharacterized protein; cytidylate kinase like protein, PSI, MCSG, PRK04182 class ME structural genomics, protein structure initiative; 2.20A {Eubacterium ventriosum}

Probab=91.10  E-value=0.12  Score=44.26  Aligned_cols=27  Identities=19%  Similarity=0.079  Sum_probs=23.1

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCChH
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDKDF  128 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~~~  128 (406)
                      ..+|+|.|+.|+||||+|+.+++....
T Consensus         6 ~~iI~i~g~~GsGk~ti~~~la~~lg~   32 (201)
T 3fdi_A            6 QIIIAIGREFGSGGHLVAKKLAEHYNI   32 (201)
T ss_dssp             CCEEEEEECTTSSHHHHHHHHHHHTTC
T ss_pred             CeEEEEeCCCCCCHHHHHHHHHHHhCc
Confidence            358999999999999999999876543

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=91.10  E-value=0.11  Score=43.58  Aligned_cols=25  Identities=24%  Similarity=0.331  Sum_probs=20.8

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          101 PIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ..--|.|+|.+|+|||||...+...
T Consensus        15 ~~~ki~v~G~~~~GKSsli~~l~~~   39 (196)
T 3tkl_A           15 YLFKLLLIGDSGVGKSCLLLRFADD   39 (196)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             cceEEEEECcCCCCHHHHHHHHHcC
Confidence            3456899999999999999887643

>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=91.09  E-value=0.11  Score=49.66  Aligned_cols=24  Identities=17%  Similarity=0.263  Sum_probs=21.7

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ..+++|+|..|+|||||.+.+...
T Consensus        69 ~~~valvG~nGaGKSTLln~L~Gl   92 (413)
T 1tq4_A           69 VLNVAVTGETGSGKSSFINTLRGI   92 (413)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHTC
T ss_pred             CeEEEEECCCCCcHHHHHHHHhCC
Confidence            558999999999999999998874

>2it1_A 362AA long hypothetical maltose/maltodextrin transport ATP-binding protein; structural genomics, NPPSFA; 1.94A {Pyrococcus horikoshii}

Probab=91.08  E-value=0.12  Score=48.67  Aligned_cols=24  Identities=25%  Similarity=0.286  Sum_probs=21.2

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ..+++|+|+.|.|||||.+.++.-
T Consensus        29 Ge~~~llGpnGsGKSTLLr~iaGl   52 (362)
T 2it1_A           29 GEFMALLGPSGSGKSTLLYTIAGI   52 (362)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHTS
T ss_pred             CCEEEEECCCCchHHHHHHHHhcC
Confidence            458999999999999999988764

>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=91.08  E-value=0.12  Score=48.84  Aligned_cols=102  Identities=16%  Similarity=0.209  Sum_probs=52.0

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHhcCChHHHHHHH------HH-HhcCCC---CC---CCCHHHHHHHHHhhccCcceeEE
Q 038234          101 PIKMISIVGMGGIGKITLAQMAYNDKDFRVAKAI------IA-ALGCET---SN---LGSLQSLVRCISESIEGKKYLVV  167 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~~~i------~~-~l~~~~---~~---~~~~~~~~~~l~~~l~~kr~LlV  167 (406)
                      +..+++|+|+.|+|||||++.+...........+      .+ .+....   ..   ..+...+...+...+...+=+|+
T Consensus       135 ~g~~i~ivG~~GsGKTTll~~l~~~~~~~~~g~I~~~e~~~e~~~~~~~~~v~Q~~~g~~~~~~~~~l~~~L~~~pd~il  214 (372)
T 2ewv_A          135 KMGLILVTGPTGSGKSTTIASMIDYINQTKSYHIITIEDPIEYVFKHKKSIVNQREVGEDTKSFADALRAALREDPDVIF  214 (372)
T ss_dssp             SSEEEEEECSSSSSHHHHHHHHHHHHHHHSCCEEEEEESSCCSCCCCSSSEEEEEEBTTTBSCSHHHHHHHTTSCCSEEE
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhhcCcCCCcEEEEecccHhhhhccCceEEEeeecCCCHHHHHHHHHHHhhhCcCEEE
Confidence            3568999999999999999887653221000000      00 000000   00   00111223455666666777888


Q ss_pred             eeCCCCcCccCcchhhhccCCCCCCcEEEEecCChHHHHH
Q 038234          168 LDDVWTDDYTKWEPFQRCSANGQCGNNILVTTHKKTVARM  207 (406)
Q Consensus       168 lDdvw~~~~~~~~~l~~~l~~~~~gs~IivTtR~~~v~~~  207 (406)
                      +|.+.  +......+....   ..|..|+.|+....+...
T Consensus       215 ldE~~--d~e~~~~~l~~~---~~g~~vi~t~H~~~~~~~  249 (372)
T 2ewv_A          215 VGEMR--DLETVETALRAA---ETGHLVFGTLHTNTAIDT  249 (372)
T ss_dssp             ESCCC--SHHHHHHHHHHH---TTTCEEEECCCCCSHHHH
T ss_pred             ECCCC--CHHHHHHHHHHH---hcCCEEEEEECcchHHHH
Confidence            99884  222222222222   235567778777654443

>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=91.07  E-value=0.16  Score=42.74  Aligned_cols=25  Identities=24%  Similarity=0.359  Sum_probs=20.6

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          101 PIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ..--|+|+|.+|+|||||...+...
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            3456899999999999999887653

>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=91.07  E-value=0.12  Score=48.94  Aligned_cols=25  Identities=32%  Similarity=0.383  Sum_probs=21.7

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      ..+++|+|+.|.|||||.+.+..-.
T Consensus        29 Ge~~~llGpsGsGKSTLLr~iaGl~   53 (381)
T 3rlf_A           29 GEFVVFVGPSGCGKSTLLRMIAGLE   53 (381)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CCEEEEEcCCCchHHHHHHHHHcCC
Confidence            4589999999999999999987643

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum}

Probab=91.05  E-value=0.16  Score=42.68  Aligned_cols=24  Identities=17%  Similarity=0.248  Sum_probs=20.6

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      .--|+|+|.+|+|||||...+...
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            456889999999999999888765

>3bh0_A DNAB-like replicative helicase; ATPase, replication; 2.35A {Bacillus phage SPP1}

Probab=91.02  E-value=0.12  Score=47.63  Aligned_cols=25  Identities=20%  Similarity=0.230  Sum_probs=20.8

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhc
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      .+..++.|.|.+|+||||||.+++.
T Consensus        66 ~~G~l~li~G~pG~GKTtl~l~ia~   90 (315)
T 3bh0_A           66 KRRNFVLIAARPSMGKTAFALKQAK   90 (315)
T ss_dssp             CTTCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCCcEEEEEeCCCCCHHHHHHHHHH
Confidence            3456899999999999999977753

>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=91.00  E-value=0.11  Score=45.09  Aligned_cols=22  Identities=23%  Similarity=0.354  Sum_probs=18.6

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcC
Q 038234          104 MISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      -|.|+|.+|+|||+|...+.+.
T Consensus        15 KivlvGd~~VGKTsLi~r~~~~   36 (216)
T 4dkx_A           15 KLVFLGEQSVGKTSLITRFMYD   36 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECcCCcCHHHHHHHHHhC
Confidence            4789999999999999877644

>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=90.99  E-value=0.11  Score=44.47  Aligned_cols=24  Identities=21%  Similarity=0.238  Sum_probs=20.1

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ...|+|+|.+|+|||||...+...
T Consensus         7 ~~ki~vvG~~~~GKTsli~~l~~~   30 (214)
T 2fh5_B            7 QRAVLFVGLCDSGKTLLFVRLLTG   30 (214)
T ss_dssp             -CEEEEECSTTSSHHHHHHHHHHS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            456899999999999999888754

>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=90.97  E-value=0.11  Score=43.63  Aligned_cols=24  Identities=25%  Similarity=0.295  Sum_probs=20.2

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      .--|.|+|.+|+|||||...+...
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            445789999999999999887654

>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=90.96  E-value=0.12  Score=43.95  Aligned_cols=25  Identities=24%  Similarity=0.345  Sum_probs=20.9

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          101 PIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ..--|+|+|.+|+|||||...+...
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            3457899999999999999887654

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens}

Probab=90.96  E-value=0.11  Score=43.85  Aligned_cols=24  Identities=29%  Similarity=0.470  Sum_probs=20.1

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      .--|.|+|.+|+|||||...+...
T Consensus        26 ~~ki~vvG~~~~GKSsLi~~l~~~   49 (192)
T 2il1_A           26 KLQVIIIGSRGVGKTSLMERFTDD   49 (192)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHCC-
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcC
Confidence            445889999999999999998765

>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=90.95  E-value=0.22  Score=47.82  Aligned_cols=23  Identities=26%  Similarity=0.276  Sum_probs=20.0

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhc
Q 038234          102 IKMISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      ..+++|+|+.|.|||||.+.+..
T Consensus       167 ggii~I~GpnGSGKTTlL~allg  189 (418)
T 1p9r_A          167 HGIILVTGPTGSGKSTTLYAGLQ  189 (418)
T ss_dssp             SEEEEEECSTTSCHHHHHHHHHH
T ss_pred             CCeEEEECCCCCCHHHHHHHHHh
Confidence            56899999999999999987643

>3cr8_A Sulfate adenylyltranferase, adenylylsulfate kinase; APS kinase, transferase, sulfate metabolism, nucleotide 2 kinase; 2.95A {Thiobacillus denitrificans}

Probab=90.92  E-value=0.099  Score=52.13  Aligned_cols=25  Identities=28%  Similarity=0.295  Sum_probs=21.4

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          101 PIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      +..++.|+|+.|+|||||++.+...
T Consensus       368 ~G~iI~LiG~sGSGKSTLar~La~~  392 (552)
T 3cr8_A          368 QGFTVFFTGLSGAGKSTLARALAAR  392 (552)
T ss_dssp             SCEEEEEEESSCHHHHHHHHHHHHH
T ss_pred             cceEEEEECCCCChHHHHHHHHHHh
Confidence            3578999999999999999987653

>3upu_A ATP-dependent DNA helicase DDA; RECA-like domain, SH3 domain, PIN-tower interface, coupling hydrolysis to DNA unwinding, ssDNA; 3.30A {Enterobacteria phage T4}

Probab=90.92  E-value=0.1  Score=50.93  Aligned_cols=22  Identities=27%  Similarity=0.466  Sum_probs=19.0

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcC
Q 038234          104 MISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      .+.|.|.+|+|||+++..+...
T Consensus        47 ~~li~G~aGTGKT~ll~~~~~~   68 (459)
T 3upu_A           47 HVTINGPAGTGATTLTKFIIEA   68 (459)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHHHH
Confidence            8899999999999999776543

>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=90.91  E-value=0.14  Score=46.80  Aligned_cols=24  Identities=33%  Similarity=0.437  Sum_probs=21.4

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ...|+|+|.+|+|||||...+...
T Consensus         8 ~~~VaIvG~~nvGKSTLln~L~g~   31 (301)
T 1ega_A            8 CGFIAIVGRPNVGKSTLLNKLLGQ   31 (301)
T ss_dssp             EEEEEEECSSSSSHHHHHHHHHTC
T ss_pred             CCEEEEECCCCCCHHHHHHHHHCC
Confidence            558999999999999999988765

>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=90.89  E-value=0.12  Score=43.28  Aligned_cols=24  Identities=33%  Similarity=0.436  Sum_probs=20.3

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      .-.|+|+|.+|+|||||...+...
T Consensus        15 ~~~i~v~G~~~~GKssli~~l~~~   38 (195)
T 1x3s_A           15 TLKILIIGESGVGKSSLLLRFTDD   38 (195)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHcC
Confidence            346899999999999999888654

>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=90.86  E-value=0.13  Score=48.65  Aligned_cols=24  Identities=25%  Similarity=0.324  Sum_probs=21.2

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ..+++|+|+.|.|||||.+.++.-
T Consensus        37 Ge~~~llGpnGsGKSTLLr~iaGl   60 (372)
T 1v43_A           37 GEFLVLLGPSGCGKTTTLRMIAGL   60 (372)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHTS
T ss_pred             CCEEEEECCCCChHHHHHHHHHcC
Confidence            458999999999999999988764

>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=90.86  E-value=0.18  Score=43.48  Aligned_cols=24  Identities=29%  Similarity=0.458  Sum_probs=20.3

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHhc
Q 038234          101 PIKMISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      ...-|+|+|.+|+|||||...+..
T Consensus        36 ~~~kVvlvG~~~vGKSSLl~r~~~   59 (211)
T 2g3y_A           36 TYYRVVLIGEQGVGKSTLANIFAG   59 (211)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHC
T ss_pred             CceEEEEECCCCCCHHHHHHHHHh
Confidence            345689999999999999988764

>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=90.82  E-value=0.13  Score=43.27  Aligned_cols=24  Identities=33%  Similarity=0.423  Sum_probs=20.5

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      .--|+|+|.+|+|||||...+...
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            446899999999999999888754

>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=90.81  E-value=0.15  Score=47.72  Aligned_cols=25  Identities=16%  Similarity=0.187  Sum_probs=21.5

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhc
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      +...++.|+|.+|+|||+||.+++.
T Consensus       120 ~~G~i~~I~G~~GsGKTtla~~la~  144 (343)
T 1v5w_A          120 ESMAITEAFGEFRTGKTQLSHTLCV  144 (343)
T ss_dssp             CSSEEEEEECCTTCTHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHH
Confidence            4567999999999999999987654

>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=90.80  E-value=0.13  Score=43.82  Aligned_cols=24  Identities=33%  Similarity=0.415  Sum_probs=20.4

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ..-|+|+|.+|+|||||...+...
T Consensus        25 ~~ki~vvG~~~~GKSsli~~l~~~   48 (207)
T 2fv8_A           25 RKKLVVVGDGACGKTCLLIVFSKD   48 (207)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHS
T ss_pred             CcEEEEECcCCCCHHHHHHHHhcC
Confidence            346899999999999999887754

>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=90.78  E-value=0.29  Score=44.79  Aligned_cols=42  Identities=21%  Similarity=0.214  Sum_probs=28.3

Q ss_pred             HHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234           84 KNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus        84 ~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      ++++.+.+..-... ......|+|+|.+|+|||||...+....
T Consensus         7 ~~~l~~~~~~~~~~-~~~~~~I~vvG~~~~GKSTlln~l~g~~   48 (315)
T 1jwy_B            7 INKLQDVFNTLGSD-PLDLPQIVVVGSQSSGKSSVLENIVGRD   48 (315)
T ss_dssp             HHHHHHHTTTSSSC-TTCCCEEEEEECSSSSHHHHHHHHHTSC
T ss_pred             HHHHHHHHHHcCCC-CCCCCeEEEEcCCCCCHHHHHHHHHCCC
Confidence            34455544322111 2456789999999999999999887653

>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=90.75  E-value=0.1  Score=48.97  Aligned_cols=72  Identities=17%  Similarity=0.175  Sum_probs=40.8

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHhcCChH------------HHHHHHHHHhcCCCC-----CCCCHHHHHHHHHhhc-cCc
Q 038234          101 PIKMISIVGMGGIGKITLAQMAYNDKDF------------RVAKAIIAALGCETS-----NLGSLQSLVRCISESI-EGK  162 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~------------~~~~~i~~~l~~~~~-----~~~~~~~~~~~l~~~l-~~k  162 (406)
                      ...++.|.|.+|+||||||.+++.....            .+....+..++....     ...+.+++...+.... .++
T Consensus        62 ~G~ii~I~G~pGsGKTtLal~la~~~~~~g~~vlyid~E~s~~~~~a~~~g~~~~~l~i~~~~~~e~~~~~~~~l~~~~~  141 (356)
T 1u94_A           62 MGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEHALDPIYARKLGVDIDNLLCSQPDTGEQALEICDALARSGA  141 (356)
T ss_dssp             TTSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEESSCCCCHHHHHHTTCCGGGCEEECCSSHHHHHHHHHHHHHHTC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEeCCCCccHHHHHHcCCChhheeeeCCCCHHHHHHHHHHHHhccC
Confidence            4568999999999999999877643211            001112333333211     1223445554444433 245


Q ss_pred             ceeEEeeCCC
Q 038234          163 KYLVVLDDVW  172 (406)
Q Consensus       163 r~LlVlDdvw  172 (406)
                      .-+||+|.+.
T Consensus       142 ~~lVVIDsl~  151 (356)
T 1u94_A          142 VDVIVVDSVA  151 (356)
T ss_dssp             CSEEEEECGG
T ss_pred             CCEEEEcCHH
Confidence            5699999873

>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=90.74  E-value=0.15  Score=44.22  Aligned_cols=24  Identities=21%  Similarity=0.203  Sum_probs=20.8

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ...|.|.|+.|+||||+++.+.+.
T Consensus         6 g~~i~~eG~~gsGKsT~~~~l~~~   29 (213)
T 4edh_A            6 GLFVTLEGPEGAGKSTNRDYLAER   29 (213)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             ceEEEEEcCCCCCHHHHHHHHHHH
Confidence            568999999999999999887554

>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=90.74  E-value=0.13  Score=49.09  Aligned_cols=24  Identities=17%  Similarity=0.133  Sum_probs=20.3

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHh
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAY  123 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~  123 (406)
                      +.-.++.|+|.+|+|||||+..++
T Consensus       176 ~~Gei~~I~G~sGsGKTTLl~~la  199 (400)
T 3lda_A          176 ETGSITELFGEFRTGKSQLCHTLA  199 (400)
T ss_dssp             ETTSEEEEEESTTSSHHHHHHHHH
T ss_pred             CCCcEEEEEcCCCCChHHHHHHHH
Confidence            345699999999999999998653

>3io3_A DEHA2D07832P; chaperone, membrane traffic, ATPase; HET: ADP; 1.80A {Debaryomyces hansenii}

Probab=90.72  E-value=0.14  Score=48.02  Aligned_cols=24  Identities=33%  Similarity=0.509  Sum_probs=20.0

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHh
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAY  123 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~  123 (406)
                      ...+++.+.|.||+||||+|..++
T Consensus        16 ~~~~i~~~~gkGGvGKTt~a~~lA   39 (348)
T 3io3_A           16 DSLKWIFVGGKGGVGKTTTSSSVA   39 (348)
T ss_dssp             TTCSEEEEECSTTSSHHHHHHHHH
T ss_pred             CCcEEEEEeCCCCCcHHHHHHHHH
Confidence            346789999999999999987654

>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=90.69  E-value=0.11  Score=48.74  Aligned_cols=24  Identities=21%  Similarity=0.242  Sum_probs=21.2

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ..+++|+|+.|.|||||.+.++.-
T Consensus        26 Ge~~~llGpnGsGKSTLLr~iaGl   49 (348)
T 3d31_A           26 GEYFVILGPTGAGKTLFLELIAGF   49 (348)
T ss_dssp             TCEEEEECCCTHHHHHHHHHHHTS
T ss_pred             CCEEEEECCCCccHHHHHHHHHcC
Confidence            458999999999999999988764

>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=90.68  E-value=0.14  Score=43.57  Aligned_cols=25  Identities=20%  Similarity=0.283  Sum_probs=21.0

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      .--|+|+|.+|+|||||...+....
T Consensus        29 ~~ki~vvG~~~vGKSsli~~l~~~~   53 (201)
T 2hup_A           29 LFKLVLVGDASVGKTCVVQRFKTGA   53 (201)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHSC
T ss_pred             ceEEEEECcCCCCHHHHHHHHhhCC
Confidence            5568999999999999998886543

>2j0v_A RAC-like GTP-binding protein ARAC7; nucleotide-binding protein, ROP9, atrac7, membrane, palmitate, RHO GTPase; HET: GDP; 1.78A {Arabidopsis thaliana}

Probab=90.67  E-value=0.13  Score=43.96  Aligned_cols=25  Identities=20%  Similarity=0.240  Sum_probs=20.6

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          101 PIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ..--|+|+|.+|+|||||...+...
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            3456899999999999999887644

>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=90.66  E-value=0.17  Score=42.35  Aligned_cols=24  Identities=25%  Similarity=0.308  Sum_probs=20.4

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ..-|+|+|.+|+|||||...+...
T Consensus        20 ~~ki~v~G~~~~GKSsli~~l~~~   43 (189)
T 1z06_A           20 IFKIIVIGDSNVGKTCLTYRFCAG   43 (189)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECCCCCCHHHHHHHHHcC
Confidence            457899999999999999887653

>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=90.64  E-value=0.13  Score=48.61  Aligned_cols=23  Identities=26%  Similarity=0.380  Sum_probs=20.4

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhc
Q 038234          102 IKMISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      ..+++|+|+.|.|||||.+.++.
T Consensus        29 Ge~~~llGpnGsGKSTLLr~iaG   51 (372)
T 1g29_1           29 GEFMILLGPSGCGKTTTLRMIAG   51 (372)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHT
T ss_pred             CCEEEEECCCCcHHHHHHHHHHc
Confidence            45899999999999999998865

>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=90.62  E-value=0.15  Score=43.14  Aligned_cols=25  Identities=16%  Similarity=0.236  Sum_probs=20.9

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          101 PIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ...-|+|+|.+|+|||||...+...
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            3567899999999999999888654

>2gza_A Type IV secretion system protein VIRB11; ATPase, hydrolase; 2.60A {Brucella suis}

Probab=90.55  E-value=0.13  Score=48.44  Aligned_cols=25  Identities=28%  Similarity=0.425  Sum_probs=21.2

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      ..+++|+|..|.|||||++.+....
T Consensus       175 G~~i~ivG~sGsGKSTll~~l~~~~  199 (361)
T 2gza_A          175 ERVIVVAGETGSGKTTLMKALMQEI  199 (361)
T ss_dssp             TCCEEEEESSSSCHHHHHHHHHTTS
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhcC
Confidence            3489999999999999999886653

>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=90.55  E-value=0.14  Score=43.39  Aligned_cols=24  Identities=38%  Similarity=0.427  Sum_probs=20.2

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ..-|+|+|.+|+|||||...+...
T Consensus        25 ~~ki~vvG~~~~GKSsli~~l~~~   48 (201)
T 2gco_A           25 RKKLVIVGDGACGKTCLLIVFSKD   48 (201)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhC
Confidence            346899999999999999887654

>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=90.48  E-value=0.19  Score=44.71  Aligned_cols=25  Identities=24%  Similarity=0.263  Sum_probs=21.2

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          101 PIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ....|+|+|.+|+|||||...+...
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            3567899999999999999888654

>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=90.46  E-value=0.11  Score=43.64  Aligned_cols=24  Identities=17%  Similarity=0.188  Sum_probs=20.5

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      .-.|+|+|.+|+|||||...+...
T Consensus        21 ~~ki~v~G~~~~GKSsli~~l~~~   44 (190)
T 2h57_A           21 EVHVLCLGLDNSGKTTIINKLKPS   44 (190)
T ss_dssp             CEEEEEEECTTSSHHHHHHHTSCG
T ss_pred             ccEEEEECCCCCCHHHHHHHHhcC
Confidence            446889999999999999888765

>1mky_A Probable GTP-binding protein ENGA; GTPase, DER, KH-domain, tandem G-domains, ligand binding protein; HET: GDP; 1.90A {Thermotoga maritima} SCOP: c.37.1.8 c.37.1.8 d.52.5.1

Probab=90.45  E-value=0.32  Score=47.07  Aligned_cols=48  Identities=25%  Similarity=0.295  Sum_probs=32.7

Q ss_pred             cchhhHHHHHHHHhcCCCC-----CCCCcEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234           79 GRDYKKNELLSKLLSDSSD-----QQKPIKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus        79 GR~~~~~~l~~~L~~~~~~-----~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      |.++-++.+.+.+......     ..+....|+|+|.+|+|||||...+....
T Consensus       152 gv~~L~~~i~~~l~~~~~~~~~~~~~~~~~kvaivG~~gvGKSTLln~l~g~~  204 (439)
T 1mky_A          152 NLDTMLETIIKKLEEKGLDLESKPEITDAIKVAIVGRPNVGKSTLFNAILNKE  204 (439)
T ss_dssp             SHHHHHHHHHHHHHHTTCCSSSCCCCCSCEEEEEECSTTSSHHHHHHHHHTST
T ss_pred             CHHHHHHHHHHhcccccccchhccccccCceEEEECCCCCCHHHHHHHHhCCc
Confidence            5566667776666532100     02345678999999999999999887653

>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=90.42  E-value=0.15  Score=48.44  Aligned_cols=24  Identities=25%  Similarity=0.263  Sum_probs=21.2

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ..+++|+|+.|.|||||.+.+..-
T Consensus        47 Ge~~~llGpsGsGKSTLLr~iaGl   70 (390)
T 3gd7_A           47 GQRVGLLGRTGSGKSTLLSAFLRL   70 (390)
T ss_dssp             TCEEEEEESTTSSHHHHHHHHHTC
T ss_pred             CCEEEEECCCCChHHHHHHHHhCC
Confidence            558999999999999999988753

>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=90.42  E-value=0.15  Score=47.07  Aligned_cols=25  Identities=16%  Similarity=0.266  Sum_probs=21.3

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhc
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      +...++.|+|.+|+|||+||.+++.
T Consensus        96 ~~g~i~~i~G~~gsGKT~la~~la~  120 (322)
T 2i1q_A           96 ESQSVTEFAGVFGSGKTQIMHQSCV  120 (322)
T ss_dssp             ETTEEEEEEESTTSSHHHHHHHHHH
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHH
Confidence            4467999999999999999987653

>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=90.33  E-value=0.16  Score=51.24  Aligned_cols=25  Identities=20%  Similarity=0.222  Sum_probs=22.0

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          101 PIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ...+|.|.|++|+||||+|+.+.+.
T Consensus        51 ~g~lIvLtGlsGSGKSTlAr~La~~   75 (630)
T 1x6v_B           51 RGCTVWLTGLSGAGKTTVSMALEEY   75 (630)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCEEEEEeCCCCCHHHHHHHHHHH
Confidence            4678999999999999999888664

>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=90.29  E-value=0.15  Score=43.70  Aligned_cols=24  Identities=21%  Similarity=0.336  Sum_probs=20.5

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      .--|+|+|.+|+|||||...+...
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            456899999999999999888754

>2obl_A ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O127} PDB: 2obm_A*

Probab=90.28  E-value=0.15  Score=47.78  Aligned_cols=27  Identities=33%  Similarity=0.342  Sum_probs=22.8

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHhcCCh
Q 038234          101 PIKMISIVGMGGIGKITLAQMAYNDKD  127 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~~~~~  127 (406)
                      ...+++|+|..|+|||||.+.+.+...
T Consensus        70 ~Gq~~gIiG~nGaGKTTLl~~I~g~~~   96 (347)
T 2obl_A           70 IGQRIGIFAGSGVGKSTLLGMICNGAS   96 (347)
T ss_dssp             TTCEEEEEECTTSSHHHHHHHHHHHSC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCCC
Confidence            356899999999999999998887543

>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=90.26  E-value=0.098  Score=49.10  Aligned_cols=23  Identities=26%  Similarity=0.393  Sum_probs=20.5

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhc
Q 038234          102 IKMISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      ..+++|+|+.|.|||||.+.++-
T Consensus        31 Ge~~~llGpnGsGKSTLLr~iaG   53 (353)
T 1oxx_K           31 GERFGILGPSGAGKTTFMRIIAG   53 (353)
T ss_dssp             TCEEEEECSCHHHHHHHHHHHHT
T ss_pred             CCEEEEECCCCCcHHHHHHHHhC
Confidence            45899999999999999998865

>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=90.26  E-value=0.086  Score=43.79  Aligned_cols=25  Identities=20%  Similarity=0.291  Sum_probs=10.8

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          101 PIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ..--|+|+|.+|+|||||...+.+.
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            3556899999999999999887644

>4dhe_A Probable GTP-binding protein ENGB; melioidosis, RAS-like GTPase, cell division, cell cycle, SEP GTP-binding; 2.20A {Burkholderia thailandensis}

Probab=90.25  E-value=0.12  Score=44.63  Aligned_cols=26  Identities=27%  Similarity=0.281  Sum_probs=21.9

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          101 PIKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      ....|+|+|.+|+|||||...+....
T Consensus        28 ~~~~i~v~G~~~~GKSslin~l~~~~   53 (223)
T 4dhe_A           28 VQPEIAFAGRSNAGKSTAINVLCNQK   53 (223)
T ss_dssp             CSCEEEEEESCHHHHHHHHHHHTTCS
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHhCCC
Confidence            35578999999999999999887653

>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=90.20  E-value=0.13  Score=47.57  Aligned_cols=25  Identities=24%  Similarity=0.226  Sum_probs=20.9

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhc
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      +...++.|+|.+|+|||+||.+++.
T Consensus       105 ~~G~i~~i~G~~GsGKT~la~~la~  129 (324)
T 2z43_A          105 ETRTMTEFFGEFGSGKTQLCHQLSV  129 (324)
T ss_dssp             ETTSEEEEEESTTSSHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHhHHHHHHHH
Confidence            3456899999999999999987753

>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=90.14  E-value=0.16  Score=44.74  Aligned_cols=24  Identities=38%  Similarity=0.504  Sum_probs=20.8

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ...|.|.|..|+||||+++.+.+.
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            468999999999999999887654

>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=90.13  E-value=0.14  Score=43.98  Aligned_cols=24  Identities=25%  Similarity=0.243  Sum_probs=20.1

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      .--|.|+|.+|+|||||...+...
T Consensus        27 ~~ki~vvG~~~vGKSsL~~~l~~~   50 (214)
T 3q3j_B           27 RCKLVLVGDVQCGKTAMLQVLAKD   50 (214)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECcCCCCHHHHHHHHhcC
Confidence            346789999999999999887654

>3bfv_A CAPA1, CAPB2, membrane protein CAPA1, protein tyrosine kinase; chimerical protein, P-loop protein, capsule biogenesis/degradation; HET: ADP; 1.80A {Staphylococcus aureus} PDB: 2ved_A*

Probab=89.98  E-value=0.31  Score=43.82  Aligned_cols=40  Identities=23%  Similarity=0.236  Sum_probs=26.4

Q ss_pred             hhHHHHHHHHhcCCCCCCCCcEEEEEeee-CCCcHHHHHHHHh
Q 038234           82 YKKNELLSKLLSDSSDQQKPIKMISIVGM-GGIGKITLAQMAY  123 (406)
Q Consensus        82 ~~~~~l~~~L~~~~~~~~~~~~vi~I~G~-gGiGKTtLA~~v~  123 (406)
                      +.+..|...|.....  +.+.++|.|+|. ||+||||+|..++
T Consensus        64 Ea~r~lrt~l~~~~~--~~~~kvI~vts~kgG~GKTt~a~nLA  104 (271)
T 3bfv_A           64 EKFRGIRSNIMFANP--DSAVQSIVITSEAPGAGKSTIAANLA  104 (271)
T ss_dssp             HHHHHHHHHHHHSST--TCCCCEEEEECSSTTSSHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhcc--CCCCeEEEEECCCCCCcHHHHHHHHH
Confidence            345555554543221  345789999875 8999999998753

>3cwq_A Para family chromosome partitioning protein; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative; HET: ADP; 2.47A {Synechocystis SP}

Probab=89.96  E-value=0.16  Score=43.72  Aligned_cols=20  Identities=35%  Similarity=0.464  Sum_probs=15.5

Q ss_pred             EEEEe-eeCCCcHHHHHHHHh
Q 038234          104 MISIV-GMGGIGKITLAQMAY  123 (406)
Q Consensus       104 vi~I~-G~gGiGKTtLA~~v~  123 (406)
                      +|+|+ +.||+||||+|..++
T Consensus         2 vI~v~s~KGGvGKTT~a~~LA   22 (209)
T 3cwq_A            2 IITVASFKGGVGKTTTAVHLS   22 (209)
T ss_dssp             EEEEEESSTTSSHHHHHHHHH
T ss_pred             EEEEEcCCCCCcHHHHHHHHH
Confidence            56664 689999999997754

>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=89.93  E-value=0.17  Score=47.53  Aligned_cols=24  Identities=21%  Similarity=0.382  Sum_probs=20.7

Q ss_pred             EEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          103 KMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       103 ~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      .+++|+|.+|+|||||...+....
T Consensus       216 ~~~~lvG~sG~GKSTLln~L~g~~  239 (358)
T 2rcn_A          216 RISIFAGQSGVGKSSLLNALLGLQ  239 (358)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHCCS
T ss_pred             CEEEEECCCCccHHHHHHHHhccc
Confidence            378999999999999999887543

>3hdt_A Putative kinase; structura genomics, PSI-2, protein structure initiative, midwest CENT structural genomics, MCSG; 2.79A {Clostridium symbiosum atcc 14940}

Probab=89.90  E-value=0.21  Score=43.47  Aligned_cols=25  Identities=16%  Similarity=0.082  Sum_probs=22.0

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      ..+|+|.|+.|+||||+|+.+.+..
T Consensus        14 ~~iI~i~g~~gsGk~~i~~~la~~l   38 (223)
T 3hdt_A           14 NLIITIEREYGSGGRIVGKKLAEEL   38 (223)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             CeEEEEeCCCCCCHHHHHHHHHHHc
Confidence            4699999999999999999887653

>3g5u_A MCG1178, multidrug resistance protein 1A; P-glycoprotein, PGP, cyclic peptide, membrane protein; 3.80A {Mus musculus} PDB: 3g61_A* 3g60_A*

Probab=89.85  E-value=0.092  Score=57.97  Aligned_cols=26  Identities=27%  Similarity=0.311  Sum_probs=22.4

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          101 PIKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      +...++|+|..|.|||||++.+....
T Consensus       415 ~G~~~~ivG~sGsGKSTl~~ll~g~~  440 (1284)
T 3g5u_A          415 SGQTVALVGNSGCGKSTTVQLMQRLY  440 (1284)
T ss_dssp             TTCEEEEECCSSSSHHHHHHHTTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            35689999999999999999887654

>2x77_A ADP-ribosylation factor; GTP-binding protein, small GTPase, nucleotide-binding; HET: GDP; 2.10A {Leishmania major}

Probab=89.78  E-value=0.2  Score=41.81  Aligned_cols=25  Identities=12%  Similarity=0.138  Sum_probs=20.9

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          101 PIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      +.-.|+|+|.+|+|||||...+...
T Consensus        21 ~~~~i~v~G~~~~GKssli~~l~~~   45 (189)
T 2x77_A           21 RKIRVLMLGLDNAGKTSILYRLHLG   45 (189)
T ss_dssp             SCEEEEEEEETTSSHHHHHHHTCCS
T ss_pred             CceEEEEECCCCCCHHHHHHHHHcC
Confidence            3556899999999999999988654

>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=89.78  E-value=0.18  Score=46.83  Aligned_cols=24  Identities=29%  Similarity=0.479  Sum_probs=19.6

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHh
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAY  123 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~  123 (406)
                      ...+++.+.|.||+||||+|..++
T Consensus        14 ~~~~i~~~sgkGGvGKTt~a~~lA   37 (334)
T 3iqw_A           14 RSLRWIFVGGKGGVGKTTTSCSLA   37 (334)
T ss_dssp             TTCCEEEEECSTTSSHHHHHHHHH
T ss_pred             CCeEEEEEeCCCCccHHHHHHHHH
Confidence            346788899999999999997654

>3v9p_A DTMP kinase, thymidylate kinase; ssgcid, STRU genomics, seattle structural genomics center for infectious transferase; 1.90A {Burkholderia thailandensis}

Probab=89.69  E-value=0.13  Score=45.00  Aligned_cols=25  Identities=32%  Similarity=0.364  Sum_probs=18.5

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      ...|.|.|+.|+||||+++.+.+..
T Consensus        25 g~~I~~eG~~GsGKsT~~~~l~~~l   49 (227)
T 3v9p_A           25 GKFITFEGIDGAGKTTHLQWFCDRL   49 (227)
T ss_dssp             CCEEEEECCC---CHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH
Confidence            4689999999999999999886553

>2j9r_A Thymidine kinase; TK1, DNK, lasso, transferase, ATP-binding, deoxyribonucleoside kinase, DNA synthesis, phosphate accept nucleotide-binding; HET: THM; 2.7A {Bacillus anthracis} PDB: 2ja1_A*

Probab=89.67  E-value=0.19  Score=43.34  Aligned_cols=94  Identities=17%  Similarity=0.103  Sum_probs=48.3

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHhcCChH--------------HH-HHHHHHHhcCCCC--CCCCHHHHHHHHHhhccCcc
Q 038234          101 PIKMISIVGMGGIGKITLAQMAYNDKDF--------------RV-AKAIIAALGCETS--NLGSLQSLVRCISESIEGKK  163 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~--------------~~-~~~i~~~l~~~~~--~~~~~~~~~~~l~~~l~~kr  163 (406)
                      ...+..++|.-|.||||.+.....+...              +. ...+...++....  ...+..    .+.+.+.++-
T Consensus        27 ~G~l~vitG~MgsGKTT~lL~~a~r~~~~g~kVli~k~~~d~R~ge~~i~s~~g~~~~a~~~~~~~----~~~~~~~~~~  102 (214)
T 2j9r_A           27 NGWIEVICGSMFSGKSEELIRRVRRTQFAKQHAIVFKPCIDNRYSEEDVVSHNGLKVKAVPVSASK----DIFKHITEEM  102 (214)
T ss_dssp             SCEEEEEECSTTSCHHHHHHHHHHHHHHTTCCEEEEECC-----------------CCEEECSSGG----GGGGGCCSSC
T ss_pred             CCEEEEEECCCCCcHHHHHHHHHHHHHHCCCEEEEEEeccCCcchHHHHHhhcCCeeEEeecCCHH----HHHHHHhcCC
Confidence            3578899999999999988666554332              11 1123333322211  011111    2233333333


Q ss_pred             eeEEeeCCCCcCccCcchhhhccCCCCCCcEEEEecCC
Q 038234          164 YLVVLDDVWTDDYTKWEPFQRCSANGQCGNNILVTTHK  201 (406)
Q Consensus       164 ~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTtR~  201 (406)
                      =+|++|.+..-+.+..+.+....+   .|-.||+|-++
T Consensus       103 dvViIDEaQF~~~~~V~~l~~l~~---~~~~Vi~~Gl~  137 (214)
T 2j9r_A          103 DVIAIDEVQFFDGDIVEVVQVLAN---RGYRVIVAGLD  137 (214)
T ss_dssp             CEEEECCGGGSCTTHHHHHHHHHH---TTCEEEEEECS
T ss_pred             CEEEEECcccCCHHHHHHHHHHhh---CCCEEEEEecc
Confidence            499999996654444444433222   26689999985

>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=89.66  E-value=0.18  Score=42.26  Aligned_cols=21  Identities=29%  Similarity=0.292  Sum_probs=18.6

Q ss_pred             EEEeeeCCCcHHHHHHHHhcC
Q 038234          105 ISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       105 i~I~G~gGiGKTtLA~~v~~~  125 (406)
                      +.|+|.+|+|||++|.++...
T Consensus         2 ilV~Gg~~SGKS~~A~~la~~   22 (180)
T 1c9k_A            2 ILVTGGARSGKSRHAEALIGD   22 (180)
T ss_dssp             EEEEECTTSSHHHHHHHHHCS
T ss_pred             EEEECCCCCcHHHHHHHHHhc
Confidence            679999999999999988754

>2gks_A Bifunctional SAT/APS kinase; transferase, sulfurylase; HET: ADP; 2.31A {Aquifex aeolicus}

Probab=89.50  E-value=0.25  Score=49.26  Aligned_cols=25  Identities=20%  Similarity=0.171  Sum_probs=21.6

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          101 PIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ...+|.+.|++|+||||+|+.+.+.
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            3578999999999999999888664

>3tmk_A Thymidylate kinase; phosphotransferase; HET: T5A; 2.00A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 2tmk_A* 1tmk_A*

Probab=89.48  E-value=0.21  Score=43.27  Aligned_cols=25  Identities=32%  Similarity=0.441  Sum_probs=21.2

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      ...|.+.|..|+||||+++.+.+..
T Consensus         5 g~~i~~eG~~g~GKst~~~~l~~~l   29 (216)
T 3tmk_A            5 GKLILIEGLDRTGKTTQCNILYKKL   29 (216)
T ss_dssp             CCEEEEEECSSSSHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            4589999999999999998876643

>2oze_A ORF delta'; para, walker type atpases, DNA segregation, PSM19035, plasmid, DNA binding protein; HET: AGS EPE; 1.83A {Streptococcus pyogenes}

Probab=89.43  E-value=0.19  Score=45.69  Aligned_cols=22  Identities=36%  Similarity=0.528  Sum_probs=17.1

Q ss_pred             cEEEEEee---eCCCcHHHHHHHHh
Q 038234          102 IKMISIVG---MGGIGKITLAQMAY  123 (406)
Q Consensus       102 ~~vi~I~G---~gGiGKTtLA~~v~  123 (406)
                      .++|+|++   -||+||||+|..++
T Consensus        34 ~~~i~v~~~s~KGGvGKTT~a~nLA   58 (298)
T 2oze_A           34 NEAIVILNNYFKGGVGKSKLSTMFA   58 (298)
T ss_dssp             CSCEEEEECCSSSSSSHHHHHHHHH
T ss_pred             CcEEEEEeccCCCCchHHHHHHHHH
Confidence            34667765   99999999997764

>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=89.39  E-value=0.15  Score=47.43  Aligned_cols=24  Identities=25%  Similarity=0.231  Sum_probs=21.1

Q ss_pred             EEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          103 KMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       103 ~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      ..++|+|..|.|||||++.+....
T Consensus       172 ~~v~i~G~~GsGKTTll~~l~g~~  195 (330)
T 2pt7_A          172 KNVIVCGGTGSGKTTYIKSIMEFI  195 (330)
T ss_dssp             CCEEEEESTTSCHHHHHHHGGGGS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC
Confidence            479999999999999999887654

>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=89.34  E-value=0.17  Score=48.68  Aligned_cols=21  Identities=43%  Similarity=0.618  Sum_probs=19.7

Q ss_pred             EEEeeeCCCcHHHHHHHHhcC
Q 038234          105 ISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       105 i~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ++|+|..|+|||||.+.++..
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            999999999999999998875

>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=89.29  E-value=0.24  Score=44.58  Aligned_cols=24  Identities=21%  Similarity=0.376  Sum_probs=21.0

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ...|+++|.+|+|||||...+...
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            356899999999999999998764

>2r6a_A DNAB helicase, replicative helicase; replication, DNAB; 2.90A {Geobacillus stearothermophilus} PDB: 2r6c_A 2r6d_A 2r6e_A 2vyf_A 2vye_A

Probab=89.26  E-value=0.2  Score=48.74  Aligned_cols=25  Identities=16%  Similarity=0.229  Sum_probs=20.8

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          101 PIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      +..++.|.|.+|+||||||..++..
T Consensus       202 ~G~liiI~G~pG~GKTtl~l~ia~~  226 (454)
T 2r6a_A          202 RSDLIIVAARPSVGKTAFALNIAQN  226 (454)
T ss_dssp             TTCEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHH
Confidence            3568999999999999999876543

>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=89.25  E-value=0.23  Score=45.44  Aligned_cols=24  Identities=29%  Similarity=0.356  Sum_probs=21.0

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ...|+|+|.+|+|||||...+...
T Consensus         7 ~g~V~ivG~~nvGKSTLln~l~g~   30 (301)
T 1wf3_A            7 SGFVAIVGKPNVGKSTLLNNLLGV   30 (301)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            457999999999999999988765

>2fz4_A DNA repair protein RAD25; RECA-like domain, DNA damage recognition domain, DNA binding; HET: DNA; 2.40A {Archaeoglobus fulgidus} SCOP: c.37.1.19

Probab=89.20  E-value=1.1  Score=39.24  Aligned_cols=91  Identities=20%  Similarity=0.184  Sum_probs=47.5

Q ss_pred             EEEeeeCCCcHHHHHHHHhcCChH---------HHHHHHHHHhcC---C-C-------CC-----CCCHHHHHHHHHhhc
Q 038234          105 ISIVGMGGIGKITLAQMAYNDKDF---------RVAKAIIAALGC---E-T-------SN-----LGSLQSLVRCISESI  159 (406)
Q Consensus       105 i~I~G~gGiGKTtLA~~v~~~~~~---------~~~~~i~~~l~~---~-~-------~~-----~~~~~~~~~~l~~~l  159 (406)
                      +.|+|..|.|||.+|..+......         .+..+....+..   . .       ..     ....+.+..... .+
T Consensus       111 ~ll~~~tG~GKT~~a~~~~~~~~~~~liv~P~~~L~~q~~~~~~~~~~~~v~~~~g~~~~~~~i~v~T~~~l~~~~~-~~  189 (237)
T 2fz4_A          111 GCIVLPTGSGKTHVAMAAINELSTPTLIVVPTLALAEQWKERLGIFGEEYVGEFSGRIKELKPLTVSTYDSAYVNAE-KL  189 (237)
T ss_dssp             EEEEESSSTTHHHHHHHHHHHSCSCEEEEESSHHHHHHHHHHHGGGCGGGEEEESSSCBCCCSEEEEEHHHHHHTHH-HH
T ss_pred             EEEEeCCCCCHHHHHHHHHHHcCCCEEEEeCCHHHHHHHHHHHHhCCCCeEEEEeCCCCCcCCEEEEeHHHHHhhHH-Hh
Confidence            778999999999999766544321         333333333221   1 0       00     011233333222 22


Q ss_pred             cCcceeEEeeCCCCcCccCcchhhhccCCCCCCcEEEEec
Q 038234          160 EGKKYLVVLDDVWTDDYTKWEPFQRCSANGQCGNNILVTT  199 (406)
Q Consensus       160 ~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTt  199 (406)
                      .++--+||+|.++......+..+...++   ...++++|.
T Consensus       190 ~~~~~llIiDEaH~l~~~~~~~i~~~~~---~~~~l~LSA  226 (237)
T 2fz4_A          190 GNRFMLLIFDEVHHLPAESYVQIAQMSI---APFRLGLTA  226 (237)
T ss_dssp             TTTCSEEEEECSSCCCTTTHHHHHHTCC---CSEEEEEEE
T ss_pred             cccCCEEEEECCccCCChHHHHHHHhcc---CCEEEEEec
Confidence            3445699999997655445555555443   233455553

>3cpj_B GTP-binding protein YPT31/YPT8; RAB GTPase, prenylation, vesicular transport, acetylation, golgi apparatus, lipoprotein, membrane; HET: GDP; 2.35A {Saccharomyces cerevisiae}

Probab=89.17  E-value=0.19  Score=43.40  Aligned_cols=24  Identities=25%  Similarity=0.408  Sum_probs=20.6

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      .--|+|+|.+|+|||||...+...
T Consensus        13 ~~ki~v~G~~~vGKSsli~~l~~~   36 (223)
T 3cpj_B           13 LFKIVLIGDSGVGKSNLLSRFTKN   36 (223)
T ss_dssp             EEEEEEESCTTSSHHHHHHHHHHC
T ss_pred             eeEEEEECcCCCCHHHHHHHHhcC
Confidence            456899999999999999887654

>3ug7_A Arsenical pump-driving ATPase; tail-anchored, membrane protein, targeting factor, ATP-bindi TRC40, ARSA, nucleotide-binding; HET: ADP; 2.90A {Methanocaldococcus jannaschii} PDB: 3ug6_A*

Probab=89.15  E-value=0.26  Score=46.16  Aligned_cols=24  Identities=33%  Similarity=0.479  Sum_probs=18.8

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHh
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAY  123 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~  123 (406)
                      +...++.+.|.||+||||+|..++
T Consensus        24 ~~~~i~v~sgKGGvGKTTvA~~LA   47 (349)
T 3ug7_A           24 DGTKYIMFGGKGGVGKTTMSAATG   47 (349)
T ss_dssp             CSCEEEEEECSSSTTHHHHHHHHH
T ss_pred             CCCEEEEEeCCCCccHHHHHHHHH
Confidence            345666778999999999997753

>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=89.15  E-value=0.2  Score=48.15  Aligned_cols=22  Identities=32%  Similarity=0.557  Sum_probs=19.4

Q ss_pred             EEEeeeCCCcHHHHHHHHhcCC
Q 038234          105 ISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       105 i~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      |+|+|..|+|||||...++...
T Consensus        34 I~lvG~sGaGKSTLln~L~g~~   55 (418)
T 2qag_C           34 LMVVGESGLGKSTLINSLFLTD   55 (418)
T ss_dssp             EEEECCTTSSHHHHHHHHTTCC
T ss_pred             EEEECCCCCcHHHHHHHHhCCC
Confidence            5999999999999999988653

>1byi_A Dethiobiotin synthase; biotin synthesis, cyclo-ligase, ligase; 0.97A {Escherichia coli} SCOP: c.37.1.10 PDB: 1bs1_A* 1a82_A 1dad_A* 1dae_A* 1daf_A* 1dag_A* 1dah_A* 1dai_A* 1dak_A* 1dam_A* 1dbs_A 1dts_A

Probab=89.11  E-value=0.25  Score=42.65  Aligned_cols=21  Identities=19%  Similarity=0.210  Sum_probs=16.8

Q ss_pred             EEEEEeee-CCCcHHHHHHHHh
Q 038234          103 KMISIVGM-GGIGKITLAQMAY  123 (406)
Q Consensus       103 ~vi~I~G~-gGiGKTtLA~~v~  123 (406)
                      ++|.|.|. ||+||||+|..++
T Consensus         2 k~I~v~s~kgGvGKTt~a~nLa   23 (224)
T 1byi_A            2 KRYFVTGTDTEVGKTVASCALL   23 (224)
T ss_dssp             EEEEEEESSTTSCHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHH
Confidence            47888885 8999999997753

>3ez2_A Plasmid partition protein A; type IA, DNA binding, winged-HTH, DNA bindin; HET: ADP EPE; 2.05A {Escherichia coli} PDB: 3ez6_A* 3ez7_A

Probab=89.11  E-value=0.23  Score=47.27  Aligned_cols=25  Identities=20%  Similarity=0.089  Sum_probs=19.5

Q ss_pred             CCCcEEEEEe-eeCCCcHHHHHHHHh
Q 038234           99 QKPIKMISIV-GMGGIGKITLAQMAY  123 (406)
Q Consensus        99 ~~~~~vi~I~-G~gGiGKTtLA~~v~  123 (406)
                      ....++|+|+ |-||+||||+|..++
T Consensus       105 ~~~~~vIav~s~KGGvGKTT~a~nLA  130 (398)
T 3ez2_A          105 YSEAYVIFISNLKGGVSKTVSTVSLA  130 (398)
T ss_dssp             CCSCEEEEECCSSSSSSHHHHHHHHH
T ss_pred             CCCCeEEEEEeCCCCccHHHHHHHHH
Confidence            3457788887 789999999886653

>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=89.08  E-value=0.23  Score=44.30  Aligned_cols=23  Identities=26%  Similarity=0.258  Sum_probs=20.2

Q ss_pred             EEEEEeeeCCCcHHHHHHHHhcC
Q 038234          103 KMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       103 ~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      +.|+++|.+|+|||||...+...
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            36899999999999999988765

>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=89.01  E-value=0.27  Score=39.82  Aligned_cols=22  Identities=27%  Similarity=0.356  Sum_probs=18.6

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHh
Q 038234          102 IKMISIVGMGGIGKITLAQMAY  123 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~  123 (406)
                      ..+.+|+|+.|.|||||..+++
T Consensus        23 ~g~~~I~G~NGsGKStil~Ai~   44 (149)
T 1f2t_A           23 EGINLIIGQNGSGKSSLLDAIL   44 (149)
T ss_dssp             SEEEEEECCTTSSHHHHHHHHH
T ss_pred             CCeEEEECCCCCCHHHHHHHHH
Confidence            3478999999999999987764

>1fx0_B ATP synthase beta chain; latent ATPase, thermal stability, potential tentoxin binding hydrolase; 3.20A {Spinacia oleracea} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB: 1kmh_B*

Probab=89.01  E-value=0.64  Score=45.25  Aligned_cols=35  Identities=23%  Similarity=0.287  Sum_probs=25.6

Q ss_pred             HHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234           86 ELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus        86 ~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      +.++.|..-.     .-..++|.|.+|+|||+|+..+.+.
T Consensus       154 rvID~l~pig-----kGqr~gIfgg~GvGKT~L~~~l~~~  188 (498)
T 1fx0_B          154 KVVNLLAPYR-----RGGKIGLFGGAGVGKTVLIMELINN  188 (498)
T ss_dssp             TTHHHHSCCC-----TTCCEEEEECSSSSHHHHHHHHHHH
T ss_pred             eEeeeecccc-----cCCeEEeecCCCCCchHHHHHHHHH
Confidence            3466665542     3457899999999999999776653

>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=89.00  E-value=0.22  Score=46.91  Aligned_cols=26  Identities=31%  Similarity=0.282  Sum_probs=21.7

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          101 PIKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      +.++|+|+|.+|+|||||...+....
T Consensus       178 ~~~~V~lvG~~naGKSTLln~L~~~~  203 (364)
T 2qtf_A          178 NIPSIGIVGYTNSGKTSLFNSLTGLT  203 (364)
T ss_dssp             -CCEEEEECBTTSSHHHHHHHHHCC-
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHCCC
Confidence            46679999999999999999988663

>1dek_A Deoxynucleoside monophosphate kinase; transferase, phosphotransferase; HET: DGP; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1 PDB: 1del_A*

Probab=88.96  E-value=0.24  Score=43.73  Aligned_cols=22  Identities=32%  Similarity=0.385  Sum_probs=19.8

Q ss_pred             EEEEEeeeCCCcHHHHHHHHhc
Q 038234          103 KMISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus       103 ~vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      .+|+|+|+.|+||||+|+.+..
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            4799999999999999988765

>4tmk_A Protein (thymidylate kinase); ATP:DTMP phosphotransferase, transferase; HET: T5A; 1.98A {Escherichia coli} SCOP: c.37.1.1 PDB: 5tmp_A*

Probab=88.90  E-value=0.23  Score=42.93  Aligned_cols=23  Identities=35%  Similarity=0.502  Sum_probs=20.1

Q ss_pred             EEEEEeeeCCCcHHHHHHHHhcC
Q 038234          103 KMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       103 ~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ..|.+.|..|+||||+++.+.+.
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            57899999999999999887654

>3cio_A ETK, tyrosine-protein kinase ETK; WZC, escherichia coli tyrosine kinase domain, signaling protein, transferase, inner membrane, membrane; 2.50A {Escherichia coli}

Probab=88.84  E-value=0.34  Score=44.20  Aligned_cols=24  Identities=17%  Similarity=0.199  Sum_probs=19.6

Q ss_pred             CCcEEEEEeee-CCCcHHHHHHHHh
Q 038234          100 KPIKMISIVGM-GGIGKITLAQMAY  123 (406)
Q Consensus       100 ~~~~vi~I~G~-gGiGKTtLA~~v~  123 (406)
                      .+.++|.|+|. ||+||||+|..++
T Consensus       102 ~~~kvI~vts~kgG~GKTtva~nLA  126 (299)
T 3cio_A          102 TENNILMITGATPDSGKTFVSSTLA  126 (299)
T ss_dssp             CSCCEEEEEESSSSSCHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCChHHHHHHHH
Confidence            45679999985 8999999998753

>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=88.82  E-value=0.26  Score=43.93  Aligned_cols=24  Identities=17%  Similarity=0.332  Sum_probs=20.8

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ...|+++|.+|+|||||...+...
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            456899999999999999988764

>3t5d_A Septin-7; GTP-binding protein, cytoskeleton, signaling protein; HET: GDP; 3.30A {Homo sapiens} PDB: 3tw4_A*

Probab=88.81  E-value=0.21  Score=44.84  Aligned_cols=24  Identities=29%  Similarity=0.457  Sum_probs=20.5

Q ss_pred             EEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          103 KMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       103 ~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      --|+|+|.+|+|||||...++...
T Consensus         9 ~~I~vvG~~g~GKSTLin~L~~~~   32 (274)
T 3t5d_A            9 FTLMVVGESGLGKSTLINSLFLTD   32 (274)
T ss_dssp             EEEEEEECTTSSHHHHHHHHSSSC
T ss_pred             EEEEEECCCCCCHHHHHHHHhCCC
Confidence            458999999999999999877654

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=88.79  E-value=0.41  Score=54.53  Aligned_cols=72  Identities=18%  Similarity=0.197  Sum_probs=43.1

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhcCChH------------HHHHHHHHHhcCCC-----CCCCCHHHHHHHHHhhc-cC
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYNDKDF------------RVAKAIIAALGCET-----SNLGSLQSLVRCISESI-EG  161 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~------------~~~~~i~~~l~~~~-----~~~~~~~~~~~~l~~~l-~~  161 (406)
                      ++.+.+.|+|++|+|||+||.++......            .+....+..++.+.     ......+.....++... ..
T Consensus      1425 ~~g~~vll~GppGtGKT~LA~ala~ea~~~G~~v~Fi~~e~~~~~l~a~~~G~dl~~l~v~~~~~~E~~l~~~~~lvr~~ 1504 (2050)
T 3cmu_A         1425 PMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEHALDPIYARKLGVDIDNLLCSQPDTGEQALEICDALARSG 1504 (2050)
T ss_dssp             ETTSEEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEECTTSCCCHHHHHHTTCCTTTCEEECCSSHHHHHHHHHHHHHHT
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEEcccccCHHHHHHcCCCchhceeecCChHHHHHHHHHHHHhcC
Confidence            44679999999999999999877543211            00111144444221     12233445555555543 35


Q ss_pred             cceeEEeeCC
Q 038234          162 KKYLVVLDDV  171 (406)
Q Consensus       162 kr~LlVlDdv  171 (406)
                      +.-+||+|.+
T Consensus      1505 ~~~lVVIDsi 1514 (2050)
T 3cmu_A         1505 AVDVIVVDSV 1514 (2050)
T ss_dssp             CCSEEEESCG
T ss_pred             CCCEEEEcCh
Confidence            6789999998

>2dpy_A FLII, flagellum-specific ATP synthase; beta barrel, alpha-beta structure, hydrolase; HET: ADP; 2.40A {Salmonella typhimurium}

Probab=88.74  E-value=0.21  Score=48.33  Aligned_cols=26  Identities=19%  Similarity=0.208  Sum_probs=22.5

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          101 PIKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      .-.+++|+|..|+|||||.+.+....
T Consensus       156 ~Gq~~~IvG~sGsGKSTLl~~Iag~~  181 (438)
T 2dpy_A          156 RGQRMGLFAGSGVGKSVLLGMMARYT  181 (438)
T ss_dssp             TTCEEEEEECTTSSHHHHHHHHHHHS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhccc
Confidence            35689999999999999999887754

>2npi_A Protein CLP1; CLP1-PCF11 complex, ATP binding, ternary complex, transcript; HET: ATP; 2.95A {Saccharomyces cerevisiae}

Probab=88.72  E-value=0.19  Score=48.92  Aligned_cols=25  Identities=24%  Similarity=0.232  Sum_probs=21.8

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      ..+++|+|..|+|||||++.++.-.
T Consensus       138 Ge~v~IvGpnGsGKSTLlr~L~Gl~  162 (460)
T 2npi_A          138 GPRVVIVGGSQTGKTSLSRTLCSYA  162 (460)
T ss_dssp             CCCEEEEESTTSSHHHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCcc
Confidence            4589999999999999999887654

---

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	406
d2a5yb3	277	c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenor	2e-26

>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 =  104 bits (261), Expect = 2e-26
 Identities = 38/270 (14%), Positives = 75/270 (27%), Gaps = 57/270 (21%)

Query: 73  DESEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDFRVAK 132
            +     R+Y  + ++ KL             + + G  G GK  +A  A +  D  +  
Sbjct: 18  KQMTCYIREYHVDRVIKKLDEMCDL---DSFFLFLHGRAGSGKSVIASQALSKSDQLIGI 74

Query: 133 A------------------------IIAALGCETS-------NLGSLQSLVRCISESIEG 161
                                    ++     +         ++ S+       +  I+ 
Sbjct: 75  NYDSIVWLKDSGTAPKSTFDLFTDILLMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDR 134

Query: 162 KKYLVVLDDVWTDDYTKWEPFQRCSANGQCGNNILVTTHKKTVARMMEST-NFISIKELS 220
              L V DDV  ++  +W    R           LVTT    ++     T  FI +  L 
Sbjct: 135 PNTLFVFDDVVQEETIRWAQELRL--------RCLVTTRDVEISNAASQTCEFIEVTSLE 186

Query: 221 TQECWSLFKQESSAKPCL---------LLQKLLGVSCALK----ELEMSGKNSLDSELWQ 267
             EC+   +      P            ++   G    L       E      +     +
Sbjct: 187 IDECYDFLEAYGMPMPVGEKEEDVLNKTIELSSGNPATLMMFFKSCEPKTFEKMAQLNNK 246

Query: 268 LQ-ELEKDLFSLLLLNYYDLPYRIKQCFRY 296
           L+      +  +   +Y  L   +++C   
Sbjct: 247 LESRGLVGVECITPYSYKSLAMALQRCVEV 276

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	406
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	100.0
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	98.87
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	98.71
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	98.67
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	98.63
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	98.48
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	98.47
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	98.46
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	98.45
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	98.43
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	98.37
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	98.28
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	98.26
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	98.2
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	98.04
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	98.0
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	97.99
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	97.93
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	97.83
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	97.75
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	97.71
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	97.68
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	97.4
d2gnoa2	198	gamma subunit of DNA polymerase III, N-domain {The	97.32
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	97.11
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	97.08
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	97.03
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	96.94
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	96.93
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	96.92
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	96.92
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	96.85
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	96.81
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	96.77
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	96.73
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	96.71
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	96.68
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	96.65
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	96.65
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	96.64
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	96.6
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	96.59
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	96.56
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	96.55
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	96.54
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	96.46
d2qy9a2	211	GTPase domain of the signal recognition particle r	96.45
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	96.41
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	96.37
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	96.37
d1j8yf2	211	GTPase domain of the signal sequence recognition p	96.32
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	96.28
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	96.23
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	96.22
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	96.21
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	96.2
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	96.19
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	96.19
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	96.16
d1ls1a2	207	GTPase domain of the signal sequence recognition p	96.16
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	96.15
d2awna2	232	Maltose transport protein MalK, N-terminal domain	96.14
d1vmaa2	213	GTPase domain of the signal recognition particle r	96.09
d1okkd2	207	GTPase domain of the signal recognition particle r	96.04
d1g2912	240	Maltose transport protein MalK, N-terminal domain	96.03
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	95.99
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	95.95
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	95.94
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	95.91
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	95.91
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	95.87
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	95.85
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	95.85
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	95.84
d1cp2a_	269	Nitrogenase iron protein {Clostridium pasteurianum	95.84
d1ihua2	279	Arsenite-translocating ATPase ArsA {Escherichia co	95.83
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	95.82
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	95.76
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	95.72
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	95.7
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	95.69
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	95.62
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	95.59
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	95.58
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	95.55
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	95.53
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	95.45
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	95.36
d2afhe1	289	Nitrogenase iron protein {Azotobacter vinelandii [	95.34
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	95.33
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	95.33
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	95.31
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	95.25
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	95.22
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	95.2
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	95.08
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	95.08
d1ihua1	296	Arsenite-translocating ATPase ArsA {Escherichia co	95.0
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	94.92
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	94.9
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	94.8
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	94.79
d1ny5a2	247	Transcriptional activator sigm54 (NtrC1), C-termin	94.58
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	94.53
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	94.45
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	94.33
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	94.3
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	94.28
d1xpua3	289	Transcription termination factor Rho, ATPase domai	94.27
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	94.13
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	94.05
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	93.97
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	93.93
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	93.93
d2jdid3	276	Central domain of beta subunit of F1 ATP synthase	93.9
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	93.86
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	93.85
d1hyqa_	232	Cell division regulator MinD {Archaeon Archaeoglob	93.83
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	93.82
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	93.81
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	93.75
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	93.66
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	93.62
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	93.59
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	93.59
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	93.56
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	93.53
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	93.52
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	93.52
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	93.5
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	93.46
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	93.41
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	93.38
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	93.35
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	93.33
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	93.32
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	93.32
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	93.31
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	93.27
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	93.22
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	93.2
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	93.16
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	93.16
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	93.14
d1g3qa_	237	Cell division regulator MinD {Archaeon Pyrococcus	93.14
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	93.1
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	93.1
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	93.09
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	93.08
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	93.05
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	93.02
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	93.0
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	92.96
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	92.96
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	92.96
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	92.93
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	92.91
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	92.85
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	92.85
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	92.75
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	92.72
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	92.71
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	92.69
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	92.68
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	92.64
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	92.59
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	92.53
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	92.51
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	92.5
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	92.5
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	92.5
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	92.49
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	92.43
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	92.41
d1nrjb_	209	Signal recognition particle receptor beta-subunit	92.41
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	92.37
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	92.33
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	92.33
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	92.28
d2fh5b1	207	Signal recognition particle receptor beta-subunit	92.2
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	92.2
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	92.16
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	92.16
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	92.14
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	92.12
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	92.11
d1deka_	241	Deoxynucleoside monophosphate kinase {Bacteriophag	92.0
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	91.94
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	91.87
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	91.87
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	91.81
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	91.81
d1tmka_	214	Thymidylate kinase {Baker's yeast (Saccharomyces c	91.74
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	91.7
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	91.7
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	91.68
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	91.58
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	91.52
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	91.52
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	91.52
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	91.48
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	91.42
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	91.42
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	91.32
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	91.22
d1byia_	224	Dethiobiotin synthetase {Escherichia coli [TaxId:	91.18
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	91.18
d1knxa2	177	HPr kinase HprK C-terminal domain {Mycoplasma pneu	91.09
d1kkma_	176	HPr kinase HprK C-terminal domain {Lactobacillus c	91.03
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	90.98
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	90.75
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	90.55
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	90.46
d1ko7a2	169	HPr kinase HprK C-terminal domain {Staphylococcus	90.17
d1fx0a3	276	Central domain of alpha subunit of F1 ATP synthase	89.77
d2jdia3	285	Central domain of alpha subunit of F1 ATP synthase	89.37
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	88.56
d1w36d1	359	Exodeoxyribonuclease V alpha chain (RecD) {Escheri	87.98
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	87.94
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	87.05
d1tuea_	205	Replication protein E1 helicase domain {Human papi	86.88
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	86.76
d1f5na2	277	Interferon-induced guanylate-binding protein 1 (GB	86.59
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	86.33
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	85.98
d1ewqa2	224	DNA repair protein MutS, the C-terminal domain {Th	85.96
d1p6xa_	333	Thymidine kinase {Equine herpesvirus type 4 [TaxId	85.34
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	84.91
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	84.53
d1e2ka_	329	Thymidine kinase {Herpes simplex virus type 1, dif	84.43
d1wb9a2	234	DNA repair protein MutS, the C-terminal domain {Es	84.39
d1u0ja_	267	Rep 40 protein helicase domain {Adeno-associated v	83.3
d1g7sa4	227	Initiation factor IF2/eIF5b, N-terminal (G) domain	82.53
g1ii8.1	369	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	82.01
d1p9ra_	401	Extracellular secretion NTPase EpsE {Vibrio choler	81.46
d1jala1	278	YchF GTP-binding protein N-terminal domain {Haemop	81.22
d1osna_	331	Thymidine kinase {Varicella-zoster virus [TaxId: 1	81.16
d1n0ua2	341	Elongation factor 2 (eEF-2), N-terminal (G) domain	80.65
d1puja_	273	Probable GTPase YlqF {Bacillus subtilis [TaxId: 14	80.54
d1uaaa1	306	DEXX box DNA helicase {Escherichia coli, RepD [Tax	80.52
d1pjra1	318	DEXX box DNA helicase {Bacillus stearothermophilus	80.3

>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=100.00  E-value=1.3e-34  Score=266.02  Aligned_cols=210  Identities=16%  Similarity=0.172  Sum_probs=158.3

Q ss_pred             CCCceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChH---------------------HH-
Q 038234           73 DESEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDF---------------------RV-  130 (406)
Q Consensus        73 ~~~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~---------------------~~-  130 (406)
                      .++.++||+.++++|+++|....   +...++|+|+||||+||||||+++|++...                     .+ 
T Consensus        18 ~~~~~~gR~~~~~~i~~~L~~~~---~~~~~~v~I~GmgGiGKTtLA~~v~~~~~~~~~~~f~~~~Wv~vs~~~~~~~l~   94 (277)
T d2a5yb3          18 KQMTCYIREYHVDRVIKKLDEMC---DLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGTAPKSTFD   94 (277)
T ss_dssp             CCCCSCCCHHHHHHHHHHHHHHT---TSSSEEEEEECSTTSSHHHHHHHHHHHCSSTBTTTBSEEEEEECCCCSTTHHHH
T ss_pred             CCCceeCcHHHHHHHHHHHHhcc---CCCceEEEEECCCCCCHHHHHHHHHHhhhhhhhhcCceEEEEEecCCCCHHHHH
Confidence            44668899999999999997543   456889999999999999999999875321                     22 


Q ss_pred             --HHHHHHHhcCCCC-------CCCCHHHHHHHHHhhccCcceeEEeeCCCCcCccCcchhhhccCCCCCCcEEEEecCC
Q 038234          131 --AKAIIAALGCETS-------NLGSLQSLVRCISESIEGKKYLVVLDDVWTDDYTKWEPFQRCSANGQCGNNILVTTHK  201 (406)
Q Consensus       131 --~~~i~~~l~~~~~-------~~~~~~~~~~~l~~~l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTtR~  201 (406)
                        ...+...+.....       ...........+.+.+.++|+|+||||+|+.+  .|..+.      ..||+||||||+
T Consensus        95 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~kr~LlVLDDv~~~~--~~~~~~------~~~srilvTTR~  166 (277)
T d2a5yb3          95 LFTDILLMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVVQEE--TIRWAQ------ELRLRCLVTTRD  166 (277)
T ss_dssp             HHHHHHHHHTTTSCCTTCCCCTTCCHHHHHHHHHHHHTTSTTEEEEEEEECCHH--HHHHHH------HTTCEEEEEESB
T ss_pred             HHHHHHHHHhcchhhcCCccchhhhhHHHHHHHHHHHhccCCeeEecchhhHHh--hhhhhc------ccCceEEEEeeh
Confidence              2223333332211       11223334456778899999999999999764  343332      247899999999


Q ss_pred             hHHHHHhcc-CCccccCCCChHHHHHhhhhhc---------------cccch---hHHHHHHhhhhcchhhHHhhhhhcc
Q 038234          202 KTVARMMES-TNFISIKELSTQECWSLFKQES---------------SAKPC---LLLQKLLGVSCALKELEMSGKNSLD  262 (406)
Q Consensus       202 ~~v~~~~~~-~~~~~l~~L~~~~a~~Lf~~~~---------------i~~~c---PLai~~~g~~L~~~~~~~~w~~~~~  262 (406)
                      +.++..+.. ...|+|++|+.+||++||.+.+               |+++|   |||++++|+.|+.+. .+.|....+
T Consensus       167 ~~v~~~~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~iv~~c~GlPLAl~~ig~~l~~k~-~~~~~~~~~  245 (277)
T d2a5yb3         167 VEISNAASQTCEFIEVTSLEIDECYDFLEAYGMPMPVGEKEEDVLNKTIELSSGNPATLMMFFKSCEPKT-FEKMAQLNN  245 (277)
T ss_dssp             GGGGGGCCSCEEEEECCCCCHHHHHHHHHHTSCCCC--CHHHHHHHHHHHHHTTCHHHHHHHHTTCCSSS-HHHHHHHHH
T ss_pred             HHHHHhcCCCCceEECCCCCHHHHHHHHHHHhCCccCchhhHHHHHHHHHHhCCCHHHHHHHHHHhccCC-HHHHHHHHH
Confidence            999987655 3679999999999999998766               67778   999999999998765 677766544


Q ss_pred             chhhhhhhhhhhHHHHHHhccccCChhhhhHHhhh
Q 038234          263 SELWQLQELEKDLFSLLLLNYYDLPYRIKQCFRYC  297 (406)
Q Consensus       263 ~~~~~~~~~~~~~~~~l~~sy~~L~~~~k~cfl~l  297 (406)
                      .+..   ....++..++.+||++||+++|.||.++
T Consensus       246 ~L~~---~~~~~v~~il~~sY~~L~~~lk~c~~~l  277 (277)
T d2a5yb3         246 KLES---RGLVGVECITPYSYKSLAMALQRCVEVL  277 (277)
T ss_dssp             HHHH---HCSSTTCCCSSSSSSSHHHHHHHHHHTS
T ss_pred             HHhc---CcHHHHHHHHHHHHhcccHHHHHHHHhC
Confidence            4321   2346799999999999999999999874

>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=98.87  E-value=4.1e-09  Score=94.02  Aligned_cols=42  Identities=14%  Similarity=0.314  Sum_probs=35.0

Q ss_pred             CCCceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhc
Q 038234           73 DESEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus        73 ~~~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      ....|+||+++++++.+..          .+++.|+|++|+|||+|++++.+
T Consensus        10 ~~~~f~GR~~el~~l~~~~----------~~~i~i~G~~G~GKTsLl~~~~~   51 (283)
T d2fnaa2          10 NRKDFFDREKEIEKLKGLR----------APITLVLGLRRTGKSSIIKIGIN   51 (283)
T ss_dssp             SGGGSCCCHHHHHHHHHTC----------SSEEEEEESTTSSHHHHHHHHHH
T ss_pred             ChhhCCChHHHHHHHHhcc----------CCEEEEEcCCCCcHHHHHHHHHH
Confidence            4578999999999987621          34788999999999999998875

>d1r6bx2 c.37.1.20 (X:169-436) ClpA, an Hsp100 chaperone, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpA, an Hsp100 chaperone, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=98.71  E-value=4e-09  Score=93.40  Aligned_cols=150  Identities=15%  Similarity=0.145  Sum_probs=91.8

Q ss_pred             CceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChHH----HH--HHHH----HHhcCCCCC
Q 038234           75 SEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDFR----VA--KAII----AALGCETSN  144 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~----~~--~~i~----~~l~~~~~~  144 (406)
                      +.++||++++++++..|....      -.-+.++|.+|+|||+|+..+++.....    .+  +.++    ..+-.....
T Consensus        18 d~~igRd~Ei~~l~~iL~r~~------k~n~lLVG~~GvGKTalv~~la~ri~~~~vp~~l~~~~i~~l~~~~liag~~~   91 (268)
T d1r6bx2          18 DPLIGREKELERAIQVLCRRR------KNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSLLAGTKY   91 (268)
T ss_dssp             CCCCSCHHHHHHHHHHHTSSS------SCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCCC---CCCCC
T ss_pred             CcccChHHHHHHHHHHHhcCc------cCCcEEECCCCCcHHHHHHHHHHHHHhCCcccccccceeEEeeechHhccCcc
Confidence            347899999999999997532      3356699999999999998877643210    00  0000    001111122


Q ss_pred             CCCHHHHHHHHHhh-ccCcceeEEeeCCCCcC-----cc---Ccc-hhhhccCCCCCCcEEEEecCChHHHHHhcc----
Q 038234          145 LGSLQSLVRCISES-IEGKKYLVVLDDVWTDD-----YT---KWE-PFQRCSANGQCGNNILVTTHKKTVARMMES----  210 (406)
Q Consensus       145 ~~~~~~~~~~l~~~-l~~kr~LlVlDdvw~~~-----~~---~~~-~l~~~l~~~~~gs~IivTtR~~~v~~~~~~----  210 (406)
                      ....++....+.+. -..++.++++|+++.--     ..   +.. .++..+.  ...-++|.||..++.......    
T Consensus        92 ~g~~e~r~~~i~~~~~~~~~iIlfiDeih~l~~~g~~~g~~~d~a~~Lkp~L~--rg~i~vIgatT~eey~~~~e~d~al  169 (268)
T d1r6bx2          92 RGDFEKRFKALLKQLEQDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLS--SGKIRVIGSTTYQEFSNIFEKDRAL  169 (268)
T ss_dssp             SSCHHHHHHHHHHHHSSSSCEEEEETTTTTTTTSCCSSSCHHHHHHHHSSCSS--SCCCEEEEEECHHHHHCCCCCTTSS
T ss_pred             chhHHHHHHHHHHHhhccCCceEEecchHHHhcCCCCCCccccHHHHhhHHHh--CCCCeEEEeCCHHHHHHHHhhcHHH
Confidence            34455544444443 35677999999985421     00   111 1222222  224588888888877765443    


Q ss_pred             ---CCccccCCCChHHHHHhhhhhc
Q 038234          211 ---TNFISIKELSTQECWSLFKQES  232 (406)
Q Consensus       211 ---~~~~~l~~L~~~~a~~Lf~~~~  232 (406)
                         -..+.+.+++.+++..++....
T Consensus       170 ~rrF~~I~V~Eps~e~t~~IL~~~~  194 (268)
T d1r6bx2         170 ARRFQKIDITEPSIEETVQIINGLK  194 (268)
T ss_dssp             GGGEEEEECCCCCHHHHHHHHHHHH
T ss_pred             HhhhcccccCCCCHHHHHHHHHHhh
Confidence               4678999999999999887643

>d1jbka_ c.37.1.20 (A:) ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=98.67  E-value=5.5e-09  Score=87.54  Aligned_cols=145  Identities=14%  Similarity=0.158  Sum_probs=85.0

Q ss_pred             ceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChH----------HHHHHHHHHhcCCCCCC
Q 038234           76 EICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDF----------RVAKAIIAALGCETSNL  145 (406)
Q Consensus        76 ~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~----------~~~~~i~~~l~~~~~~~  145 (406)
                      ..+||+++++++...|....      -.-+.++|.+|+|||+++..++++...          ++..-=+..+-......
T Consensus        23 ~~igRd~Ei~~l~~iL~r~~------k~n~lLvG~pGVGKTalv~~LA~ri~~~~vp~~L~~~~i~~ld~~~LiAg~~~r   96 (195)
T d1jbka_          23 PVIGRDEEIRRTIQVLQRRT------KNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMGALVAGAKYR   96 (195)
T ss_dssp             CCCSCHHHHHHHHHHHTSSS------SCEEEEECCTTSCHHHHHHHHHHHHHHTCSCGGGTTCEEEEECHHHHHTTTCSH
T ss_pred             CCcCcHHHHHHHHHHHhccC------CCCeEEEecCCcccHHHHHHHHHHHHhCCCCHHHcCceEEEeeHHHHhccCCcc
Confidence            47899999999999998542      335679999999999999877664321          00000000111111111


Q ss_pred             CCHHHHHH-HHHhhcc-CcceeEEeeCCCCcC--------ccCcchhhhccCCCCCCcEEEEecCChHHHHHhcc-----
Q 038234          146 GSLQSLVR-CISESIE-GKKYLVVLDDVWTDD--------YTKWEPFQRCSANGQCGNNILVTTHKKTVARMMES-----  210 (406)
Q Consensus       146 ~~~~~~~~-~l~~~l~-~kr~LlVlDdvw~~~--------~~~~~~l~~~l~~~~~gs~IivTtR~~~v~~~~~~-----  210 (406)
                      .+.++... .+.+..+ ..+.+|++|+++.--        .+.-+.++..+..  ..-++|.||..+........     
T Consensus        97 G~~E~rl~~il~e~~~~~~~iILfIDeih~l~~~g~~~g~~d~~~~Lkp~L~r--g~l~~IgatT~eey~~~~e~d~aL~  174 (195)
T d1jbka_          97 GEFEERLKGVLNDLAKQEGNVILFIDELHTMVGAGKADGAMDAGNMLKPALAR--GELHCVGATTLDEYRQYIEKDAALE  174 (195)
T ss_dssp             HHHHHHHHHHHHHHHHSTTTEEEEEETGGGGTT------CCCCHHHHHHHHHT--TSCCEEEEECHHHHHHHTTTCHHHH
T ss_pred             HHHHHHHHHHHHHHhcCCCcEEEEcchHHHHhcCCCCCCcccHHHHHHHHHhC--CCceEEecCCHHHHHHHHHcCHHHH
Confidence            12233222 3333323 357999999995421        0111223333332  24578888887776665433     


Q ss_pred             --CCccccCCCChHHHHHhh
Q 038234          211 --TNFISIKELSTQECWSLF  228 (406)
Q Consensus       211 --~~~~~l~~L~~~~a~~Lf  228 (406)
                        -..+.+...+.+++..++
T Consensus       175 rrF~~I~V~Ep~~e~t~~IL  194 (195)
T d1jbka_         175 RRFQKVFVAEPSVEDTIAIL  194 (195)
T ss_dssp             TTEEEEECCCCCHHHHHTTC
T ss_pred             hcCCEeecCCCCHHHHHHHh
Confidence              567889999999988765

>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=98.63  E-value=7.1e-08  Score=85.51  Aligned_cols=159  Identities=13%  Similarity=0.155  Sum_probs=92.4

Q ss_pred             CCceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChH------------------HHHHHHH
Q 038234           74 ESEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDF------------------RVAKAII  135 (406)
Q Consensus        74 ~~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~------------------~~~~~i~  135 (406)
                      +..++||+.+++++.++|...-.........+.|+|++|+|||++|+.+++....                  .....+.
T Consensus        15 p~~l~~Re~ei~~l~~~l~~~l~~~~~~~~~lll~GppGtGKT~l~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (276)
T d1fnna2          15 PKRLPHREQQLQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWELYKDKTTARFVYINGFIYRNFTAIIGEIA   94 (276)
T ss_dssp             CSCCTTCHHHHHHHHHHHHHHHHSTTSSCCEEEEECCTTSSHHHHHHHHHHHHTTSCCCEEEEEETTTCCSHHHHHHHHH
T ss_pred             CCCCCCHHHHHHHHHHHHHHHHhCCCCCCCceEEECCCCCCHHHHHHHHHHHHhcccCCcEEEecchhhhhhhhhhhhhH
Confidence            3468999999999999886421000344668899999999999999998864321                  4455555


Q ss_pred             HHhcCCCCC-CCCHHHHHHHHHhhcc--CcceeEEeeCCCCcCccCcchhhhccC---C-CCCCcEEEEecCChHHHHHh
Q 038234          136 AALGCETSN-LGSLQSLVRCISESIE--GKKYLVVLDDVWTDDYTKWEPFQRCSA---N-GQCGNNILVTTHKKTVARMM  208 (406)
Q Consensus       136 ~~l~~~~~~-~~~~~~~~~~l~~~l~--~kr~LlVlDdvw~~~~~~~~~l~~~l~---~-~~~gs~IivTtR~~~v~~~~  208 (406)
                      ......... ......+...+.+.+.  ....++++|+++.........+...+.   . ......+|.++........+
T Consensus        95 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~  174 (276)
T d1fnna2          95 RSLNIPFPRRGLSRDEFLALLVEHLRERDLYMFLVLDDAFNLAPDILSTFIRLGQEADKLGAFRIALVIVGHNDAVLNNL  174 (276)
T ss_dssp             HHTTCCCCSSCCCHHHHHHHHHHHHHHTTCCEEEEEETGGGSCHHHHHHHHHHTTCHHHHSSCCEEEEEEESSTHHHHTS
T ss_pred             HhhhhhhhhhccchhHHHHHHHHHHhhcccccccchhHHHHhhhhhhhhHHHHHhccccccccceEEeecCCchhhhhhc
Confidence            555544332 2344455554444433  345677778775433222222211111   1 12233455555544333221


Q ss_pred             c-------cCCccccCCCChHHHHHhhhhhc
Q 038234          209 E-------STNFISIKELSTQECWSLFKQES  232 (406)
Q Consensus       209 ~-------~~~~~~l~~L~~~~a~~Lf~~~~  232 (406)
                      .       ....+.+.+.+.++.++++.++.
T Consensus       175 ~~~~~~r~~~~~i~~~~~~~~e~~~il~~r~  205 (276)
T d1fnna2         175 DPSTRGIMGKYVIRFSPYTKDQIFDILLDRA  205 (276)
T ss_dssp             CHHHHHHHTTCEEECCCCBHHHHHHHHHHHH
T ss_pred             chhhhhhhcchhccccchhHHHHHHHHHHHH
Confidence            1       13457899999999999887754

>d1sxjc2 c.37.1.20 (C:12-238) Replication factor C3 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C3
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.48  E-value=4.7e-08  Score=84.70  Aligned_cols=150  Identities=10%  Similarity=0.060  Sum_probs=88.5

Q ss_pred             CceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChHHHHHHHHHHhcCCCCCCCCHHHHHHH
Q 038234           75 SEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDFRVAKAIIAALGCETSNLGSLQSLVRC  154 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~  154 (406)
                      .+++|.++.++.|.+++....      ...+.++|++|+||||+|+.+++..........  .+........+.+.....
T Consensus        14 ~divg~~~~~~~L~~~i~~~~------~~~lLl~Gp~G~GKttl~~~la~~l~~~~~~~~--~~e~~~~~~~~~~~~~~~   85 (227)
T d1sxjc2          14 DEVYGQNEVITTVRKFVDEGK------LPHLLFYGPPGTGKTSTIVALAREIYGKNYSNM--VLELNASDDRGIDVVRNQ   85 (227)
T ss_dssp             GGCCSCHHHHHHHHHHHHTTC------CCCEEEECSSSSSHHHHHHHHHHHHHTTSHHHH--EEEECTTSCCSHHHHHTH
T ss_pred             HHccCcHHHHHHHHHHHHcCC------CCeEEEECCCCCChhHHHHHHHHHhhcCCCcce--eEEecccccCCeeeeecc
Confidence            569999999999999997542      334679999999999999998764221000000  001111111222221111


Q ss_pred             HH------hhccCcceeEEeeCCCCcCccCcchhhhccCCCCCCcEEEEecCCh-HHHHH-hccCCccccCCCChHHHHH
Q 038234          155 IS------ESIEGKKYLVVLDDVWTDDYTKWEPFQRCSANGQCGNNILVTTHKK-TVARM-MESTNFISIKELSTQECWS  226 (406)
Q Consensus       155 l~------~~l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTtR~~-~v~~~-~~~~~~~~l~~L~~~~a~~  226 (406)
                      ..      ....+++-.+|+|++.......-..+...+......+.++++|... .+... ......+.+.+++.++-..
T Consensus        86 ~~~~~~~~~~~~~~~kiiiiDe~d~~~~~~~~~Ll~~le~~~~~~~~~~~~~~~~~i~~~i~sr~~~i~~~~~~~~~i~~  165 (227)
T d1sxjc2          86 IKDFASTRQIFSKGFKLIILDEADAMTNAAQNALRRVIERYTKNTRFCVLANYAHKLTPALLSQCTRFRFQPLPQEAIER  165 (227)
T ss_dssp             HHHHHHBCCSSSCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEEEECCCCCHHHHHH
T ss_pred             hhhccccccccCCCeEEEEEeccccchhhHHHHHHHHhhhcccceeeccccCcHHHhHHHHHHHHhhhcccccccccccc
Confidence            11      1223445588999996554444444555565555677777777653 22222 2335678899999888877


Q ss_pred             hhhhhc
Q 038234          227 LFKQES  232 (406)
Q Consensus       227 Lf~~~~  232 (406)
                      .+.+.+
T Consensus       166 ~l~~I~  171 (227)
T d1sxjc2         166 RIANVL  171 (227)
T ss_dssp             HHHHHH
T ss_pred             cccccc
Confidence            776643

>d1sxjb2 c.37.1.20 (B:7-230) Replication factor C4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.47  E-value=3.4e-08  Score=85.53  Aligned_cols=150  Identities=17%  Similarity=0.154  Sum_probs=89.5

Q ss_pred             CceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChHHHHHHHHHHhcCCCCCCCCHHHHHHH
Q 038234           75 SEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDFRVAKAIIAALGCETSNLGSLQSLVRC  154 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~  154 (406)
                      .+++|.++.++.|.+++....      ...+.++|++|+||||+|+.+++.........  ........+..+...+...
T Consensus        15 ~d~ig~~~~~~~L~~~~~~~~------~~~~ll~Gp~G~GKTt~a~~la~~l~~~~~~~--~~~~~n~~~~~~~~~i~~~   86 (224)
T d1sxjb2          15 SDIVGNKETIDRLQQIAKDGN------MPHMIISGMPGIGKTTSVHCLAHELLGRSYAD--GVLELNASDDRGIDVVRNQ   86 (224)
T ss_dssp             GGCCSCTHHHHHHHHHHHSCC------CCCEEEECSTTSSHHHHHHHHHHHHHGGGHHH--HEEEECTTSCCSHHHHHTH
T ss_pred             HHhcCCHHHHHHHHHHHHcCC------CCeEEEECCCCCCchhhHHHHHHHHhcccccc--ccccccccccCCceehhhH
Confidence            568999999999999998542      33477999999999999998876532211000  0011111222222223222


Q ss_pred             HHhh-------ccCcceeEEeeCCCCcCccCcchhhhccCCCCCCcEEEEecCCh-HHHHH-hccCCccccCCCChHHHH
Q 038234          155 ISES-------IEGKKYLVVLDDVWTDDYTKWEPFQRCSANGQCGNNILVTTHKK-TVARM-MESTNFISIKELSTQECW  225 (406)
Q Consensus       155 l~~~-------l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTtR~~-~v~~~-~~~~~~~~l~~L~~~~a~  225 (406)
                      +...       ..++.-++|+|++..........+...+......+.++++|.+. .+... ......+.+.+++.++-.
T Consensus        87 ~~~~~~~~~~~~~~~~kviiiDe~d~~~~~~~~~ll~~~e~~~~~~~~i~~~~~~~~i~~~l~sr~~~i~~~~~~~~~i~  166 (224)
T d1sxjb2          87 IKHFAQKKLHLPPGKHKIVILDEADSMTAGAQQALRRTMELYSNSTRFAFACNQSNKIIEPLQSQCAILRYSKLSDEDVL  166 (224)
T ss_dssp             HHHHHHBCCCCCTTCCEEEEEESGGGSCHHHHHTTHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEEEECCCCCHHHHH
T ss_pred             HHHHHHhhccCCCcceEEEEEecccccchhHHHHHhhhccccccceeeeeccCchhhhhhHHHHHHHHhhhcccchhhhH
Confidence            2222       12455688999996655444444555554445566666666553 33222 233567899999999888


Q ss_pred             Hhhhhhc
Q 038234          226 SLFKQES  232 (406)
Q Consensus       226 ~Lf~~~~  232 (406)
                      ..+.+.+
T Consensus       167 ~~l~~i~  173 (224)
T d1sxjb2         167 KRLLQII  173 (224)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            7776644

>d1njfa_ c.37.1.20 (A:) delta prime subunit of DNA polymerase III, N-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: delta prime subunit of DNA polymerase III, N-domain
species: Escherichia coli [TaxId: 562]

Probab=98.46  E-value=2.1e-07  Score=81.28  Aligned_cols=153  Identities=10%  Similarity=0.148  Sum_probs=92.5

Q ss_pred             CceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChH------------HHHHHHHHHhcCC-
Q 038234           75 SEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDF------------RVAKAIIAALGCE-  141 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~------------~~~~~i~~~l~~~-  141 (406)
                      .+++|.++.++.|.+++...     ...+.+.|+|++|+||||+|+.+++....            .....+...-... 
T Consensus        12 ~dlig~~~~~~~L~~~i~~~-----~~~~~~Ll~Gp~G~GKtt~a~~~~~~l~~~~~~~~~~~~~~~~~~~i~~~~~~~~   86 (239)
T d1njfa_          12 ADVVGQEHVLTALANGLSLG-----RIHHAYLFSGTRGVGKTSIARLLAKGLNCETGITATPCGVCDNCREIEQGRFVDL   86 (239)
T ss_dssp             GGSCSCHHHHHHHHHHHHTT-----CCCSEEEEECSTTSSHHHHHHHHHHHHHCTTCSCSSCCSCSHHHHHHHHTCCTTE
T ss_pred             HHccChHHHHHHHHHHHHcC-----CCCeeEEEECCCCCcHHHHHHHHHHHhcCccccccCccccchHHHHHHcCCCCeE
Confidence            46899999999999999753     22456789999999999999887653211            1111221111000 


Q ss_pred             ----CCCCCCHHHHHHHHHhh----ccCcceeEEeeCCCCcCccCcchhhhccCCCCCCcEEEEecCCh-HHHHHh-ccC
Q 038234          142 ----TSNLGSLQSLVRCISES----IEGKKYLVVLDDVWTDDYTKWEPFQRCSANGQCGNNILVTTHKK-TVARMM-EST  211 (406)
Q Consensus       142 ----~~~~~~~~~~~~~l~~~----l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTtR~~-~v~~~~-~~~  211 (406)
                          .......+.+...+...    ..++.-++|||++...+...-+.|...+......+.+|++|.+. .+...+ ...
T Consensus        87 ~~~~~~~~~~i~~ir~~~~~~~~~~~~~~~kviiIde~d~l~~~~q~~Llk~lE~~~~~~~~il~tn~~~~i~~~i~SRc  166 (239)
T d1njfa_          87 IEIDAASRTKVEDTRDLLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTILSRC  166 (239)
T ss_dssp             EEEETTCSSSHHHHHHHHHSCCCSCSSSSSEEEEEETGGGSCHHHHHHHHHHHHSCCTTEEEEEEESCGGGSCHHHHTTS
T ss_pred             EEecchhcCCHHHHHHHHHHHHhccccCCCEEEEEECcccCCHHHHHHHHHHHhcCCCCeEEEEEcCCccccChhHhhhh
Confidence                11122334444333332    13456689999996654444445666665555567777776653 232222 235


Q ss_pred             CccccCCCChHHHHHhhhhhc
Q 038234          212 NFISIKELSTQECWSLFKQES  232 (406)
Q Consensus       212 ~~~~l~~L~~~~a~~Lf~~~~  232 (406)
                      ..+.+.+++.++-...+.+.+
T Consensus       167 ~~i~~~~~~~~~i~~~l~~i~  187 (239)
T d1njfa_         167 LQFHLKALDVEQIRHQLEHIL  187 (239)
T ss_dssp             EEEECCCCCHHHHHHHHHHHH
T ss_pred             cccccccCcHHHhhhHHHHHH
Confidence            778899999888877666543

>d1sxjd2 c.37.1.20 (D:26-262) Replication factor C2 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C2
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.45  E-value=1.1e-07  Score=82.82  Aligned_cols=150  Identities=11%  Similarity=0.036  Sum_probs=84.8

Q ss_pred             CceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChHHHHHHHHHHhcCCCCCCCCHHHHHH-
Q 038234           75 SEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDFRVAKAIIAALGCETSNLGSLQSLVR-  153 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~-  153 (406)
                      .+++|.+..++.|..++...      ....+.++|++|+||||+|+.+++.......... .................. 
T Consensus        12 ~diig~~~~~~~l~~~i~~~------~~~~lll~Gp~G~GKTtl~~~i~~~l~~~~~~~~-~~~~~~~~~~~~~~~~~~~   84 (237)
T d1sxjd2          12 DEVTAQDHAVTVLKKTLKSA------NLPHMLFYGPPGTGKTSTILALTKELYGPDLMKS-RILELNASDERGISIVREK   84 (237)
T ss_dssp             TTCCSCCTTHHHHHHHTTCT------TCCCEEEECSTTSSHHHHHHHHHHHHHHHHHHTT-SEEEECSSSCCCHHHHTTH
T ss_pred             HHccCcHHHHHHHHHHHHcC------CCCeEEEECCCCCChHHHHHHHHHHHcCCccccc-chhheeccccccchHHHHH
Confidence            45899999999999998743      2334789999999999999999875321000000 000000000111111111 


Q ss_pred             ---------------HHHhhccCcceeEEeeCCCCcCccCcchhhhccCCCCCCcEEEEecCCh-HHH-HHhccCCcccc
Q 038234          154 ---------------CISESIEGKKYLVVLDDVWTDDYTKWEPFQRCSANGQCGNNILVTTHKK-TVA-RMMESTNFISI  216 (406)
Q Consensus       154 ---------------~l~~~l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTtR~~-~v~-~~~~~~~~~~l  216 (406)
                                     .+.....++.-++|+|++.......+..+...+........+|+|+.+. .+. ........+.+
T Consensus        85 ~~~~~~~~~~~~~~~~~~~~~~~~~~viiiDe~d~l~~~~~~~l~~~~~~~~~~~~~i~~~~~~~~~~~~l~sr~~~i~f  164 (237)
T d1sxjd2          85 VKNFARLTVSKPSKHDLENYPCPPYKIIILDEADSMTADAQSALRRTMETYSGVTRFCLICNYVTRIIDPLASQCSKFRF  164 (237)
T ss_dssp             HHHHHHSCCCCCCTTHHHHSCCCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHHSEEEEC
T ss_pred             HHHHhhhhhhhhhHHHHhhccccCceEEEEecccccCHHHHHHHhhccccccccccccccccccccccccccchhhhhcc
Confidence                           1112223344479999986544444445544444444556676665552 221 12222467889


Q ss_pred             CCCChHHHHHhhhhh
Q 038234          217 KELSTQECWSLFKQE  231 (406)
Q Consensus       217 ~~L~~~~a~~Lf~~~  231 (406)
                      .+++.++...++.+.
T Consensus       165 ~~~~~~~~~~~L~~i  179 (237)
T d1sxjd2         165 KALDASNAIDRLRFI  179 (237)
T ss_dssp             CCCCHHHHHHHHHHH
T ss_pred             ccccccccchhhhhh
Confidence            999999988877764

>d1qvra2 c.37.1.20 (A:149-535) ClpB, AAA+ modules {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Thermus thermophilus [TaxId: 274]

Probab=98.43  E-value=7.5e-08  Score=89.81  Aligned_cols=149  Identities=15%  Similarity=0.226  Sum_probs=82.2

Q ss_pred             CceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChH----HHHHH--H----HHHhcCCCCC
Q 038234           75 SEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDF----RVAKA--I----IAALGCETSN  144 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~----~~~~~--i----~~~l~~~~~~  144 (406)
                      +.++||+.++++++..|....      -.-+.++|.+|||||+|+..++++...    ..++.  +    +..+......
T Consensus        22 d~~~gr~~ei~~~~~~L~r~~------k~n~llvG~~GvGKtaiv~~la~~i~~~~vp~~l~~~~i~~ld~~~l~ag~~~   95 (387)
T d1qvra2          22 DPVIGRDEEIRRVIQILLRRT------KNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMGSLLAGAKY   95 (387)
T ss_dssp             CCCCSCHHHHHHHHHHHHCSS------CCCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEECC---------
T ss_pred             CCCcCcHHHHHHHHHHHhcCC------CCCCeEECCCCCCHHHHHHHHHHHHHhCCCCHHHcCceEEEeeHhhhhcccCc
Confidence            347899999999999998543      223468899999999998766543211    00000  0    0000000011


Q ss_pred             CCCHHHHHHHH-HhhccC-cceeEEeeCCCCc--------CccCcchhhhccCCCCCCcEEEEecCChHHHHHhcc----
Q 038234          145 LGSLQSLVRCI-SESIEG-KKYLVVLDDVWTD--------DYTKWEPFQRCSANGQCGNNILVTTHKKTVARMMES----  210 (406)
Q Consensus       145 ~~~~~~~~~~l-~~~l~~-kr~LlVlDdvw~~--------~~~~~~~l~~~l~~~~~gs~IivTtR~~~v~~~~~~----  210 (406)
                      ....++....+ .+.... .+++|++|+++.-        ..+.-+.|...|..+  .-++|.+|..+.... +..    
T Consensus        96 ~g~~e~r~~~i~~~~~~~~~~~ilfide~h~l~~~g~~~g~~d~a~~Lkp~L~rg--~~~~I~~tT~~ey~~-~e~d~al  172 (387)
T d1qvra2          96 RGEFEERLKAVIQEVVQSQGEVILFIDELHTVVGAGKAEGAVDAGNMLKPALARG--ELRLIGATTLDEYRE-IEKDPAL  172 (387)
T ss_dssp             --CHHHHHHHHHHHHHTTCSSEEEEECCC-------------------HHHHHTT--CCCEEEEECHHHHHH-HTTCTTT
T ss_pred             chhHHHHHHHHHHHhccCCCceEEEeccHHHHhcCCCCCCcccHHHHHHHHHhCC--CcceeeecCHHHHHH-hcccHHH
Confidence            12333333333 333333 4789999999542        111122344444322  346777777766654 332    


Q ss_pred             ---CCccccCCCChHHHHHhhhhhc
Q 038234          211 ---TNFISIKELSTQECWSLFKQES  232 (406)
Q Consensus       211 ---~~~~~l~~L~~~~a~~Lf~~~~  232 (406)
                         -+.+.+.+.+.+++..++....
T Consensus       173 ~rrF~~v~v~ep~~~~~~~il~~~~  197 (387)
T d1qvra2         173 ERRFQPVYVDEPTVEETISILRGLK  197 (387)
T ss_dssp             CSCCCCEEECCCCHHHHHHHHHHHH
T ss_pred             HHhcccccCCCCcHHHHHHHHHHHH
Confidence               6788999999999999987654

>d1sxje2 c.37.1.20 (E:4-255) Replication factor C5 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C5
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.37  E-value=1.7e-07  Score=82.38  Aligned_cols=152  Identities=11%  Similarity=0.054  Sum_probs=82.0

Q ss_pred             CceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChH------H-------HHHHHHHHhcCC
Q 038234           75 SEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDF------R-------VAKAIIAALGCE  141 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~------~-------~~~~i~~~l~~~  141 (406)
                      .+++|.++..+.|.+++...     ....-+.|+|++|+||||+|+++++....      .       ........+...
T Consensus        11 ~diig~~~~~~~L~~~~~~~-----~~~~~lll~Gp~G~GKTt~~~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~   85 (252)
T d1sxje2          11 NALSHNEELTNFLKSLSDQP-----RDLPHLLLYGPNGTGKKTRCMALLESIFGPGVYRLKIDVRQFVTASNRKLELNVV   85 (252)
T ss_dssp             GGCCSCHHHHHHHHTTTTCT-----TCCCCEEEECSTTSSHHHHHHTHHHHHSCTTCCC------------------CCE
T ss_pred             HHccCcHHHHHHHHHHHHcC-----CCCCeEEEECCCCCCHHHHHHHHHHhhcCccccccccccccccccccchhhhhhc
Confidence            46899988888887777543     22334779999999999999988774210      0       000000011000


Q ss_pred             C-----------CCCCCHHHHHHHHHhh--------------ccCcceeEEeeCCCCcCccCcchhhhccCCCCCCcEEE
Q 038234          142 T-----------SNLGSLQSLVRCISES--------------IEGKKYLVVLDDVWTDDYTKWEPFQRCSANGQCGNNIL  196 (406)
Q Consensus       142 ~-----------~~~~~~~~~~~~l~~~--------------l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~Ii  196 (406)
                      .           ....+.......+...              ..++.-++|||++.......+..+...+......+++|
T Consensus        86 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiiide~d~l~~~~~~~l~~~~e~~~~~~~~I  165 (252)
T d1sxje2          86 SSPYHLEITPSDMGNNDRIVIQELLKEVAQMEQVDFQDSKDGLAHRYKCVIINEANSLTKDAQAALRRTMEKYSKNIRLI  165 (252)
T ss_dssp             ECSSEEEECCC----CCHHHHHHHHHHHTTTTC------------CCEEEEEECTTSSCHHHHHHHHHHHHHSTTTEEEE
T ss_pred             cCCccceeeecccccCCcceeeehhhhhhhhhhhhhhhcccccCCCceEEEeccccccccccchhhhcccccccccccce
Confidence            0           0001111111111111              12334488999996554445555555554445566777


Q ss_pred             EecCChH-HHH-HhccCCccccCCCChHHHHHhhhhh
Q 038234          197 VTTHKKT-VAR-MMESTNFISIKELSTQECWSLFKQE  231 (406)
Q Consensus       197 vTtR~~~-v~~-~~~~~~~~~l~~L~~~~a~~Lf~~~  231 (406)
                      +||.+.+ +.. .......+++.+++.++..+++.+.
T Consensus       166 l~tn~~~~i~~~l~sR~~~i~~~~~~~~~~~~~l~~i  202 (252)
T d1sxje2         166 MVCDSMSPIIAPIKSQCLLIRCPAPSDSEISTILSDV  202 (252)
T ss_dssp             EEESCSCSSCHHHHTTSEEEECCCCCHHHHHHHHHHH
T ss_pred             eeeccccchhhhhhcchheeeecccchhhHHHHHHHH
Confidence            7766532 211 1122356789999999988877653

>d1iqpa2 c.37.1.20 (A:2-232) Replication factor C {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=98.28  E-value=2.9e-07  Score=79.84  Aligned_cols=149  Identities=11%  Similarity=0.075  Sum_probs=84.2

Q ss_pred             CceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChHHHHHHHHHHhcCCCCCCCCHH---HH
Q 038234           75 SEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDFRVAKAIIAALGCETSNLGSLQ---SL  151 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~~~i~~~l~~~~~~~~~~~---~~  151 (406)
                      .+++|.++.++.|..++...      ....+.++|++|+||||+|+.+++.........-  .+........+..   ..
T Consensus        24 ~diig~~~~~~~l~~~i~~~------~~~~lll~Gp~G~GKTtla~~iak~l~~~~~~~~--~~e~n~s~~~~~~~~~~~   95 (231)
T d1iqpa2          24 DDIVGQEHIVKRLKHYVKTG------SMPHLLFAGPPGVGKTTAALALARELFGENWRHN--FLELNASDERGINVIREK   95 (231)
T ss_dssp             TTCCSCHHHHHHHHHHHHHT------CCCEEEEESCTTSSHHHHHHHHHHHHHGGGHHHH--EEEEETTCHHHHHTTHHH
T ss_pred             HHccCcHHHHHHHHHHHHcC------CCCeEEEECCCCCcHHHHHHHHHHHHHhcccCCC--eeEEecCcccchhHHHHH
Confidence            56999999999999999754      2445789999999999999988764321000000  0000000100111   11


Q ss_pred             HHHHH---hhccCcceeEEeeCCCCcCccCcchhhhccCCCCCCcEEEEecCC-hHHHHH-hccCCccccCCCChHHHHH
Q 038234          152 VRCIS---ESIEGKKYLVVLDDVWTDDYTKWEPFQRCSANGQCGNNILVTTHK-KTVARM-MESTNFISIKELSTQECWS  226 (406)
Q Consensus       152 ~~~l~---~~l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTtR~-~~v~~~-~~~~~~~~l~~L~~~~a~~  226 (406)
                      .....   .....++.++++|++.......+..+...+........+|+||.. ..+... ......+.+.+.+.++...
T Consensus        96 ~~~~~~~~~~~~~~~~iilide~d~~~~~~~~~ll~~l~~~~~~~~~i~~~n~~~~i~~~l~sR~~~i~~~~~~~~~~~~  175 (231)
T d1iqpa2          96 VKEFARTKPIGGASFKIIFLDEADALTQDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQSRCAIFRFRPLRDEDIAK  175 (231)
T ss_dssp             HHHHHHSCCGGGCSCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHTEEEEECCCCCHHHHHH
T ss_pred             HHHHHhhhhccCCCceEEeehhhhhcchhHHHHHhhhcccCCcceEEEeccCChhhchHhHhCccccccccccchhhHHH
Confidence            11111   112346778999999655444555555555443444455555544 333222 2234567888888887776


Q ss_pred             hhhhh
Q 038234          227 LFKQE  231 (406)
Q Consensus       227 Lf~~~  231 (406)
                      .+.+.
T Consensus       176 ~l~~~  180 (231)
T d1iqpa2         176 RLRYI  180 (231)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            66653

>d1w5sa2 c.37.1.20 (A:7-293) CDC6-like protein APE0152, N-terminal domain {Aeropyrum pernix [TaxId: 56636]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6-like protein APE0152, N-terminal domain
species: Aeropyrum pernix [TaxId: 56636]

Probab=98.26  E-value=2.7e-06  Score=75.34  Aligned_cols=160  Identities=15%  Similarity=0.175  Sum_probs=88.0

Q ss_pred             CCCceecchhhHHHHHHHHhcC---CCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChH---------------------
Q 038234           73 DESEICGRDYKKNELLSKLLSD---SSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDF---------------------  128 (406)
Q Consensus        73 ~~~~~vGR~~~~~~l~~~L~~~---~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~---------------------  128 (406)
                      .+..++||+.++++|.+.+...   .........++.++|++|+|||++++.+++....                     
T Consensus        14 ~P~~~~~Re~e~~~l~~~l~~~~~~~~~~~~~~~~l~l~GppGtGKT~l~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~   93 (287)
T d1w5sa2          14 IPPELRVRRGEAEALARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVNAFNAPN   93 (287)
T ss_dssp             CCSSCSSSCHHHHHHHHHHHHHHHTSSCBCCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEEEGGGCCS
T ss_pred             CCCCCCCHHHHHHHHHHHHHHHHHcCCCCCCcceEEEeECCCCCCHHHHHHHHHHHHHhhcccccCCceeeeeccccccc
Confidence            4567899999999998876321   1111223345677899999999999999876432                     


Q ss_pred             --HHHHHHHHHhcCCCC-CCCCHHHHHHHHHhhc--cCcceeEEeeCCCCcC---ccC------cchhhhccCC---CCC
Q 038234          129 --RVAKAIIAALGCETS-NLGSLQSLVRCISESI--EGKKYLVVLDDVWTDD---YTK------WEPFQRCSAN---GQC  191 (406)
Q Consensus       129 --~~~~~i~~~l~~~~~-~~~~~~~~~~~l~~~l--~~kr~LlVlDdvw~~~---~~~------~~~l~~~l~~---~~~  191 (406)
                        .........+..... .......+...+.+..  .+...++++|.+..-.   ...      +..+...+..   ...
T Consensus        94 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iide~d~l~~~~~~~~~~~~~l~~l~~~l~~~~~~~~  173 (287)
T d1w5sa2          94 LYTILSLIVRQTGYPIQVRGAPALDILKALVDNLYVENHYLLVILDEFQSMLSSPRIAAEDLYTLLRVHEEIPSRDGVNR  173 (287)
T ss_dssp             HHHHHHHHHHHHTCCCCCTTCCHHHHHHHHHHHHHHHTCEEEEEEESTHHHHSCTTSCHHHHHHHHTHHHHSCCTTSCCB
T ss_pred             hhhHHHHHhhhcccccccccchHHHHHHHHHHHHHhccCccccceeEEEEeccccccchhHHHHHHHHHHhcchhhcccc
Confidence              233334444443322 2233444445554443  3456777888763211   001      1111111221   122


Q ss_pred             CcEEEEecCChHHHHH-------h-ccCCccccCCCChHHHHHhhhhhc
Q 038234          192 GNNILVTTHKKTVARM-------M-ESTNFISIKELSTQECWSLFKQES  232 (406)
Q Consensus       192 gs~IivTtR~~~v~~~-------~-~~~~~~~l~~L~~~~a~~Lf~~~~  232 (406)
                      -..|++++........       . .....+.+.+.+.++..+++..++
T Consensus       174 ~~~i~i~~~~~~~~~~~~~~~~~~~r~~~~i~f~~y~~~el~~Il~~r~  222 (287)
T d1w5sa2         174 IGFLLVASDVRALSYMREKIPQVESQIGFKLHLPAYKSRELYTILEQRA  222 (287)
T ss_dssp             EEEEEEEEETHHHHHHHHHCHHHHTTCSEEEECCCCCHHHHHHHHHHHH
T ss_pred             eeEEeecccHHHHHHHHhhccchhcccceeeeccCCcHHHHHHHHhhhH
Confidence            2334445444322111       1 124677899999999999888754

>d1a5ta2 c.37.1.20 (A:1-207) delta prime subunit of DNA polymerase III, N-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: delta prime subunit of DNA polymerase III, N-domain
species: Escherichia coli [TaxId: 562]

Probab=98.20  E-value=4.7e-06  Score=70.73  Aligned_cols=147  Identities=10%  Similarity=0.020  Sum_probs=90.4

Q ss_pred             chhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCCh-----H-------HHHHHHHHHhcCC------
Q 038234           80 RDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKD-----F-------RVAKAIIAALGCE------  141 (406)
Q Consensus        80 R~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~-----~-------~~~~~i~~~l~~~------  141 (406)
                      -+...+++.+.+...     .-.+.+.++|++|+||||+|+.+++..-     .       .-...+.......      
T Consensus         7 ~~~~~~~l~~~~~~~-----~l~h~lLl~Gp~G~GKtt~a~~~a~~l~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~   81 (207)
T d1a5ta2           7 LRPDFEKLVASYQAG-----RGHHALLIQALPGMGDDALIYALSRYLLCQQPQGHKSCGHCRGCQLMQAGTHPDYYTLAP   81 (207)
T ss_dssp             GHHHHHHHHHHHHTT-----CCCSEEEEECCTTSCHHHHHHHHHHHHTCSSCBTTBCCSCSHHHHHHHHTCCTTEEEECC
T ss_pred             cHHHHHHHHHHHHcC-----CcCeEEEEECCCCCcHHHHHHHHHHhcccccccccccccccchhhhhhhccccccchhhh
Confidence            345577788877743     3355689999999999999998765310     0       1111121111111      


Q ss_pred             --CCCCCCHHHHHHHHHhh----ccCcceeEEeeCCCCcCccCcchhhhccCCCCCCcEEEEecCChH-HHHHh-ccCCc
Q 038234          142 --TSNLGSLQSLVRCISES----IEGKKYLVVLDDVWTDDYTKWEPFQRCSANGQCGNNILVTTHKKT-VARMM-ESTNF  213 (406)
Q Consensus       142 --~~~~~~~~~~~~~l~~~----l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTtR~~~-v~~~~-~~~~~  213 (406)
                        .......+++...+...    ..+++-++|+||+...+......+...+.....++.+|+||.+.. +...+ +....
T Consensus        82 ~~~~~~i~~~~ir~l~~~~~~~~~~~~~kviIide~d~l~~~a~n~Llk~lEep~~~~~fIl~t~~~~~ll~tI~SRc~~  161 (207)
T d1a5ta2          82 EKGKNTLGVDAVREVTEKLNEHARLGGAKVVWVTDAALLTDAAANALLKTLEEPPAETWFFLATREPERLLATLRSRCRL  161 (207)
T ss_dssp             CTTCSSBCHHHHHHHHHHTTSCCTTSSCEEEEESCGGGBCHHHHHHHHHHHTSCCTTEEEEEEESCGGGSCHHHHTTSEE
T ss_pred             hhcccccccchhhHHhhhhhhccccCccceEEechhhhhhhhhhHHHHHHHHhhcccceeeeeecChhhhhhhhcceeEE
Confidence              01112233333222221    235667999999977776667777777776667888887777743 33333 34678


Q ss_pred             cccCCCChHHHHHhhhhh
Q 038234          214 ISIKELSTQECWSLFKQE  231 (406)
Q Consensus       214 ~~l~~L~~~~a~~Lf~~~  231 (406)
                      +.+.+++.++....+.+.
T Consensus       162 i~~~~~~~~~~~~~L~~~  179 (207)
T d1a5ta2         162 HYLAPPPEQYAVTWLSRE  179 (207)
T ss_dssp             EECCCCCHHHHHHHHHHH
T ss_pred             EecCCCCHHHHHHHHHHc
Confidence            899999999888777654

>d1sxja2 c.37.1.20 (A:295-547) Replication factor C1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.04  E-value=3.1e-06  Score=74.03  Aligned_cols=53  Identities=23%  Similarity=0.307  Sum_probs=40.9

Q ss_pred             CceecchhhHHHHHHHHhcC-----------CCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCCh
Q 038234           75 SEICGRDYKKNELLSKLLSD-----------SSDQQKPIKMISIVGMGGIGKITLAQMAYNDKD  127 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~-----------~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~  127 (406)
                      .+++|.+..+++|.++|...           ...+....+.+.++|++|+||||+|+.+++...
T Consensus        14 ~dlig~~~~~~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~~lll~GPpG~GKTt~a~~la~~~~   77 (253)
T d1sxja2          14 QQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQELG   77 (253)
T ss_dssp             GGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHTT
T ss_pred             HHhcCCHHHHHHHHHHHHhhhhcchhhhhhhcccCCCCCceEEEECCCCCCHHHHHHHHHHHHH
Confidence            56899999999999988530           011134456899999999999999999988653

>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=98.00  E-value=2.5e-06  Score=75.07  Aligned_cols=157  Identities=10%  Similarity=0.057  Sum_probs=87.6

Q ss_pred             CceecchhhHHHHHHHHhc----CC---CCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChHHHHHHHHHHhcCCCCCCCC
Q 038234           75 SEICGRDYKKNELLSKLLS----DS---SDQQKPIKMISIVGMGGIGKITLAQMAYNDKDFRVAKAIIAALGCETSNLGS  147 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~----~~---~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~~~i~~~l~~~~~~~~~  147 (406)
                      .++.|.++.+++|.+.+..    ..   ..+-...+-+.++|++|+|||++|+++++.....+...-...+..... ...
T Consensus         4 ~dv~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~l~~ala~~~~~~~~~i~~~~l~~~~~-g~~   82 (258)
T d1e32a2           4 DDVGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLA-GES   82 (258)
T ss_dssp             GGCCSCSHHHHHHHHHHHHHHHCHHHHHHCCCCCCCEEEEECCTTSSHHHHHHHHHHHTTCEEEEECHHHHTTSCT-THH
T ss_pred             hhhccHHHHHHHHHHHHHHHhcCHHHHHhCCCCCCceeEEecCCCCCchHHHHHHHHHhCCeEEEEEchhhccccc-ccH
Confidence            3578999988888776421    00   001234567899999999999999999886543111000011111111 112


Q ss_pred             HHHHHHHHHhhccCcceeEEeeCCCCcC-------ccCcc----hhhhccC--CCCCCcEEEEecCChHHHH-Hh----c
Q 038234          148 LQSLVRCISESIEGKKYLVVLDDVWTDD-------YTKWE----PFQRCSA--NGQCGNNILVTTHKKTVAR-MM----E  209 (406)
Q Consensus       148 ~~~~~~~l~~~l~~kr~LlVlDdvw~~~-------~~~~~----~l~~~l~--~~~~gs~IivTtR~~~v~~-~~----~  209 (406)
                      ...+...+...-..++++|++||+..--       .....    .+...+.  ....+.-||.||....... .+    .
T Consensus        83 ~~~l~~~f~~A~~~~p~il~iDeid~l~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~vlvi~tTn~~~~ld~al~r~gR  162 (258)
T d1e32a2          83 ESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRAHVIVMAATNRPNSIDPALRRFGR  162 (258)
T ss_dssp             HHHHHHHHHHHHHTCSEEEEESSGGGTCCHHHHCCCTTHHHHHHHHHHHHHTCCCSSCEEEEEEESCGGGSCGGGTSTTS
T ss_pred             HHHHHHHHHHHHhcCCeEEEehhhhhhccCCCCCCCchHHHHHHHhccccccccccCCccEEEeCCCccccchhhhhccc
Confidence            2334444445556789999999995321       01111    1111111  2233445566887754322 11    1


Q ss_pred             cCCccccCCCChHHHHHhhhhhc
Q 038234          210 STNFISIKELSTQECWSLFKQES  232 (406)
Q Consensus       210 ~~~~~~l~~L~~~~a~~Lf~~~~  232 (406)
                      -...+.++..+.++-..+|....
T Consensus       163 fd~~i~~~~P~~~~R~~il~~~l  185 (258)
T d1e32a2         163 FDREVDIGIPDATGRLEILQIHT  185 (258)
T ss_dssp             SCEEEECCCCCHHHHHHHHHHTT
T ss_pred             ccceeECCCCCHHHHHHHhhhhc
Confidence            26788999999999888887643

>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=97.99  E-value=7.4e-06  Score=69.76  Aligned_cols=120  Identities=20%  Similarity=0.238  Sum_probs=69.5

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCChH-----------HHHHHHHHHhcCCCCCCCCHHHHHHHHHhhccCcceeEEeeC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDKDF-----------RVAKAIIAALGCETSNLGSLQSLVRCISESIEGKKYLVVLDD  170 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~~~-----------~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDd  170 (406)
                      ...+.|+|.+|+|||.|++++++....           .+...+...+...     ........+    . .--+|+|||
T Consensus        36 ~n~l~l~G~~G~GKTHLl~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~----~-~~dll~iDD  105 (213)
T d1l8qa2          36 YNPIFIYGSVGTGKTHLLQAAGNEAKKRGYRVIYSSADDFAQAMVEHLKKG-----TINEFRNMY----K-SVDLLLLDD  105 (213)
T ss_dssp             CSSEEEECSSSSSHHHHHHHHHHHHHHTTCCEEEEEHHHHHHHHHHHHHHT-----CHHHHHHHH----H-TCSEEEEEC
T ss_pred             CCcEEEECCCCCcHHHHHHHHHHHhccCccceEEechHHHHHHHHHHHHcc-----chhhHHHHH----h-hccchhhhh
Confidence            344789999999999999999886432           2333333332211     111111111    1 346899999


Q ss_pred             CCCcC-ccCcch-hhhccCC-CCCCcEEEEecCCh---------HHHHHhccCCccccCCCChHHHHHhhhhhc
Q 038234          171 VWTDD-YTKWEP-FQRCSAN-GQCGNNILVTTHKK---------TVARMMESTNFISIKELSTQECWSLFKQES  232 (406)
Q Consensus       171 vw~~~-~~~~~~-l~~~l~~-~~~gs~IivTtR~~---------~v~~~~~~~~~~~l~~L~~~~a~~Lf~~~~  232 (406)
                      +.... ...|.. +...+.. ...|..||+||+..         ++...+....++.++ ++.++-.+++++.+
T Consensus       106 i~~i~~~~~~~~~lf~lin~~~~~~~~iiits~~~p~~l~~~~~dL~SRL~~g~~~~i~-p~d~~~~~iL~~~a  178 (213)
T d1l8qa2         106 VQFLSGKERTQIEFFHIFNTLYLLEKQIILASDRHPQKLDGVSDRLVSRFEGGILVEIE-LDNKTRFKIIKEKL  178 (213)
T ss_dssp             GGGGTTCHHHHHHHHHHHHHHHHTTCEEEEEESSCGGGCTTSCHHHHHHHHTSEEEECC-CCHHHHHHHHHHHH
T ss_pred             hhhhcCchHHHHHHHHHHHHHhhccceEEEecCCcchhccccchHHHHHhhCceEEEEC-CCcHHHHHHHHHHH
Confidence            95432 123443 2222221 23467899999853         455555667777885 46666677777655

>d1d2na_ c.37.1.20 (A:) Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein {Chinese hamster (Cricetulus griseus) [TaxId: 10029]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

Probab=97.93  E-value=5.8e-07  Score=78.65  Aligned_cols=90  Identities=17%  Similarity=0.162  Sum_probs=52.3

Q ss_pred             CceecchhhHHHHHHHHh-------cCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChHHHHHHHHHHhcCC-CCCCC
Q 038234           75 SEICGRDYKKNELLSKLL-------SDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDFRVAKAIIAALGCE-TSNLG  146 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~-------~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~~~i~~~l~~~-~~~~~  146 (406)
                      ..++|..+.++.+++.+.       ...   ..+.+-|.++|++|+|||++|+++++.....+.     .+... .....
T Consensus         9 ~~~i~~~~~i~~i~~~~~~~~~~~~~~~---~~p~~~vLL~GppGtGKT~la~alA~~~~~~~~-----~i~~~~~~~g~   80 (246)
T d1d2na_           9 NGIIKWGDPVTRVLDDGELLVQQTKNSD---RTPLVSVLLEGPPHSGKTALAAKIAEESNFPFI-----KICSPDKMIGF   80 (246)
T ss_dssp             TCCCCCSHHHHHHHHHHHHHHHHHHHCS---SCSEEEEEEECSTTSSHHHHHHHHHHHHTCSEE-----EEECGGGCTTC
T ss_pred             cCCcCcCHHHHHHHHHHHHHHHHHhccC---CCCCeEEEEECcCCCCHHHHHHHHhhccccccc-----ccccccccccc
Confidence            347887777776655443       221   345677899999999999999999865321100     00000 00001


Q ss_pred             C----HHHHHHHHHhhccCcceeEEeeCCC
Q 038234          147 S----LQSLVRCISESIEGKKYLVVLDDVW  172 (406)
Q Consensus       147 ~----~~~~~~~l~~~l~~kr~LlVlDdvw  172 (406)
                      .    ...+.+.+....+..+.+|+||++.
T Consensus        81 ~~~~~~~~i~~if~~A~~~~p~il~iDEid  110 (246)
T d1d2na_          81 SETAKCQAMKKIFDDAYKSQLSCVVVDDIE  110 (246)
T ss_dssp             CHHHHHHHHHHHHHHHHTSSEEEEEECCHH
T ss_pred             cccchhhhhhhhhhhhhhcccceeehhhhh
Confidence            1    1223334444456778999999983

>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=97.83  E-value=1.6e-06  Score=75.69  Aligned_cols=156  Identities=12%  Similarity=0.098  Sum_probs=80.1

Q ss_pred             CceecchhhHHHHHHHH---hcCC---CCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChHHHHHHHHHHhcCCCCCCCCH
Q 038234           75 SEICGRDYKKNELLSKL---LSDS---SDQQKPIKMISIVGMGGIGKITLAQMAYNDKDFRVAKAIIAALGCETSNLGSL  148 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L---~~~~---~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~~~i~~~l~~~~~~~~~~  148 (406)
                      .+++|.++.+++|.+.+   ....   .-+....+-+.++|++|+|||+||+++++.....+..--...+...... ...
T Consensus         9 ~di~G~~~~k~~l~~~i~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~aia~~~~~~~~~i~~~~l~~~~~g-~~~   87 (247)
T d1ixza_           9 KDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEMFVG-VGA   87 (247)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCSEEEEECCTTSSHHHHHHHHHHHTTCCEEEEEHHHHHHSCTT-HHH
T ss_pred             HHHccHHHHHHHHHHHHHHHHCHHHHHHcCCCCCceEEEecCCCCChhHHHHHHHHHcCCCEEEEEhHHhhhcccc-HHH
Confidence            46889888766655432   2110   0012345678999999999999999998765431100000000000000 112


Q ss_pred             HHHHHHHHhhccCcceeEEeeCCCCc------Ccc--------CcchhhhccCC--CCCCcEEEEecCChH-HHHHh---
Q 038234          149 QSLVRCISESIEGKKYLVVLDDVWTD------DYT--------KWEPFQRCSAN--GQCGNNILVTTHKKT-VARMM---  208 (406)
Q Consensus       149 ~~~~~~l~~~l~~kr~LlVlDdvw~~------~~~--------~~~~l~~~l~~--~~~gs~IivTtR~~~-v~~~~---  208 (406)
                      ..+.+.+...-...+++|+|||+..-      ...        ....+...+..  ...+.-||.||.... +-..+   
T Consensus        88 ~~l~~~f~~a~~~~p~Ii~iDeid~l~~~r~~~~~~~~~~~~~~~~~ll~~~d~~~~~~~vivi~tTn~~~~ld~al~R~  167 (247)
T d1ixza_          88 ARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDTAIVVMAATNRPDILDPALLRP  167 (247)
T ss_dssp             HHHHHHHHHHTTSSSEEEEEETHHHHHC---------CHHHHHHHHHHHHHHHTCCTTCCEEEEEEESCGGGSCGGGGST
T ss_pred             HHHHHHHHHHHHcCCEEEEEEChhhhCccCCCCCCCCcHHHHHHHHHHHHHhhCCCCCCCEEEEEeCCCccccCHhHcCC
Confidence            22333344444567899999998421      000        01122222222  122323344666543 22222   


Q ss_pred             c-cCCccccCCCChHHHHHhhhhh
Q 038234          209 E-STNFISIKELSTQECWSLFKQE  231 (406)
Q Consensus       209 ~-~~~~~~l~~L~~~~a~~Lf~~~  231 (406)
                      + -...+.+.+.+.++-.++|+..
T Consensus       168 ~Rf~~~i~~~~P~~~eR~~il~~~  191 (247)
T d1ixza_         168 GRFDRQIAIDAPDVKGREQILRIH  191 (247)
T ss_dssp             TSSCEEEECCSCCHHHHHHHHHHH
T ss_pred             CCCcEEEEECCcCHHHHHHHHHHH
Confidence            1 2567889999999988888753

>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=97.75  E-value=1.5e-06  Score=76.33  Aligned_cols=152  Identities=14%  Similarity=0.119  Sum_probs=83.3

Q ss_pred             CceecchhhHHHHHHH---HhcCC---CCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChHHHHHHHHHHhcCCC----CC
Q 038234           75 SEICGRDYKKNELLSK---LLSDS---SDQQKPIKMISIVGMGGIGKITLAQMAYNDKDFRVAKAIIAALGCET----SN  144 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~---L~~~~---~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~~~i~~~l~~~~----~~  144 (406)
                      .+++|.++..++|.+.   +....   .-+....+.+.++|++|+|||+||+.+++.....+.     .+....    ..
T Consensus        12 ~Di~Gl~~~k~~l~e~v~~~~~~~~~~~~g~~~~~~iLL~GppGtGKT~la~~iA~~~~~~~~-----~i~~~~l~~~~~   86 (256)
T d1lv7a_          12 ADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAKVPFF-----TISGSDFVEMFV   86 (256)
T ss_dssp             GGSCSCHHHHHHTHHHHHHHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHHTCCEE-----EECSCSSTTSCC
T ss_pred             HHHhchHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEeeCCCCCCccHHHHHHHHHcCCCEE-----EEEhHHhhhcch
Confidence            5688998877777554   32211   001234567889999999999999998764321000     000000    01


Q ss_pred             CCCHHHHHHHHHhhccCcceeEEeeCCCCc------Cc----cC----cchhhhccC--CCCCCcEEEEecCChHHH-HH
Q 038234          145 LGSLQSLVRCISESIEGKKYLVVLDDVWTD------DY----TK----WEPFQRCSA--NGQCGNNILVTTHKKTVA-RM  207 (406)
Q Consensus       145 ~~~~~~~~~~l~~~l~~kr~LlVlDdvw~~------~~----~~----~~~l~~~l~--~~~~gs~IivTtR~~~v~-~~  207 (406)
                      ......+.+.+...-...+++|++||+..-      ..    ..    ...+...+.  ....+.-||.||.+.... ..
T Consensus        87 g~~~~~l~~~f~~A~~~~P~il~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~~d~~~~~~~v~vIatTn~~~~ld~a  166 (256)
T d1lv7a_          87 GVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEGNEGIIVIAATNRPDVLDPA  166 (256)
T ss_dssp             CCCHHHHHHHHHHHHTTCSEEEEETTHHHHTCCCSTTSCCTTCHHHHHHHHHHHHHHTCCSSSCEEEEEEESCTTTSCGG
T ss_pred             hHHHHHHHHHHHHHHHcCCEEEEEEChhhhCccCCCCCCCCcHHHHHHHHHHHHHhhCCCCCCCEEEEEeCCCcccCCHh
Confidence            123344555555555678899999998421      00    01    111222222  123344555577764332 22


Q ss_pred             hc----cCCccccCCCChHHHHHhhhhh
Q 038234          208 ME----STNFISIKELSTQECWSLFKQE  231 (406)
Q Consensus       208 ~~----~~~~~~l~~L~~~~a~~Lf~~~  231 (406)
                      +-    -...+.+.+.+.++-..+|+..
T Consensus       167 l~R~gRfd~~i~i~~P~~~~R~~il~~~  194 (256)
T d1lv7a_         167 LLRPGRFDRQVVVGLPDVRGREQILKVH  194 (256)
T ss_dssp             GGSTTSSCEEEECCCCCHHHHHHHHHHH
T ss_pred             HcCCCCCCEEEECCCcCHHHHHHHHHHh
Confidence            21    2567889999988887777653

>d1in4a2 c.37.1.20 (A:17-254) Holliday junction helicase RuvB {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermotoga maritima [TaxId: 2336]

Probab=97.71  E-value=4.8e-06  Score=72.12  Aligned_cols=148  Identities=12%  Similarity=0.132  Sum_probs=78.2

Q ss_pred             CceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChHHHHHHHHHHhcCCCCCCCCHHHHHHH
Q 038234           75 SEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDFRVAKAIIAALGCETSNLGSLQSLVRC  154 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~  154 (406)
                      .+++|.+..+++|..++..... .....+-+.++|++|+|||++|+.+++.....+.       ............+...
T Consensus         9 ~divGqe~~~~~l~~~i~~~~~-~~~~~~~~L~~GPpGtGKT~lA~~la~~~~~~~~-------~~~~~~~~~~~~~~~~   80 (238)
T d1in4a2           9 DEFIGQENVKKKLSLALEAAKM-RGEVLDHVLLAGPPGLGKTTLAHIIASELQTNIH-------VTSGPVLVKQGDMAAI   80 (238)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHH-HTCCCCCEEEESSTTSSHHHHHHHHHHHHTCCEE-------EEETTTCCSHHHHHHH
T ss_pred             HHcCChHHHHHHHHHHHHHHHh-cCCCCCeEEEECCCCCcHHHHHHHHHhccCCCcc-------cccCcccccHHHHHHH
Confidence            4689999999999888753210 0223445789999999999999988764321100       0001112223333333


Q ss_pred             HHhhccCcceeEEeeCCCCcCccCcchhhhccC------------------CCCCCcEEEEecCC-hHHHH--HhccCCc
Q 038234          155 ISESIEGKKYLVVLDDVWTDDYTKWEPFQRCSA------------------NGQCGNNILVTTHK-KTVAR--MMESTNF  213 (406)
Q Consensus       155 l~~~l~~kr~LlVlDdvw~~~~~~~~~l~~~l~------------------~~~~gs~IivTtR~-~~v~~--~~~~~~~  213 (406)
                      +..  .+++..+++|.+...+...-+.+.....                  ...+...+|.+|.+ .....  .......
T Consensus        81 ~~~--~~~~~~~~ide~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~I~at~~~~~~~~~~~~r~~~~  158 (238)
T d1in4a2          81 LTS--LERGDVLFIDEIHRLNKAVEELLYSAIEDFQIDIMIGKGPSAKSIRIDIQPFTLVGATTRSGLLSSPLRSRFGII  158 (238)
T ss_dssp             HHH--CCTTCEEEEETGGGCCHHHHHHHHHHHHTSCCCC---------------CCCEEEEEESCGGGSCHHHHTTCSEE
T ss_pred             HHh--hccCCchHHHHHHHhhhHHHhhcccceeeeeeeeeecCcccccccccCCCCeEEEEecCCCccccccceeeeeEE
Confidence            332  3456778888774432110000110000                  01123345544444 33222  2222456


Q ss_pred             cccCCCChHHHHHhhhhhc
Q 038234          214 ISIKELSTQECWSLFKQES  232 (406)
Q Consensus       214 ~~l~~L~~~~a~~Lf~~~~  232 (406)
                      +.+...+.++...++...+
T Consensus       159 ~~~~~~~~~~~~~~l~~~~  177 (238)
T d1in4a2         159 LELDFYTVKELKEIIKRAA  177 (238)
T ss_dssp             EECCCCCHHHHHHHHHHHH
T ss_pred             EEecCCCHHHHHHHHHHhh
Confidence            7889999998888777644

>d1r7ra3 c.37.1.20 (A:471-735) Membrane fusion ATPase VCP/p97 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Membrane fusion ATPase VCP/p97
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.68  E-value=2.9e-06  Score=75.01  Aligned_cols=155  Identities=14%  Similarity=0.054  Sum_probs=84.0

Q ss_pred             CceecchhhHHHHHHHHhc---CC----CCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChHHHHHHHHHHhcCCCCCCCC
Q 038234           75 SEICGRDYKKNELLSKLLS---DS----SDQQKPIKMISIVGMGGIGKITLAQMAYNDKDFRVAKAIIAALGCETSNLGS  147 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~---~~----~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~~~i~~~l~~~~~~~~~  147 (406)
                      .+++|.++.+++|.+.+..   ..    ..+-...+.|.++|++|+|||+||+++++.....+...-...+..... ...
T Consensus         7 ~di~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~Gp~GtGKT~l~~ala~~~~~~~~~~~~~~l~~~~~-~~~   85 (265)
T d1r7ra3           7 EDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQANFISIKGPELLTMWF-GES   85 (265)
T ss_dssp             SSCSSSSCCCCHHHHHTHHHHHCHHHHHHCCCCCCCEEEEBCCTTSSHHHHHHHHHHHTTCEEEEECHHHHHTSCT-TTH
T ss_pred             HHhcCHHHHHHHHHHHHHHHhhCHHHHHhCCCCCCCeEEEECCCCCcchhHHHHHHHHhCCcEEEEEHHHhhhccc-cch
Confidence            3477877776666655421   00    001344667889999999999999999886543111000111111111 122


Q ss_pred             HHHHHHHHHhhccCcceeEEeeCCCCcC------ccCc--------chhhhccCC--CCCCcEEEEecCChHHH-HHhc-
Q 038234          148 LQSLVRCISESIEGKKYLVVLDDVWTDD------YTKW--------EPFQRCSAN--GQCGNNILVTTHKKTVA-RMME-  209 (406)
Q Consensus       148 ~~~~~~~l~~~l~~kr~LlVlDdvw~~~------~~~~--------~~l~~~l~~--~~~gs~IivTtR~~~v~-~~~~-  209 (406)
                      ...+...+...-...+++|+|||+..--      ....        ..+...+..  ..++-.||.||...+.. ..+. 
T Consensus        86 ~~~l~~~f~~A~~~~p~il~ideid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vi~ttn~~~~ld~al~r  165 (265)
T d1r7ra3          86 EANVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKKNVFIIGATNRPDIIDPAILR  165 (265)
T ss_dssp             HHHHHHHHHHHHHTCSEEEEESSGGGTCCHHHHCCCTTHHHHHHHHHHHHHTCC------CCEEEECCBSCTTTSCGGGS
T ss_pred             HHHHHHHHHHHHhcCCcceeHHhhhhccccCCCcCCCCcHHHHHHHHHHHHHhhCcCCCCCEEEEEeCCCchhCCHHHhC
Confidence            3334444444555788999999994211      0111        122223322  12344566777664322 2221 


Q ss_pred             ---cCCccccCCCChHHHHHhhhh
Q 038234          210 ---STNFISIKELSTQECWSLFKQ  230 (406)
Q Consensus       210 ---~~~~~~l~~L~~~~a~~Lf~~  230 (406)
                         -...++++..+.++-..+|+.
T Consensus       166 ~gRf~~~i~~~~p~~~~R~~il~~  189 (265)
T d1r7ra3         166 PGRLDQLIYIPLPDEKSRVAILKA  189 (265)
T ss_dssp             STTSEEEEECCCCCCHHHHHHHHH
T ss_pred             CCCccEEEEecchHHHHHHHHHHH
Confidence               256789999999998888865

>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=97.40  E-value=3.9e-05  Score=66.20  Aligned_cols=90  Identities=19%  Similarity=0.331  Sum_probs=53.4

Q ss_pred             CceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChHHHHHHHHHHhcCCCCCCCCHHHHHHH
Q 038234           75 SEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDFRVAKAIIAALGCETSNLGSLQSLVRC  154 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~  154 (406)
                      .++||-+..+++|..++..... ....++-+.++|++|+||||+|+.+++.....+       .................
T Consensus         9 ddivGq~~~~~~L~~~i~~~~~-~~~~~~~~Ll~GPpG~GKTtla~~la~~~~~~~-------~~~~~~~~~~~~~~~~~   80 (239)
T d1ixsb2           9 DEYIGQERLKQKLRVYLEAAKA-RKEPLEHLLLFGPPGLGKTTLAHVIAHELGVNL-------RVTSGPAIEKPGDLAAI   80 (239)
T ss_dssp             GGSCSCHHHHHHHHHHHHHHTT-SSSCCCCEEEECCTTSCHHHHHHHHHHHHTCCE-------EEEETTTCCSHHHHHHH
T ss_pred             HHhCCHHHHHHHHHHHHHHHHh-cCCCCCeEEEECCCCCCHHHHHHHHHHHhCCCe-------EeccCCccccchhhHHH
Confidence            4689999888888888753221 123355677999999999999999876432100       00011122333344444


Q ss_pred             HHhhccCcceeEEeeCCCC
Q 038234          155 ISESIEGKKYLVVLDDVWT  173 (406)
Q Consensus       155 l~~~l~~kr~LlVlDdvw~  173 (406)
                      +.+.+.. +.++++|++..
T Consensus        81 ~~~~~~~-~~i~~iDe~~~   98 (239)
T d1ixsb2          81 LANSLEE-GDILFIDEIHR   98 (239)
T ss_dssp             HHTTCCT-TCEEEEETGGG
T ss_pred             HHhhccC-CCeeeeecccc
Confidence            5555444 44567788744

>d2gnoa2 c.37.1.20 (A:11-208) gamma subunit of DNA polymerase III, N-domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: gamma subunit of DNA polymerase III, N-domain
species: Thermotoga maritima [TaxId: 2336]

Probab=97.32  E-value=0.00022  Score=59.46  Aligned_cols=126  Identities=8%  Similarity=-0.087  Sum_probs=71.1

Q ss_pred             HHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChHHHH--HHHHHHhcCCCCCCCCHHHHHHHHHhh---
Q 038234           84 KNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDFRVA--KAIIAALGCETSNLGSLQSLVRCISES---  158 (406)
Q Consensus        84 ~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~--~~i~~~l~~~~~~~~~~~~~~~~l~~~---  158 (406)
                      ++-+.+++..      .....+.++|.+|+|||++|..+.+.......  .++ ..+..+ ...-..+++...+...   
T Consensus         3 ~~~l~~~i~~------~~~~~~l~~G~~g~gk~~~a~~l~~~i~~~~~~h~D~-~~i~~~-~~~I~Id~IR~i~~~~~~~   74 (198)
T d2gnoa2           3 LETLKRIIEK------SEGISILINGEDLSYPREVSLELPEYVEKFPPKASDV-LEIDPE-GENIGIDDIRTIKDFLNYS   74 (198)
T ss_dssp             HHHHHHHHHT------CSSEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTTE-EEECCS-SSCBCHHHHHHHHHHHTSC
T ss_pred             HHHHHHHHhc------CCCceEEEECCCCCCHHHHHHHHHHHHhccccCCCCE-EEEeCC-cCCCCHHHHHHHHHHHhhC
Confidence            4455555553      34789999999999999999877652110000  000 000000 0111344444322221   


Q ss_pred             -ccCcceeEEeeCCCCcCccCcchhhhccCCCCCCcEEEEecCCh-HHHHHhc-cCCccccC
Q 038234          159 -IEGKKYLVVLDDVWTDDYTKWEPFQRCSANGQCGNNILVTTHKK-TVARMME-STNFISIK  217 (406)
Q Consensus       159 -l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~~~gs~IivTtR~~-~v~~~~~-~~~~~~l~  217 (406)
                       ..+++-++|+|++...+...++.+...+-.-.+++.+|++|.+. .+...+. ....+.+.
T Consensus        75 ~~~~~~KviIId~ad~l~~~aqNaLLK~LEEPp~~t~fiLit~~~~~ll~TI~SRC~~i~~~  136 (198)
T d2gnoa2          75 PELYTRKYVIVHDCERMTQQAANAFLKALEEPPEYAVIVLNTRRWHYLLPTIKSRVFRVVVN  136 (198)
T ss_dssp             CSSSSSEEEEETTGGGBCHHHHHHTHHHHHSCCTTEEEEEEESCGGGSCHHHHTTSEEEECC
T ss_pred             cccCCCEEEEEeCccccchhhhhHHHHHHhCCCCCceeeeccCChhhCHHHHhcceEEEeCC
Confidence             23555699999998888788888888886656677777766664 3333322 23445554

>d1m8pa3 c.37.1.15 (A:391-573) ATP sulfurylase C-terminal domain {Fungus (Penicillium chrysogenum) [TaxId: 5076]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ATP sulfurylase C-terminal domain
domain: ATP sulfurylase C-terminal domain
species: Fungus (Penicillium chrysogenum) [TaxId: 5076]

Probab=97.11  E-value=0.00014  Score=59.15  Aligned_cols=28  Identities=18%  Similarity=0.029  Sum_probs=23.7

Q ss_pred             CCCcEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234           99 QKPIKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus        99 ~~~~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      ..+..+|.|+|++|+||||+|+.+.+..
T Consensus         3 ~~~g~~I~l~G~~GsGKTTia~~La~~L   30 (183)
T d1m8pa3           3 ATQGFTIFLTGYMNSGKDAIARALQVTL   30 (183)
T ss_dssp             TTCCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            4557899999999999999999887654

>d1rz3a_ c.37.1.6 (A:) Hypothetical protein rbstp0775 {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Hypothetical protein rbstp0775
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=97.08  E-value=0.00027  Score=58.27  Aligned_cols=40  Identities=23%  Similarity=0.232  Sum_probs=29.7

Q ss_pred             hHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234           83 KKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus        83 ~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      .++.|.+....-.   ..+.-+|+|.|.+|+||||||+.+...
T Consensus         6 ~~~~~~~~~~~~~---~~~~~iIgI~G~~GSGKSTla~~L~~~   45 (198)
T d1rz3a_           6 RIDFLCKTILAIK---TAGRLVLGIDGLSRSGKTTLANQLSQT   45 (198)
T ss_dssp             HHHHHHHHHHTSC---CSSSEEEEEEECTTSSHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcc---CCCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            4555555554433   455778999999999999999988654

>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=97.03  E-value=0.00013  Score=59.55  Aligned_cols=25  Identities=24%  Similarity=0.191  Sum_probs=22.3

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      .+.|+|.|++|+||||||+.+.+..
T Consensus         7 ~K~I~i~G~~GsGKTTla~~La~~~   31 (192)
T d1lw7a2           7 AKTVAILGGESSGKSVLVNKLAAVF   31 (192)
T ss_dssp             CEEEEEECCTTSHHHHHHHHHHHHT
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHh
Confidence            6789999999999999999987654

>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=96.94  E-value=0.00019  Score=56.73  Aligned_cols=23  Identities=35%  Similarity=0.406  Sum_probs=20.0

Q ss_pred             EEEEEeeeCCCcHHHHHHHHhcC
Q 038234          103 KMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       103 ~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ++|.|+|++|+||||||+.+...
T Consensus         3 klIii~G~pGsGKTTla~~L~~~   25 (152)
T d1ly1a_           3 KIILTIGCPGSGKSTWAREFIAK   25 (152)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHh
Confidence            57889999999999999987643

>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=96.93  E-value=0.00014  Score=58.07  Aligned_cols=25  Identities=28%  Similarity=0.361  Sum_probs=21.5

Q ss_pred             EEEEEeeeCCCcHHHHHHHHhcCCh
Q 038234          103 KMISIVGMGGIGKITLAQMAYNDKD  127 (406)
Q Consensus       103 ~vi~I~G~gGiGKTtLA~~v~~~~~  127 (406)
                      +.|.|+|++|+||||+|+.+++...
T Consensus         3 k~I~l~G~~GsGKSTvak~La~~L~   27 (169)
T d1kaga_           3 RNIFLVGPMGAGKSTIGRQLAQQLN   27 (169)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHHTT
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHhC
Confidence            3588889999999999999987654

>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=96.92  E-value=0.0002  Score=57.72  Aligned_cols=24  Identities=29%  Similarity=0.369  Sum_probs=21.2

Q ss_pred             EEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          103 KMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       103 ~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      ++|.|.|++|+||||+|+.+.+..
T Consensus         3 klI~i~G~~GsGKTTva~~L~~~~   26 (176)
T d2bdta1           3 KLYIITGPAGVGKSTTCKRLAAQL   26 (176)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHc
Confidence            589999999999999999887654

>d1qvra3 c.37.1.20 (A:536-850) ClpB, AAA+ modules {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Thermus thermophilus [TaxId: 274]

Probab=96.92  E-value=0.00018  Score=64.72  Aligned_cols=123  Identities=14%  Similarity=0.204  Sum_probs=64.6

Q ss_pred             ceecchhhHHHHHHHHhcC---CCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCC---hHHHH--------H-HHHHHhcC
Q 038234           76 EICGRDYKKNELLSKLLSD---SSDQQKPIKMISIVGMGGIGKITLAQMAYNDK---DFRVA--------K-AIIAALGC  140 (406)
Q Consensus        76 ~~vGR~~~~~~l~~~L~~~---~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~---~~~~~--------~-~i~~~l~~  140 (406)
                      .++|.++.++.+...+...   ....+.+..++.++|+.|+|||.||+.+++..   ...+.        . .-...+.+
T Consensus        24 ~v~GQ~~ai~~v~~~i~~~~~~l~~~~kp~~~~lf~Gp~G~GKt~lak~la~~l~~~~~~~~~~~~~~~~~~~~~~~L~g  103 (315)
T d1qvra3          24 RVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLFDTEEAMIRIDMTEYMEKHAVSRLIG  103 (315)
T ss_dssp             HSCSCHHHHHHHHHHHHHHGGGCSCSSSCSEEEEEBSCSSSSHHHHHHHHHHHHHSSGGGEEEECTTTCCSSGGGGGC--
T ss_pred             eEeCHHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCcchHHHHHHHHHHHhcCCCcceEEEeccccccchhhhhhcC
Confidence            4678888777776655321   11114456688999999999999998776542   11000        0 00000000


Q ss_pred             CCCC---CCCHHHHHHHHHhhccCcceeEEeeCCCCcCccCcchhhhccCCC-----------CCCcEEEEecCC
Q 038234          141 ETSN---LGSLQSLVRCISESIEGKKYLVVLDDVWTDDYTKWEPFQRCSANG-----------QCGNNILVTTHK  201 (406)
Q Consensus       141 ~~~~---~~~~~~~~~~l~~~l~~kr~LlVlDdvw~~~~~~~~~l~~~l~~~-----------~~gs~IivTtR~  201 (406)
                      ..+.   ......+...+++   ....+++||++...+...++.+...+..+           -.++-+|+||..
T Consensus       104 ~~~gyvG~~~~~~l~~~~~~---~p~~Vvl~DEieK~~~~v~~~ll~~l~~g~~~~~~gr~v~~~~~i~i~tsnl  175 (315)
T d1qvra3         104 APPGYVGYEEGGQLTEAVRR---RPYSVILFDEIEKAHPDVFNILLQILDDGRLTDSHGRTVDFRNTVIILTSNL  175 (315)
T ss_dssp             ------------CHHHHHHH---CSSEEEEESSGGGSCHHHHHHHHHHHTTTEECCSSSCCEECTTEEEEEECCT
T ss_pred             CCCCCcCcccCChHHHHHHh---CCCcEEEEehHhhcCHHHHHHHHHHhccCceeCCCCcEecCcceEEEEeccc
Confidence            0000   0011123333332   45689999999776666666665555321           124556677764

>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=96.85  E-value=0.00022  Score=57.40  Aligned_cols=23  Identities=26%  Similarity=0.420  Sum_probs=20.3

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhc
Q 038234          102 IKMISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      .+|++|+|.+|+|||||+.++.+
T Consensus         2 ~Pvi~itG~~GSGKTTL~~~L~~   24 (170)
T d1np6a_           2 IPLLAFAAWSGTGKTTLLKKLIP   24 (170)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHH
Confidence            35899999999999999998754

>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=96.81  E-value=0.00025  Score=57.31  Aligned_cols=28  Identities=32%  Similarity=0.361  Sum_probs=23.8

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhcCCh
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYNDKD  127 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~  127 (406)
                      +....|.|.|++|+||||+|+.+.+...
T Consensus         3 pk~~~I~i~G~~GsGKTT~~~~La~~l~   30 (174)
T d1y63a_           3 PKGINILITGTPGTGKTSMAEMIAAELD   30 (174)
T ss_dssp             CSSCEEEEECSTTSSHHHHHHHHHHHST
T ss_pred             CCCCEEEEEeCCCCCHHHHHHHHHHHhC
Confidence            4566789999999999999999987653

>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=96.77  E-value=0.00036  Score=56.14  Aligned_cols=28  Identities=18%  Similarity=0.317  Sum_probs=24.0

Q ss_pred             CCCcEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234           99 QKPIKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus        99 ~~~~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      +...+++.|.|++|+||||+|+.+.+..
T Consensus         3 ~~~~~iivl~G~~GsGKsT~a~~La~~l   30 (171)
T d1knqa_           3 NHDHHIYVLMGVSGSGKSAVASEVAHQL   30 (171)
T ss_dssp             CTTSEEEEEECSTTSCHHHHHHHHHHHH
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            4568899999999999999999987643

>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=96.73  E-value=0.00054  Score=55.27  Aligned_cols=27  Identities=26%  Similarity=0.258  Sum_probs=23.9

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHhcCCh
Q 038234          101 PIKMISIVGMGGIGKITLAQMAYNDKD  127 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~~~~~  127 (406)
                      ..++|.|.|++|+||||+|+.+.+...
T Consensus         3 ~g~iI~l~G~~GsGKSTia~~La~~lg   29 (176)
T d1zp6a1           3 GGNILLLSGHPGSGKSTIAEALANLPG   29 (176)
T ss_dssp             TTEEEEEEECTTSCHHHHHHHHHTCSS
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHhC
Confidence            367999999999999999999988754

>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=96.71  E-value=0.00025  Score=57.64  Aligned_cols=23  Identities=30%  Similarity=0.436  Sum_probs=19.8

Q ss_pred             EEEEEeeeCCCcHHHHHHHHhcC
Q 038234          103 KMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       103 ~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      +.|.|+|++|+|||||+++++..
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            46899999999999999987643

>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=96.68  E-value=0.00033  Score=56.35  Aligned_cols=24  Identities=29%  Similarity=0.415  Sum_probs=20.4

Q ss_pred             EEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          103 KMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       103 ~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      +.|.|.|++|+||||+|+.+.+..
T Consensus         5 ~~I~i~G~pGsGKTTia~~La~~l   28 (173)
T d1rkba_           5 PNILLTGTPGVGKTTLGKELASKS   28 (173)
T ss_dssp             CCEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHH
Confidence            457799999999999999987653

>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=96.65  E-value=0.00074  Score=58.67  Aligned_cols=45  Identities=18%  Similarity=0.311  Sum_probs=31.3

Q ss_pred             hhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCCh
Q 038234           82 YKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKD  127 (406)
Q Consensus        82 ~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~  127 (406)
                      ..+.+.++.+..... ..+.++.|.++|++|+||||||+.+++...
T Consensus        13 ~~~~~~~~~~~~~~~-~~~~P~~ilL~GpPGtGKT~la~~la~~~~   57 (273)
T d1gvnb_          13 NRLNDNLEELIQGKK-AVESPTAFLLGGQPGSGKTSLRSAIFEETQ   57 (273)
T ss_dssp             HHHHHHHHHHHTTCC-CCSSCEEEEEECCTTSCTHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHhccc-CCCCCEEEEEECCCCCCHHHHHHHHHHHhh
Confidence            344444555544332 245577899999999999999999987643

>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=96.65  E-value=0.00055  Score=56.53  Aligned_cols=28  Identities=21%  Similarity=0.181  Sum_probs=24.1

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhcCCh
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYNDKD  127 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~  127 (406)
                      ..+.+|.|+|++|+||||+|+.+++...
T Consensus         4 ~kp~iI~i~G~pGSGKsT~a~~La~~~g   31 (194)
T d1qf9a_           4 SKPNVVFVLGGPGSGKGTQCANIVRDFG   31 (194)
T ss_dssp             CCCEEEEEEESTTSSHHHHHHHHHHHHC
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHHC
Confidence            4578999999999999999999987643

>d1mv5a_ c.37.1.12 (A:) Multidrug resistance ABC transporter LmrA, C-terminal domain {Lactococcus lactis [TaxId: 1358]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Multidrug resistance ABC transporter LmrA, C-terminal domain
species: Lactococcus lactis [TaxId: 1358]

Probab=96.64  E-value=0.00038  Score=59.85  Aligned_cols=26  Identities=27%  Similarity=0.310  Sum_probs=22.5

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          101 PIKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      +...++|+|+.|.|||||++.+..-.
T Consensus        27 ~Ge~vaivG~sGsGKSTLl~ll~gl~   52 (242)
T d1mv5a_          27 PNSIIAFAGPSGGGKSTIFSLLERFY   52 (242)
T ss_dssp             TTEEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHhh
Confidence            35689999999999999999987654

>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=96.60  E-value=0.00047  Score=57.54  Aligned_cols=25  Identities=20%  Similarity=0.251  Sum_probs=21.8

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      +.+|.++|.+|+||||||+++++..
T Consensus         2 p~li~l~GlpgsGKSTla~~L~~~l   26 (213)
T d1bifa1           2 PTLIVMVGLPARGKTYISKKLTRYL   26 (213)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHH
Confidence            4589999999999999999988644

>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=96.59  E-value=0.00049  Score=56.98  Aligned_cols=29  Identities=24%  Similarity=0.311  Sum_probs=25.7

Q ss_pred             CCCcEEEEEeeeCCCcHHHHHHHHhcCCh
Q 038234           99 QKPIKMISIVGMGGIGKITLAQMAYNDKD  127 (406)
Q Consensus        99 ~~~~~vi~I~G~gGiGKTtLA~~v~~~~~  127 (406)
                      .+..++|.|.|++|+||||+|+.+++.+.
T Consensus         5 ~~~~~iI~i~GppGSGKsT~a~~La~~~g   33 (196)
T d1ukza_           5 PDQVSVIFVLGGPGAGKGTQCEKLVKDYS   33 (196)
T ss_dssp             TTTCEEEEEECSTTSSHHHHHHHHHHHSS
T ss_pred             CCCCcEEEEECCCCCCHHHHHHHHHHHhC
Confidence            45688999999999999999999988765

>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=96.56  E-value=0.00055  Score=55.62  Aligned_cols=62  Identities=26%  Similarity=0.367  Sum_probs=38.2

Q ss_pred             CCCcEEEEEeeeCCCcHHHHHHHHhcCChH-HHHHHHHHHhcCCCCCCCCHHHHHHHHHhhccCcceeEEeeCC
Q 038234           99 QKPIKMISIVGMGGIGKITLAQMAYNDKDF-RVAKAIIAALGCETSNLGSLQSLVRCISESIEGKKYLVVLDDV  171 (406)
Q Consensus        99 ~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~-~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv  171 (406)
                      .+.+.+|.++|++|+||||+|+.+...... .+-.          +.......+...++..|..+ ..+|+|+.
T Consensus        11 ~~~p~liil~G~pGsGKST~a~~l~~~~~~~~i~~----------D~~~~~~~~~~~~~~~l~~g-~~vIiD~t   73 (172)
T d1yj5a2          11 SPNPEVVVAVGFPGAGKSTFIQEHLVSAGYVHVNR----------DTLGSWQRCVSSCQAALRQG-KRVVIDNT   73 (172)
T ss_dssp             CSSCCEEEEECCTTSSHHHHHHHHTGGGTCEEEEH----------HHHCSHHHHHHHHHHHHHTT-CCEEEESC
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHhcCCEEEch----------HHHHHHHHHHHHHHHHHHCC-CCceeeCc
Confidence            355779999999999999999988654321 0000          00112334455556666544 35778877

>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=96.55  E-value=0.0004  Score=57.18  Aligned_cols=27  Identities=19%  Similarity=0.139  Sum_probs=22.6

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      ....+|.++|++|+||||+|+.+....
T Consensus        17 ~~g~vI~L~G~pGSGKTTiAk~La~~l   43 (195)
T d1x6va3          17 FRGCTVWLTGLSGAGKTTVSMALEEYL   43 (195)
T ss_dssp             CCCEEEEEESSCHHHHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            346788999999999999999986543

>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=96.54  E-value=0.00051  Score=55.33  Aligned_cols=25  Identities=20%  Similarity=0.211  Sum_probs=21.9

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      .++|.|.|.+|+||||+|+.+.+..
T Consensus         3 ~kiI~l~G~~GsGKsTva~~L~~~l   27 (178)
T d1qhxa_           3 TRMIILNGGSSAGKSGIVRCLQSVL   27 (178)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHS
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHc
Confidence            4689999999999999999987753

>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=96.46  E-value=0.00058  Score=55.55  Aligned_cols=23  Identities=30%  Similarity=0.667  Sum_probs=20.5

Q ss_pred             EEEEEeeeCCCcHHHHHHHHhcC
Q 038234          103 KMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       103 ~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ++|+|.|++|+||||+++.+.+.
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            58999999999999999888654

>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=96.45  E-value=0.0013  Score=55.02  Aligned_cols=73  Identities=14%  Similarity=0.064  Sum_probs=41.0

Q ss_pred             CCCcEEEEEeeeCCCcHHHHHHHHhcCChH------------------HHHHHHHHHhcCCCC---CCCCHHHHHHHHHh
Q 038234           99 QKPIKMISIVGMGGIGKITLAQMAYNDKDF------------------RVAKAIIAALGCETS---NLGSLQSLVRCISE  157 (406)
Q Consensus        99 ~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~------------------~~~~~i~~~l~~~~~---~~~~~~~~~~~l~~  157 (406)
                      ...+.||.++|+.|+||||.+.+++.....                  +.++.....++....   ...+...+......
T Consensus         6 ~~~p~vi~lvGptGvGKTTTiAKLA~~~~~~g~kV~lit~Dt~R~gA~eQL~~~a~~l~v~~~~~~~~~d~~~~l~~~~~   85 (211)
T d2qy9a2           6 GKAPFVILMVGVNGVGKTTTIGKLARQFEQQGKSVMLAAGDTFRAAAVEQLQVWGQRNNIPVIAQHTGADSASVIFDAIQ   85 (211)
T ss_dssp             SCTTEEEEEECCTTSCHHHHHHHHHHHHHTTTCCEEEECCCTTCHHHHHHHHHHHHHTTCCEECCSTTCCHHHHHHHHHH
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEecccccccchhhhhhhhhhcCCcccccccCCCHHHHHHHHHH
Confidence            355789999999999999866555432211                  556666666665432   22333333333222


Q ss_pred             hcc-CcceeEEeeCC
Q 038234          158 SIE-GKKYLVVLDDV  171 (406)
Q Consensus       158 ~l~-~kr~LlVlDdv  171 (406)
                      ..+ ...=++++|=.
T Consensus        86 ~a~~~~~d~ilIDTa  100 (211)
T d2qy9a2          86 AAKARNIDVLIADTA  100 (211)
T ss_dssp             HHHHTTCSEEEECCC
T ss_pred             HHHHcCCCEEEeccC
Confidence            222 22236677754

>d1l2ta_ c.37.1.12 (A:) MJ0796 {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: MJ0796
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=96.41  E-value=0.003  Score=53.44  Aligned_cols=24  Identities=29%  Similarity=0.325  Sum_probs=21.2

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ..+++|+|+.|+|||||.+.+..-
T Consensus        31 Ge~~~iiG~sGsGKSTLl~~i~gl   54 (230)
T d1l2ta_          31 GEFVSIMGPSGSGKSTMLNIIGCL   54 (230)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CCEEEEECCCCCCcchhhHhccCC
Confidence            458999999999999999988764

>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=96.37  E-value=0.0007  Score=54.25  Aligned_cols=23  Identities=43%  Similarity=0.566  Sum_probs=19.9

Q ss_pred             EEEeeeCCCcHHHHHHHHhcCCh
Q 038234          105 ISIVGMGGIGKITLAQMAYNDKD  127 (406)
Q Consensus       105 i~I~G~gGiGKTtLA~~v~~~~~  127 (406)
                      |.|.||+|+||||+|+.+++...
T Consensus         3 I~liG~~GsGKsTi~k~La~~l~   25 (161)
T d1viaa_           3 IVFIGFMGSGKSTLARALAKDLD   25 (161)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHHhC
Confidence            67889999999999999987653

>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=96.37  E-value=0.00069  Score=54.44  Aligned_cols=23  Identities=26%  Similarity=0.374  Sum_probs=18.9

Q ss_pred             EEEeeeCCCcHHHHHHHHhcCCh
Q 038234          105 ISIVGMGGIGKITLAQMAYNDKD  127 (406)
Q Consensus       105 i~I~G~gGiGKTtLA~~v~~~~~  127 (406)
                      |.++|++|+||||+|+.+++...
T Consensus         4 IvliG~~G~GKSTig~~La~~l~   26 (165)
T d2iyva1           4 AVLVGLPGSGKSTIGRRLAKALG   26 (165)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHHhC
Confidence            44669999999999999987643

>d1j8yf2 c.37.1.10 (F:87-297) GTPase domain of the signal sequence recognition protein Ffh {Archaeon Acidianus ambivalens [TaxId: 2283]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal sequence recognition protein Ffh
species: Archaeon Acidianus ambivalens [TaxId: 2283]

Probab=96.32  E-value=0.0015  Score=54.60  Aligned_cols=26  Identities=35%  Similarity=0.332  Sum_probs=16.6

Q ss_pred             CCCcEEEEEeeeCCCcHHHHHHHHhc
Q 038234           99 QKPIKMISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus        99 ~~~~~vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      ...+.||.++|+.|+||||.+.+++.
T Consensus         9 ~k~p~vi~lvGptGvGKTTTiAKLA~   34 (211)
T d1j8yf2           9 DKIPYVIMLVGVQGTGKATTAGKLAY   34 (211)
T ss_dssp             SSSSEEEEEECSCCC----HHHHHHH
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHH
Confidence            35688999999999999986644443

>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=96.28  E-value=0.00085  Score=53.85  Aligned_cols=23  Identities=26%  Similarity=0.283  Sum_probs=20.0

Q ss_pred             EEEEEeeeCCCcHHHHHHHHhcC
Q 038234          103 KMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       103 ~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ++++|+|..|+|||||+.++...
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            58999999999999999886543

>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=96.23  E-value=0.00044  Score=61.88  Aligned_cols=50  Identities=22%  Similarity=0.242  Sum_probs=34.0

Q ss_pred             ceecchhhHHHHHHHHhc----CCCC----CCCCcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234           76 EICGRDYKKNELLSKLLS----DSSD----QQKPIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus        76 ~~vGR~~~~~~l~~~L~~----~~~~----~~~~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      .++|-++.++.+...+..    ..-.    ...+.+.+.++|++|+|||.||+++++.
T Consensus        15 ~ViGQd~A~~~l~~av~~~~~r~~~~~~~~~~~~~~~iLl~GPpG~GKT~lAkalA~~   72 (309)
T d1ofha_          15 HIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKL   72 (309)
T ss_dssp             TCCSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHHH
T ss_pred             cccChHHHHHHHHHHHHHHHHHhccCCCCccCCCCceEEEECCCCCCHHHHHHHHhhc
Confidence            567888887777655521    1000    0123567789999999999999998764

>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=96.22  E-value=0.00076  Score=54.48  Aligned_cols=24  Identities=25%  Similarity=0.260  Sum_probs=20.2

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcCCh
Q 038234          104 MISIVGMGGIGKITLAQMAYNDKD  127 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~~~  127 (406)
                      .|.++|++|+||||+|+.+++...
T Consensus         4 ~Iil~G~~GsGKSTia~~LA~~Lg   27 (170)
T d1e6ca_           4 PIFMVGARGCGMTTVGRELARALG   27 (170)
T ss_dssp             CEEEESCTTSSHHHHHHHHHHHHT
T ss_pred             CEEEECCCCCCHHHHHHHHHHHhC
Confidence            466889999999999999987643

>d1jj7a_ c.37.1.12 (A:) Peptide transporter Tap1, C-terminal ABC domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Peptide transporter Tap1, C-terminal ABC domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.21  E-value=0.0011  Score=57.11  Aligned_cols=27  Identities=33%  Similarity=0.433  Sum_probs=22.9

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHhcCCh
Q 038234          101 PIKMISIVGMGGIGKITLAQMAYNDKD  127 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~~~~~  127 (406)
                      +...++|+|..|.|||||++.+..-..
T Consensus        39 ~Ge~vaivG~sGsGKSTLl~li~gl~~   65 (251)
T d1jj7a_          39 PGEVTALVGPNGSGKSTVAALLQNLYQ   65 (251)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSSC
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhcccC
Confidence            356899999999999999999887543

>d3b60a1 c.37.1.12 (A:329-581) Multidrug resistance ABC transporter MsbA, C-terminal domain {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Multidrug resistance ABC transporter MsbA, C-terminal domain
species: Salmonella typhimurium [TaxId: 90371]

Probab=96.20  E-value=0.00046  Score=59.73  Aligned_cols=25  Identities=32%  Similarity=0.379  Sum_probs=21.8

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      ..+++|+|+.|.|||||++.+..-.
T Consensus        41 Ge~iaivG~sGsGKSTLl~ll~gl~   65 (253)
T d3b60a1          41 GKTVALVGRSGSGKSTIASLITRFY   65 (253)
T ss_dssp             TCEEEEEECTTSSHHHHHHHHTTTT
T ss_pred             CCEEEEECCCCChHHHHHHHHhccc
Confidence            4589999999999999999987643

>d1r0wa_ c.37.1.12 (A:) Cystic fibrosis transmembrane conductance regulator, CFTR, nucleotide-binding domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Cystic fibrosis transmembrane conductance regulator, CFTR, nucleotide-binding domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=96.19  E-value=0.0029  Score=55.35  Aligned_cols=26  Identities=27%  Similarity=0.420  Sum_probs=22.4

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          101 PIKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      +..+++|+|+.|.|||||++.+....
T Consensus        61 ~Ge~vaivG~nGsGKSTLl~~i~Gl~   86 (281)
T d1r0wa_          61 KGEMLAITGSTGSGKTSLLMLILGEL   86 (281)
T ss_dssp             TTCEEEEEESTTSSHHHHHHHHHTSS
T ss_pred             CCCEEEEECCCCChHHHHHHHHhCCC
Confidence            35689999999999999999997654

>d2pmka1 c.37.1.12 (A:467-707) Haemolysin B ATP-binding protein {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Haemolysin B ATP-binding protein
species: Escherichia coli [TaxId: 562]

Probab=96.19  E-value=0.00046  Score=59.23  Aligned_cols=26  Identities=35%  Similarity=0.348  Sum_probs=22.5

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCCh
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDKD  127 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~~  127 (406)
                      ...++|+|..|.|||||++.+..-..
T Consensus        29 Ge~vaIvG~sGsGKSTLl~ll~gl~~   54 (241)
T d2pmka1          29 GEVIGIVGRSGSGKSTLTKLIQRFYI   54 (241)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTSSC
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhcCC
Confidence            45899999999999999999987543

>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=96.16  E-value=0.001  Score=53.71  Aligned_cols=23  Identities=35%  Similarity=0.436  Sum_probs=19.9

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcCC
Q 038234          104 MISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      -|.|+|++|+|||||++.+....
T Consensus         2 ki~I~G~~G~GKSTLl~~i~~~l   24 (178)
T d1ye8a1           2 KIIITGEPGVGKTTLVKKIVERL   24 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCcHHHHHHHHHHhcC
Confidence            37999999999999999987643

>d1ls1a2 c.37.1.10 (A:89-295) GTPase domain of the signal sequence recognition protein Ffh {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal sequence recognition protein Ffh
species: Thermus aquaticus [TaxId: 271]

Probab=96.16  E-value=0.005  Score=51.17  Aligned_cols=25  Identities=32%  Similarity=0.312  Sum_probs=19.8

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhc
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      ++.+|+.++|+.|+||||.+.+++.
T Consensus         8 ~~~~vi~lvGp~GvGKTTTiaKLA~   32 (207)
T d1ls1a2           8 KDRNLWFLVGLQGSGKTTTAAKLAL   32 (207)
T ss_dssp             CSSEEEEEECCTTTTHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHH
Confidence            3468999999999999987655543

>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=96.15  E-value=0.0013  Score=53.52  Aligned_cols=23  Identities=26%  Similarity=0.354  Sum_probs=20.3

Q ss_pred             EEEEEeeeCCCcHHHHHHHHhcC
Q 038234          103 KMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       103 ~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ++|.|.|++|+||||+++.+.+.
T Consensus         2 kiivi~G~~GsGKTT~~~~La~~   24 (194)
T d1nksa_           2 KIGIVTGIPGVGKSTVLAKVKEI   24 (194)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            68899999999999999888654

>d2awna2 c.37.1.12 (A:4-235) Maltose transport protein MalK, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Maltose transport protein MalK, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=96.14  E-value=0.0022  Score=54.34  Aligned_cols=25  Identities=32%  Similarity=0.383  Sum_probs=21.8

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      ..+++|+|+.|.|||||.+.+.--.
T Consensus        26 Gei~~liGpsGsGKSTLl~~i~Gl~   50 (232)
T d2awna2          26 GEFVVFVGPSGCGKSTLLRMIAGLE   50 (232)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CCEEEEECCCCChHHHHHHHHhcCC
Confidence            4589999999999999999887654

>d1vmaa2 c.37.1.10 (A:82-294) GTPase domain of the signal recognition particle receptor FtsY {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Thermotoga maritima [TaxId: 2336]

Probab=96.09  E-value=0.0026  Score=53.21  Aligned_cols=26  Identities=31%  Similarity=0.425  Sum_probs=20.5

Q ss_pred             CCCcEEEEEeeeCCCcHHHHHHHHhc
Q 038234           99 QKPIKMISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus        99 ~~~~~vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      ...+.||.++|+.|+||||.+.+++.
T Consensus         8 ~~~p~vi~lvGptGvGKTTTiAKLAa   33 (213)
T d1vmaa2           8 PEPPFVIMVVGVNGTGKTTSCGKLAK   33 (213)
T ss_dssp             SSSCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHH
Confidence            45678999999999999986654443

>d1okkd2 c.37.1.10 (D:97-303) GTPase domain of the signal recognition particle receptor FtsY {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Thermus aquaticus [TaxId: 271]

Probab=96.04  E-value=0.0021  Score=53.54  Aligned_cols=25  Identities=24%  Similarity=0.368  Sum_probs=19.6

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhc
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      ++.++|.++|+.|+||||.+.+++.
T Consensus         4 ~~~~vi~lvGptGvGKTTTiaKLA~   28 (207)
T d1okkd2           4 PKGRVVLVVGVNGVGKTTTIAKLGR   28 (207)
T ss_dssp             CSSSEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHH
Confidence            4567999999999999987644443

>d1g2912 c.37.1.12 (1:1-240) Maltose transport protein MalK, N-terminal domain {Archaeon Thermococcus litoralis [TaxId: 2265]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Maltose transport protein MalK, N-terminal domain
species: Archaeon Thermococcus litoralis [TaxId: 2265]

Probab=96.03  E-value=0.0038  Score=53.13  Aligned_cols=25  Identities=24%  Similarity=0.312  Sum_probs=21.7

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      ..+++|+|+.|.|||||++.++.-.
T Consensus        29 Ge~~~liG~sGaGKSTll~~i~gl~   53 (240)
T d1g2912          29 GEFMILLGPSGCGKTTTLRMIAGLE   53 (240)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             CCEEEEECCCCChHHHHHHHHhcCC
Confidence            4589999999999999999987643

>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=95.99  E-value=0.0016  Score=53.48  Aligned_cols=26  Identities=19%  Similarity=0.152  Sum_probs=22.4

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCCh
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDKD  127 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~~  127 (406)
                      +.+|.|.|++|+||||+|+.+++...
T Consensus         1 p~iI~i~GppGSGKsT~a~~La~~~g   26 (194)
T d1teva_           1 PLVVFVLGGPGAGKGTQCARIVEKYG   26 (194)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHC
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHhC
Confidence            35899999999999999999987543

>d1q3ta_ c.37.1.1 (A:) CMP kinase {Streptococcus pneumoniae [TaxId: 1313]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: CMP kinase
species: Streptococcus pneumoniae [TaxId: 1313]

Probab=95.95  E-value=0.0027  Score=53.31  Aligned_cols=39  Identities=26%  Similarity=0.221  Sum_probs=29.4

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcCChH------HHHHHHHHHhcCCC
Q 038234          104 MISIVGMGGIGKITLAQMAYNDKDF------RVAKAIIAALGCET  142 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~~~~------~~~~~i~~~l~~~~  142 (406)
                      +|+|-|++|+||||+|+.+......      .+++.+........
T Consensus         5 ~IaIdGp~GsGKgT~ak~La~~lg~~~istGdl~R~~a~~~~~~~   49 (223)
T d1q3ta_           5 QIAIDGPASSGKSTVAKIIAKDFGFTYLDTGAMYRAATYMALKNQ   49 (223)
T ss_dssp             EEEEECSSCSSHHHHHHHHHHHHCCEEEEHHHHHHHHHHHHHHTT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCcEECHHHHHHHHHHHHHHcC
Confidence            6889999999999999999887654      66666554443333

>d1v43a3 c.37.1.12 (A:7-245) Hypothetical protein PH0022, N-terminal domain {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Hypothetical protein PH0022, N-terminal domain
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=95.94  E-value=0.0047  Score=52.44  Aligned_cols=26  Identities=23%  Similarity=0.349  Sum_probs=22.3

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCCh
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDKD  127 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~~  127 (406)
                      ..+++|+|+.|.|||||.+.+..-..
T Consensus        32 Ge~~~liGpsGaGKSTLl~~i~Gl~~   57 (239)
T d1v43a3          32 GEFLVLLGPSGCGKTTTLRMIAGLEE   57 (239)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHTSSC
T ss_pred             CCEEEEECCCCChHHHHHHHHHcCCC
Confidence            45899999999999999999877543

>d1ji0a_ c.37.1.12 (A:) Branched chain aminoacid ABC transporter {Thermotoga maritima, TM1139 [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Branched chain aminoacid ABC transporter
species: Thermotoga maritima, TM1139 [TaxId: 2336]

Probab=95.91  E-value=0.0029  Score=53.98  Aligned_cols=26  Identities=19%  Similarity=0.286  Sum_probs=22.4

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCCh
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDKD  127 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~~  127 (406)
                      -.+++|+|+.|.|||||.+.+.--..
T Consensus        32 Gei~~liGpnGaGKSTl~~~i~Gl~~   57 (240)
T d1ji0a_          32 GQIVTLIGANGAGKTTTLSAIAGLVR   57 (240)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTSSC
T ss_pred             CCEEEEECCCCCcHHHHHHHHhCCCC
Confidence            45899999999999999999987543

>d2hyda1 c.37.1.12 (A:324-578) Putative multidrug export ATP-binding/permease protein SAV1866 {Staphylococcus aureus [TaxId: 1280]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative multidrug export ATP-binding/permease protein SAV1866
species: Staphylococcus aureus [TaxId: 1280]

Probab=95.91  E-value=0.00031  Score=60.83  Aligned_cols=25  Identities=32%  Similarity=0.336  Sum_probs=21.4

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      ...++|+|..|.|||||++.+..-.
T Consensus        44 Ge~vaivG~sGsGKSTLl~ll~gl~   68 (255)
T d2hyda1          44 GETVAFVGMSGGGKSTLINLIPRFY   68 (255)
T ss_dssp             TCEEEEECSTTSSHHHHHTTTTTSS
T ss_pred             CCEEEEECCCCCcHHHHHHHHHhcC
Confidence            5589999999999999999886543

>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=95.87  E-value=0.0012  Score=55.37  Aligned_cols=35  Identities=23%  Similarity=0.328  Sum_probs=28.2

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCChH------HHHHHHHH
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDKDF------RVAKAIIA  136 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~~~------~~~~~i~~  136 (406)
                      .+||+|.|++|+||||+|+.+.+++..      .+++.+..
T Consensus         3 ~piI~I~GppGSGKgT~ak~La~~~gl~~iStGdLlR~~a~   43 (225)
T d1ckea_           3 APVITIDGPSGAGKGTLCKAMAEALQWHLLDSGAIYRVLAL   43 (225)
T ss_dssp             SCEEEEECCTTSSHHHHHHHHHHHHTCEEEEHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHhCCcEECHHHHHHHHHH
Confidence            349999999999999999999988763      56665543

>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=95.85  E-value=0.0025  Score=52.21  Aligned_cols=24  Identities=33%  Similarity=0.349  Sum_probs=20.9

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHhc
Q 038234          101 PIKMISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      .+.+|+|+|+.|+||||+|..+-+
T Consensus         2 ~p~IIgitG~~gSGKstva~~l~~   25 (191)
T d1uf9a_           2 HPIIIGITGNIGSGKSTVAALLRS   25 (191)
T ss_dssp             CCEEEEEEECTTSCHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
Confidence            367999999999999999987754

>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=95.85  E-value=0.0021  Score=53.71  Aligned_cols=24  Identities=17%  Similarity=0.128  Sum_probs=20.7

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      +-+|+|.|..|+||||+|+.+.+.
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            458999999999999999887553

>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=95.84  E-value=0.0019  Score=53.12  Aligned_cols=28  Identities=21%  Similarity=0.237  Sum_probs=22.7

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhcCCh
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYNDKD  127 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~  127 (406)
                      .....|.|.|++|+||||+|+.++..+.
T Consensus         4 ~r~mrIiliG~PGSGKtT~a~~La~~~g   31 (189)
T d2ak3a1           4 ARLLRAAIMGAPGSGKGTVSSRITKHFE   31 (189)
T ss_dssp             SCCCEEEEECCTTSSHHHHHHHHHHHBC
T ss_pred             CcceeEEEECCCCCCHHHHHHHHHHHHC
Confidence            3455667889999999999999988654

>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=95.84  E-value=0.0022  Score=55.70  Aligned_cols=21  Identities=43%  Similarity=0.610  Sum_probs=18.2

Q ss_pred             EEEEEeeeCCCcHHHHHHHHh
Q 038234          103 KMISIVGMGGIGKITLAQMAY  123 (406)
Q Consensus       103 ~vi~I~G~gGiGKTtLA~~v~  123 (406)
                      +.|+|+|-||+||||+|..+.
T Consensus         2 r~Iai~gKGGvGKTT~a~nLA   22 (269)
T d1cp2a_           2 RQVAIYGKGGIGKSTTTQNLT   22 (269)
T ss_dssp             EEEEEEECTTSSHHHHHHHHH
T ss_pred             CEEEEECCCcCCHHHHHHHHH
Confidence            689999999999999986643

>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=95.83  E-value=0.0036  Score=54.53  Aligned_cols=34  Identities=26%  Similarity=0.497  Sum_probs=26.6

Q ss_pred             hHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHH
Q 038234           83 KKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMA  122 (406)
Q Consensus        83 ~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v  122 (406)
                      ++..+.+.+..      ...++|.+.|-||+||||+|..+
T Consensus         7 ~~~~~~~~~~~------~~~~iii~sGKGGVGKTT~a~nL   40 (279)
T d1ihua2           7 SLSALVDDIAR------NEHGLIMLMGKGGVGKTTMAAAI   40 (279)
T ss_dssp             CHHHHHHHHHT------TSCEEEEEECSTTSSHHHHHHHH
T ss_pred             cHHHHHHHhhc------CCCEEEEEECCCCCCHHHHHHHH
Confidence            35566666653      45889999999999999998765

>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=95.82  E-value=0.0024  Score=53.39  Aligned_cols=26  Identities=27%  Similarity=0.220  Sum_probs=22.5

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ....+|-+.|++|+||||||+.+.+.
T Consensus        22 ~kg~vIwltGlsGsGKTTia~~L~~~   47 (208)
T d1m7ga_          22 QRGLTIWLTGLSASGKSTLAVELEHQ   47 (208)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            45779999999999999999987653

>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=95.76  E-value=0.0061  Score=54.27  Aligned_cols=109  Identities=13%  Similarity=0.188  Sum_probs=59.7

Q ss_pred             CceecchhhHHHHHHHHh---cCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCChHHHHHHHHHH---------hcCCC
Q 038234           75 SEICGRDYKKNELLSKLL---SDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDKDFRVAKAIIAA---------LGCET  142 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~---~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~~~i~~~---------l~~~~  142 (406)
                      ..++|-+..++.+...+.   ..-...+.+..++.++|+.|+|||.||+.+++.....+...=+..         +.+..
T Consensus        22 ~~viGQ~~a~~~v~~~v~~~~~~l~~~~~p~~~~lf~Gp~GvGKT~lak~la~~l~~~~i~~d~s~~~~~~~~~~l~g~~  101 (315)
T d1r6bx3          22 MLVFGQDKAIEALTEAIKMARAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKALGIELLRFDMSEYMERHTVSRLIGAP  101 (315)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHHTTCSCTTSCSEEEEEECSTTSSHHHHHHHHHHHHTCEEEEEEGGGCSSSSCCSSSCCCC
T ss_pred             CeecChHHHHHHHHHHHHHHHccCCCCCCCceEEEEECCCcchhHHHHHHHHhhccCCeeEeccccccchhhhhhhcccC
Confidence            457888888888876653   111111455678899999999999999988753211000000000         00000


Q ss_pred             CCCCCH---HHHHHHHHhhccCcceeEEeeCCCCcCccCcchhhhcc
Q 038234          143 SNLGSL---QSLVRCISESIEGKKYLVVLDDVWTDDYTKWEPFQRCS  186 (406)
Q Consensus       143 ~~~~~~---~~~~~~l~~~l~~kr~LlVlDdvw~~~~~~~~~l~~~l  186 (406)
                      +.....   ..+...+   ......+++||++...+.+.|+.+...+
T Consensus       102 ~gy~g~~~~~~l~~~~---~~~~~~vvl~DeieKa~~~V~~~lLqil  145 (315)
T d1r6bx3         102 PGYVGFDQGGLLTDAV---IKHPHAVLLLDEIEKAHPDVFNILLQVM  145 (315)
T ss_dssp             SCSHHHHHTTHHHHHH---HHCSSEEEEEETGGGSCHHHHHHHHHHH
T ss_pred             CCccccccCChhhHHH---HhCccchhhhcccccccchHhhhhHHhh
Confidence            100000   0122222   2345678999999777766676666655

>d1oxxk2 c.37.1.12 (K:1-242) Glucose transport protein GlcV, N-terminal domain {Archaeon Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Glucose transport protein GlcV, N-terminal domain
species: Archaeon Sulfolobus solfataricus [TaxId: 2287]

Probab=95.72  E-value=0.0054  Score=52.13  Aligned_cols=24  Identities=25%  Similarity=0.321  Sum_probs=21.4

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ..+++|+|+.|.|||||.+.+..-
T Consensus        31 Ge~~~iiG~sGsGKSTll~~i~gl   54 (242)
T d1oxxk2          31 GERFGILGPSGAGKTTFMRIIAGL   54 (242)
T ss_dssp             TCEEEEECSCHHHHHHHHHHHHTS
T ss_pred             CCEEEEECCCCCcHHHHHHHHHcC
Confidence            458999999999999999988764

>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=95.70  E-value=0.0021  Score=52.66  Aligned_cols=26  Identities=19%  Similarity=0.127  Sum_probs=21.4

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCCh
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDKD  127 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~~  127 (406)
                      +..|.|.|++|+||||+|+.+++...
T Consensus         3 Pm~I~i~GppGsGKsT~a~~La~~~~   28 (189)
T d1zaka1           3 PLKVMISGAPASGKGTQCELIKTKYQ   28 (189)
T ss_dssp             SCCEEEEESTTSSHHHHHHHHHHHHC
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHC
Confidence            33577999999999999998877653

>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=95.69  E-value=0.0028  Score=51.85  Aligned_cols=26  Identities=23%  Similarity=0.254  Sum_probs=21.0

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHhcCCh
Q 038234          101 PIKMISIVGMGGIGKITLAQMAYNDKD  127 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~~~~~  127 (406)
                      +.++| |.|++|+||||+|+.+++...
T Consensus         3 ~~rii-l~G~pGSGKsT~a~~La~~~g   28 (190)
T d1ak2a1           3 GVRAV-LLGPPGAGKGTQAPKLAKNFC   28 (190)
T ss_dssp             CCEEE-EECCTTSSHHHHHHHHHHHHT
T ss_pred             ccEEE-EECCCCCCHHHHHHHHHHHhC
Confidence            35565 789999999999999887544

>d1vpla_ c.37.1.12 (A:) Putative ABC transporter TM0544 {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative ABC transporter TM0544
species: Thermotoga maritima [TaxId: 2336]

Probab=95.62  E-value=0.0075  Score=51.27  Aligned_cols=26  Identities=19%  Similarity=0.287  Sum_probs=22.6

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCCh
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDKD  127 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~~  127 (406)
                      ..+++|+|+.|.|||||.+.+..-..
T Consensus        28 Gei~glvG~nGaGKSTLl~~l~G~~~   53 (238)
T d1vpla_          28 GEIFGLIGPNGAGKTTTLRIISTLIK   53 (238)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTTSSC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCCC
Confidence            55899999999999999999887543

>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=95.59  E-value=0.0054  Score=54.75  Aligned_cols=38  Identities=21%  Similarity=0.321  Sum_probs=28.6

Q ss_pred             hHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhc
Q 038234           83 KKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus        83 ~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      ...++++.+...    ..+..+|+|+|.||+|||||...+..
T Consensus        36 ~~~~~~~~~~~~----~~~~~~igitG~pGaGKSTli~~l~~   73 (323)
T d2qm8a1          36 AVRDLIDAVLPQ----TGRAIRVGITGVPGVGKSTTIDALGS   73 (323)
T ss_dssp             HHHHHHHHHGGG----CCCSEEEEEECCTTSCHHHHHHHHHH
T ss_pred             HHHHHHHHhhhc----cCCceEEeeeCCCCCCHHHHHHHHHH
Confidence            345556555543    45688999999999999999977654

>d3d31a2 c.37.1.12 (A:1-229) Sulfate/molybdate ABC transporter, ATP-binding protein {Methanosarcina acetivorans [TaxId: 2214]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Sulfate/molybdate ABC transporter, ATP-binding protein
species: Methanosarcina acetivorans [TaxId: 2214]

Probab=95.58  E-value=0.014  Score=49.00  Aligned_cols=25  Identities=20%  Similarity=0.240  Sum_probs=21.9

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      ..+++|+|+.|.|||||.+.+..-.
T Consensus        26 Ge~~~liGpsGaGKSTll~~l~Gl~   50 (229)
T d3d31a2          26 GEYFVILGPTGAGKTLFLELIAGFH   50 (229)
T ss_dssp             TCEEEEECCCTHHHHHHHHHHHTSS
T ss_pred             CCEEEEECCCCCcHHHHHHHHhcCc
Confidence            4589999999999999999987754

>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=95.55  E-value=0.0025  Score=52.44  Aligned_cols=27  Identities=30%  Similarity=0.338  Sum_probs=23.7

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCChH
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDKDF  128 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~~~  128 (406)
                      .++|.|.|++|+||||+|+.+.+.+..
T Consensus         8 ~~iI~l~G~pGSGKsT~a~~La~~~g~   34 (194)
T d3adka_           8 SKIIFVVGGPGSGKGTQCEKIVQKYGY   34 (194)
T ss_dssp             SCEEEEEECTTSSHHHHHHHHHHHTCC
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHhCC
Confidence            578999999999999999999887653

>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=95.53  E-value=0.0027  Score=51.41  Aligned_cols=24  Identities=25%  Similarity=0.307  Sum_probs=20.3

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcCCh
Q 038234          104 MISIVGMGGIGKITLAQMAYNDKD  127 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~~~  127 (406)
                      .|.|.|++|+||||+|+.+++...
T Consensus         2 ~I~i~G~pGSGKsT~a~~La~~~~   25 (182)
T d1zina1           2 NLVLMGLPGAGKGTQAEKIVAAYG   25 (182)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHC
Confidence            377999999999999999876543

>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=0.0066  Score=54.22  Aligned_cols=37  Identities=19%  Similarity=0.228  Sum_probs=28.0

Q ss_pred             HHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhc
Q 038234           84 KNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus        84 ~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      ..++++.+...    ..+..+|+|+|.+|+|||||...+..
T Consensus        40 ~~~ll~~~~~~----~~~~~~IgitG~pGaGKSTLi~~l~~   76 (327)
T d2p67a1          40 STQLLDAIMPY----CGNTLRLGVTGTPGAGKSTFLEAFGM   76 (327)
T ss_dssp             HHHHHHHHGGG----CSCSEEEEEEECTTSCHHHHHHHHHH
T ss_pred             HHHHHHHhhhc----cCCceEEEeeCCCCCCHHHHHHHHHH
Confidence            34555555543    45688999999999999999977653

>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=95.36  E-value=0.0097  Score=52.51  Aligned_cols=26  Identities=35%  Similarity=0.359  Sum_probs=22.4

Q ss_pred             CCCcEEEEEeeeCCCcHHHHHHHHhc
Q 038234           99 QKPIKMISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus        99 ~~~~~vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      ...+-+|+|.|.+|+||||+|+.+..
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            46678999999999999999987754

>d2afhe1 c.37.1.10 (E:1-289) Nitrogenase iron protein {Azotobacter vinelandii [TaxId: 354]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Nitrogenase iron protein
species: Azotobacter vinelandii [TaxId: 354]

Probab=95.34  E-value=0.0043  Score=54.43  Aligned_cols=22  Identities=41%  Similarity=0.569  Sum_probs=18.3

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHh
Q 038234          102 IKMISIVGMGGIGKITLAQMAY  123 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~  123 (406)
                      .+.|+|.|-||+||||+|..+.
T Consensus         2 Mr~IaisgKGGVGKTT~a~NLA   23 (289)
T d2afhe1           2 MRQCAIYGKGGIGKSTTTQNLV   23 (289)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHH
T ss_pred             ccEEEEECCCCCCHHHHHHHHH
Confidence            4678899999999999887653

>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=95.33  E-value=0.0068  Score=52.48  Aligned_cols=72  Identities=21%  Similarity=0.188  Sum_probs=48.7

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhcCChH------------HHHHHHHHHhcCCCC-----CCCCHHHHHHHHHhhccC-
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYNDKDF------------RVAKAIIAALGCETS-----NLGSLQSLVRCISESIEG-  161 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~------------~~~~~i~~~l~~~~~-----~~~~~~~~~~~l~~~l~~-  161 (406)
                      +..+++-|+|.+|+|||+||.+++.....            .+..++++.++.+..     ...+.++..+.+..+++. 
T Consensus        55 p~g~itei~G~~~sGKT~l~l~~~~~aqk~g~~v~yiDtE~~~~~~~a~~~Gvd~d~i~~~~~~~~E~~~~~~~~l~~~~  134 (268)
T d1xp8a1          55 PRGRITEIYGPESGGKTTLALAIVAQAQKAGGTCAFIDAEHALDPVYARALGVNTDELLVSQPDNGEQALEIMELLVRSG  134 (268)
T ss_dssp             ETTSEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEESSCCCCHHHHHHTTCCGGGCEEECCSSHHHHHHHHHHHHTTT
T ss_pred             cCceEEEEecCCccchHHHHHHHHHHHHhCCCEEEEEECCccCCHHHHHHhCCCchhEEEEcCCCHHHHHHHHHHHHhcC
Confidence            45679999999999999999776654322            333456666665543     234566666666655543 


Q ss_pred             cceeEEeeCC
Q 038234          162 KKYLVVLDDV  171 (406)
Q Consensus       162 kr~LlVlDdv  171 (406)
                      +.-|+|+|-+
T Consensus       135 ~~~liIiDSi  144 (268)
T d1xp8a1         135 AIDVVVVDSV  144 (268)
T ss_dssp             CCSEEEEECT
T ss_pred             CCcEEEEecc
Confidence            4669999988

>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=95.33  E-value=0.003  Score=51.38  Aligned_cols=23  Identities=17%  Similarity=0.392  Sum_probs=20.1

Q ss_pred             EEEEEeeeCCCcHHHHHHHHhcC
Q 038234          103 KMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       103 ~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ++|.|+|++|+|||||++.+.+.
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            57899999999999999887654

>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=95.31  E-value=0.0036  Score=50.74  Aligned_cols=24  Identities=25%  Similarity=0.196  Sum_probs=20.5

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcCCh
Q 038234          104 MISIVGMGGIGKITLAQMAYNDKD  127 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~~~  127 (406)
                      .|.|.|++|+||||+|+.+++...
T Consensus         2 ~I~i~G~pGsGKsT~a~~La~~~g   25 (181)
T d2cdna1           2 RVLLLGPPGAGKGTQAVKLAEKLG   25 (181)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHC
Confidence            478889999999999999877643

>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=95.25  E-value=0.0032  Score=51.74  Aligned_cols=22  Identities=27%  Similarity=0.495  Sum_probs=19.0

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcC
Q 038234          104 MISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      .|.|+|++|+|||||++.+.+.
T Consensus         2 pIvl~GPsGsGK~tl~~~L~~~   23 (190)
T d1lvga_           2 PVVLSGPSGAGKSTLLKKLFQE   23 (190)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHh
Confidence            3779999999999999987654

>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=95.22  E-value=0.004  Score=50.55  Aligned_cols=24  Identities=29%  Similarity=0.336  Sum_probs=20.8

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcCCh
Q 038234          104 MISIVGMGGIGKITLAQMAYNDKD  127 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~~~  127 (406)
                      .|.|.|++|+||||+|+.+++...
T Consensus         2 ~I~i~G~pGSGKsT~a~~La~~~g   25 (182)
T d1s3ga1           2 NIVLMGLPGAGKGTQADRIVEKYG   25 (182)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHC
Confidence            477999999999999999887654

>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=95.20  E-value=0.0042  Score=50.94  Aligned_cols=28  Identities=25%  Similarity=0.077  Sum_probs=23.5

Q ss_pred             CCCcEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234           99 QKPIKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus        99 ~~~~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      +..+.+|+|-|.-|+||||+++.+.+..
T Consensus         6 ~~kp~~I~ieG~~GsGKTTl~~~L~~~l   33 (197)
T d2vp4a1           6 GTQPFTVLIEGNIGSGKTTYLNHFEKYK   33 (197)
T ss_dssp             TCCCEEEEEECSTTSCHHHHHHTTGGGT
T ss_pred             CCCceEEEEECCCCCCHHHHHHHHHHHh
Confidence            4556799999999999999999876653

>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=95.08  E-value=0.0038  Score=50.99  Aligned_cols=22  Identities=36%  Similarity=0.514  Sum_probs=19.3

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcC
Q 038234          104 MISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      .|.|+|++|+|||||++.+.+.
T Consensus         3 pIvl~GpsG~GK~tl~~~L~~~   24 (186)
T d1gkya_           3 PIVISGPSGTGKSTLLKKLFAE   24 (186)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHh
Confidence            4789999999999999988654

>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=95.08  E-value=0.0099  Score=51.41  Aligned_cols=73  Identities=23%  Similarity=0.248  Sum_probs=48.7

Q ss_pred             CCCcEEEEEeeeCCCcHHHHHHHHhcCChH------------HHHHHHHHHhcCCCC-----CCCCHHHHHHHHHhhcc-
Q 038234           99 QKPIKMISIVGMGGIGKITLAQMAYNDKDF------------RVAKAIIAALGCETS-----NLGSLQSLVRCISESIE-  160 (406)
Q Consensus        99 ~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~------------~~~~~i~~~l~~~~~-----~~~~~~~~~~~l~~~l~-  160 (406)
                      -+..+++-|+|.+|+||||||.+++.....            .+..+.++.++.+..     .....++..+.+..+.+ 
T Consensus        57 ~~~g~i~e~~G~~~~GKT~l~l~~~~~~q~~g~~~vyIDtE~~~~~e~a~~~GvD~d~il~~~~~~~E~~~~~~~~l~~~  136 (269)
T d1mo6a1          57 LPRGRVIEIYGPESSGKTTVALHAVANAQAAGGVAAFIDAEHALDPDYAKKLGVDTDSLLVSQPDTGEQALEIADMLIRS  136 (269)
T ss_dssp             BCSSSEEEEECSSSSSHHHHHHHHHHHHHHTTCEEEEEESSCCCCHHHHHHHTCCGGGCEEECCSSHHHHHHHHHHHHHT
T ss_pred             cccceeEEEecCCCcHHHHHHHHHHHHHhcCCCEEEEEECCccCCHHHHHHhCCCHHHeEEecCCCHHHHHHHHHHHHhc
Confidence            456789999999999999999777654322            233445566665432     23456666665555544 


Q ss_pred             CcceeEEeeCC
Q 038234          161 GKKYLVVLDDV  171 (406)
Q Consensus       161 ~kr~LlVlDdv  171 (406)
                      ++.-|||+|.+
T Consensus       137 ~~~~liIiDSi  147 (269)
T d1mo6a1         137 GALDIVVIDSV  147 (269)
T ss_dssp             TCEEEEEEECS
T ss_pred             CCCCEEEEecc
Confidence            45679999988

>d1ihua1 c.37.1.10 (A:1-296) Arsenite-translocating ATPase ArsA {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Arsenite-translocating ATPase ArsA
species: Escherichia coli [TaxId: 562]

Probab=95.00  E-value=0.0054  Score=53.67  Aligned_cols=24  Identities=21%  Similarity=0.379  Sum_probs=20.1

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHh
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAY  123 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~  123 (406)
                      ..+++|.+.|-||+||||+|..++
T Consensus         6 ~~p~~i~~sGKGGVGKTTvaa~lA   29 (296)
T d1ihua1           6 NIPPYLFFTGKGGVGKTSISCATA   29 (296)
T ss_dssp             SCCSEEEEECSTTSSHHHHHHHHH
T ss_pred             CCCeEEEEECCCcChHHHHHHHHH
Confidence            347788999999999999987753

>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=94.92  E-value=0.0055  Score=49.61  Aligned_cols=23  Identities=26%  Similarity=0.245  Sum_probs=19.3

Q ss_pred             EEEeeeCCCcHHHHHHHHhcCCh
Q 038234          105 ISIVGMGGIGKITLAQMAYNDKD  127 (406)
Q Consensus       105 i~I~G~gGiGKTtLA~~v~~~~~  127 (406)
                      |.|.|++|+||||+|+.+++...
T Consensus         5 Ivl~G~pGSGKtT~a~~La~~~g   27 (180)
T d1akya1           5 MVLIGPPGAGKGTQAPNLQERFH   27 (180)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHHHhC
Confidence            45779999999999999987643

>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=94.90  E-value=0.0059  Score=49.29  Aligned_cols=24  Identities=29%  Similarity=0.232  Sum_probs=20.4

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcCCh
Q 038234          104 MISIVGMGGIGKITLAQMAYNDKD  127 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~~~  127 (406)
                      .|.|.|++|+||||+|+.+++...
T Consensus         2 ~I~i~G~pGSGKsT~~~~La~~~~   25 (179)
T d1e4va1           2 RIILLGAPVAGKGTQAQFIMEKYG   25 (179)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            467899999999999999987653

>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=94.80  E-value=0.0063  Score=49.30  Aligned_cols=23  Identities=17%  Similarity=0.456  Sum_probs=20.0

Q ss_pred             EEEEEeeeCCCcHHHHHHHHhcC
Q 038234          103 KMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       103 ~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      +.|.|+|++|+|||||++.+..+
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            46899999999999999887754

>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=94.79  E-value=0.01  Score=51.19  Aligned_cols=72  Identities=17%  Similarity=0.190  Sum_probs=45.4

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhcCChH------------HHHHHHHHHhcCCCC-----CCCCHHHHHHHHHhhcc-C
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYNDKDF------------RVAKAIIAALGCETS-----NLGSLQSLVRCISESIE-G  161 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~------------~~~~~i~~~l~~~~~-----~~~~~~~~~~~l~~~l~-~  161 (406)
                      +.-+++-|+|.+|+||||||.+++.....            .+....++.++.+.+     .....++..+.+....+ +
T Consensus        52 ~~g~itei~G~~gsGKTtl~l~~~~~~q~~g~~~vyidtE~~~~~~~a~~~Gvd~d~v~~~~~~~~E~~~~~i~~l~~~~  131 (263)
T d1u94a1          52 PMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEHALDPIYARKLGVDIDNLLCSQPDTGEQALEICDALARSG  131 (263)
T ss_dssp             ETTSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEESSCCCCHHHHHHTTCCGGGCEEECCSSHHHHHHHHHHHHHHT
T ss_pred             cCceEEEEecCCCcHHHHHHHHHHHHHHcCCCEEEEEccccccCHHHHHHhCCCHHHEEEecCCCHHHHHHHHHHHHhcC
Confidence            44679999999999999999777654332            233344555554432     23445555555555544 4


Q ss_pred             cceeEEeeCC
Q 038234          162 KKYLVVLDDV  171 (406)
Q Consensus       162 kr~LlVlDdv  171 (406)
                      +.-|+|+|-+
T Consensus       132 ~~~liViDSi  141 (263)
T d1u94a1         132 AVDVIVVDSV  141 (263)
T ss_dssp             CCSEEEEECG
T ss_pred             CCCEEEEECc
Confidence            4458889987

>d1ny5a2 c.37.1.20 (A:138-384) Transcriptional activator sigm54 (NtrC1), C-terminal domain {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Transcriptional activator sigm54 (NtrC1), C-terminal domain
species: Aquifex aeolicus [TaxId: 63363]

Probab=94.58  E-value=0.0089  Score=51.15  Aligned_cols=46  Identities=26%  Similarity=0.234  Sum_probs=34.8

Q ss_pred             ceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234           76 EICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus        76 ~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      +|||....++++.+.+..-+.   . ..-|.|.|..|+|||++|+.++..
T Consensus         1 ~~v~~S~~~~~~~~~~~~~a~---~-~~pvlI~Ge~GtGK~~~A~~ih~~   46 (247)
T d1ny5a2           1 EYVFESPKMKEILEKIKKISC---A-ECPVLITGESGVGKEVVARLIHKL   46 (247)
T ss_dssp             CCCCCSHHHHHHHHHHHHHTT---C-CSCEEEECSTTSSHHHHHHHHHHH
T ss_pred             CeEecCHHHHHHHHHHHHHhC---C-CCCEEEECCCCcCHHHHHHHHHHh
Confidence            378888888888888765432   1 223688999999999999998653

>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=94.53  E-value=0.0071  Score=54.22  Aligned_cols=44  Identities=27%  Similarity=0.278  Sum_probs=30.7

Q ss_pred             CceecchhhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhc
Q 038234           75 SEICGRDYKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus        75 ~~~vGR~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      ..++|.+..+..|.-.+...      +..-|.|.|.+|+|||+||+.+..
T Consensus         7 ~~I~Gq~~~kral~laa~~~------~~h~vLl~G~pG~GKT~lar~~~~   50 (333)
T d1g8pa_           7 SAIVGQEDMKLALLLTAVDP------GIGGVLVFGDRGTGKSTAVRALAA   50 (333)
T ss_dssp             GGSCSCHHHHHHHHHHHHCG------GGCCEEEECCGGGCTTHHHHHHHH
T ss_pred             hhccCcHHHHHHHHHHHhcc------CCCeEEEECCCCccHHHHHHHHHH
Confidence            45799987666554333211      123588999999999999998753

>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=94.45  E-value=0.0089  Score=49.57  Aligned_cols=24  Identities=21%  Similarity=0.232  Sum_probs=20.5

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      .+++.|+|++|+|||||.+.+...
T Consensus         2 G~livi~GPSG~GK~tl~~~L~~~   25 (205)
T d1s96a_           2 GTLYIVSAPSGAGKSSLIQALLKT   25 (205)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhh
Confidence            357899999999999999887654

>d1svma_ c.37.1.20 (A:) Papillomavirus large T antigen helicase domain {Simian virus 40 [TaxId: 10633]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Papillomavirus large T antigen helicase domain
species: Simian virus 40 [TaxId: 10633]

Probab=94.33  E-value=0.014  Score=52.73  Aligned_cols=27  Identities=22%  Similarity=0.036  Sum_probs=22.8

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      +..+.+.++|++|+|||++|..+++..
T Consensus       152 ~~~~~~~~~g~~~~gk~~~~~~~~~~~  178 (362)
T d1svma_         152 PKKRYWLFKGPIDSGKTTLAAALLELC  178 (362)
T ss_dssp             TTCCEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCcCeEEEECCCCCCHHHHHHHHHHHc
Confidence            456789999999999999999887653

>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=94.30  E-value=0.014  Score=47.63  Aligned_cols=28  Identities=21%  Similarity=0.368  Sum_probs=23.1

Q ss_pred             CCCcEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234           99 QKPIKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus        99 ~~~~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      .++...|+|+|.+|+|||||...+.+..
T Consensus        20 ~~~~~~I~lvG~~n~GKSTLin~L~g~~   47 (195)
T d1svia_          20 EGGLPEIALAGRSNVGKSSFINSLINRK   47 (195)
T ss_dssp             CSCCCEEEEEEBTTSSHHHHHHHHHTC-
T ss_pred             CCCCCEEEEECCCCCCHHHHHHHhcCCC
Confidence            3446679999999999999999998653

>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=94.28  E-value=0.01  Score=50.13  Aligned_cols=20  Identities=35%  Similarity=0.456  Sum_probs=18.3

Q ss_pred             EEEEeeeCCCcHHHHHHHHh
Q 038234          104 MISIVGMGGIGKITLAQMAY  123 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~  123 (406)
                      ||+|+|+.|+|||||...+.
T Consensus         2 vi~v~G~~GsGKTTLl~~ll   21 (244)
T d1yrba1           2 IVVFVGTAGSGKTTLTGEFG   21 (244)
T ss_dssp             EEEEECSTTSSHHHHHHHHH
T ss_pred             EEEEEcCCCCcHHHHHHHHH
Confidence            78999999999999998774

>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=94.27  E-value=0.029  Score=48.63  Aligned_cols=36  Identities=19%  Similarity=-0.033  Sum_probs=28.7

Q ss_pred             HHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234           86 ELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus        86 ~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      ++++.|..-.     ....++|.|..|+|||+|+..+.+..
T Consensus        32 r~ID~l~Pig-----rGQr~~I~g~~g~GKT~l~~~i~~~~   67 (289)
T d1xpua3          32 RVLDLASPIG-----RGQRGLIVAPPKAGKTMLLQNIAQSI   67 (289)
T ss_dssp             HHHHHHSCCB-----TTCEEEEEECSSSSHHHHHHHHHHHH
T ss_pred             eeeeeccccc-----CCCeeeEeCCCCCCHHHHHHHHHHHH
Confidence            6788887653     35688999999999999998887643

>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=94.13  E-value=0.011  Score=46.48  Aligned_cols=22  Identities=32%  Similarity=0.398  Sum_probs=18.9

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcC
Q 038234          104 MISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      -|+|+|.+|+|||||...+...
T Consensus         7 kI~ivG~~~vGKSSLi~~~~~~   28 (169)
T d1upta_           7 RILILGLDGAGKTTILYRLQVG   28 (169)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            3779999999999999887654

>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=94.05  E-value=0.016  Score=50.53  Aligned_cols=25  Identities=28%  Similarity=0.223  Sum_probs=21.3

Q ss_pred             CCCcEEEEEeeeCCCcHHHHHHHHh
Q 038234           99 QKPIKMISIVGMGGIGKITLAQMAY  123 (406)
Q Consensus        99 ~~~~~vi~I~G~gGiGKTtLA~~v~  123 (406)
                      +..+-+|+|.|..|+||||||..+.
T Consensus        24 ~~~P~iIGi~G~qGSGKSTl~~~l~   48 (286)
T d1odfa_          24 NKCPLFIFFSGPQGSGKSFTSIQIY   48 (286)
T ss_dssp             CCSCEEEEEECCTTSSHHHHHHHHH
T ss_pred             CCCCEEEEeECCCCCCHHHHHHHHH
Confidence            4557799999999999999997664

>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=93.97  E-value=0.012  Score=45.87  Aligned_cols=20  Identities=30%  Similarity=0.350  Sum_probs=17.5

Q ss_pred             EEEeeeCCCcHHHHHHHHhc
Q 038234          105 ISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus       105 i~I~G~gGiGKTtLA~~v~~  124 (406)
                      |.|+|.+|+|||||...+..
T Consensus         3 ivlvG~~~vGKSsLi~~l~~   22 (160)
T d1r8sa_           3 ILMVGLDAAGKTTILYKLKL   22 (160)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhc
Confidence            67999999999999987753

>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=93.93  E-value=0.01  Score=48.92  Aligned_cols=25  Identities=28%  Similarity=0.327  Sum_probs=21.5

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      ..+++|+|+.|+|||||.+.++...
T Consensus        27 Gei~~l~G~NGsGKSTLl~~i~gl~   51 (200)
T d1sgwa_          27 GNVVNFHGPNGIGKTTLLKTISTYL   51 (200)
T ss_dssp             TCCEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCChHHHHHHHHhccc
Confidence            4589999999999999999987653

>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=93.93  E-value=0.028  Score=44.76  Aligned_cols=24  Identities=29%  Similarity=0.476  Sum_probs=20.0

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ..-|+|+|.+|+|||||...+...
T Consensus        13 ~~kI~lvG~~~vGKTsLl~~l~~~   36 (186)
T d1f6ba_          13 TGKLVFLGLDNAGKTTLLHMLKDD   36 (186)
T ss_dssp             CEEEEEEEETTSSHHHHHHHHSCC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            345779999999999999887655

>d2jdid3 c.37.1.11 (D:82-357) Central domain of beta subunit of F1 ATP synthase {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of beta subunit of F1 ATP synthase
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=93.90  E-value=0.031  Score=48.17  Aligned_cols=35  Identities=23%  Similarity=0.299  Sum_probs=25.7

Q ss_pred             HHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234           86 ELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus        86 ~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      +.++.|..-.     .-..++|.|.+|+|||+|+..+.+.
T Consensus        57 raID~l~pig-----kGQr~~If~~~g~GKt~l~~~i~~~   91 (276)
T d2jdid3          57 KVVDLLAPYA-----KGGKIGLFGGAGVGKTVLIMELINN   91 (276)
T ss_dssp             HHHHHHSCEE-----TTCEEEEEECTTSSHHHHHHHHHHH
T ss_pred             eeeeeecccc-----CCCEEEeeCCCCCCHHHHHHHHHHH
Confidence            4566666432     2446899999999999998877543

>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=93.86  E-value=0.0069  Score=52.82  Aligned_cols=24  Identities=25%  Similarity=0.302  Sum_probs=17.5

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ..+|+|.|.+|+||||+|+.+.+.
T Consensus         4 ~pIIgIaG~SGSGKTTva~~l~~i   27 (288)
T d1a7ja_           4 HPIISVTGSSGAGTSTVKHTFDQI   27 (288)
T ss_dssp             SCEEEEESCC---CCTHHHHHHHH
T ss_pred             CCEEEEECCCCCcHHHHHHHHHHH
Confidence            459999999999999999876553

>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=93.85  E-value=0.017  Score=48.83  Aligned_cols=24  Identities=25%  Similarity=0.329  Sum_probs=21.3

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ++.|+|-|.-|+||||+++.+.+.
T Consensus         2 pk~IviEG~~GsGKST~~~~L~~~   25 (241)
T d2ocpa1           2 PRRLSIEGNIAVGKSTFVKLLTKT   25 (241)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCcHHHHHHHHHHH
Confidence            679999999999999999887654

>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=93.83  E-value=0.016  Score=48.52  Aligned_cols=21  Identities=33%  Similarity=0.574  Sum_probs=18.0

Q ss_pred             EEEEEe-eeCCCcHHHHHHHHh
Q 038234          103 KMISIV-GMGGIGKITLAQMAY  123 (406)
Q Consensus       103 ~vi~I~-G~gGiGKTtLA~~v~  123 (406)
                      ++|+|+ |-||+||||+|..++
T Consensus         2 kvIav~s~KGGvGKTtia~nlA   23 (232)
T d1hyqa_           2 RTITVASGKGGTGKTTITANLG   23 (232)
T ss_dssp             EEEEEEESSSCSCHHHHHHHHH
T ss_pred             EEEEEECCCCCChHHHHHHHHH
Confidence            688887 789999999998764

>d1zj6a1 c.37.1.8 (A:2-178) ADP-ribosylation factor {Human (Homo sapiens), ARL5A [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL5A [TaxId: 9606]

Probab=93.82  E-value=0.036  Score=43.96  Aligned_cols=24  Identities=25%  Similarity=0.289  Sum_probs=19.5

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      -.-|.|+|.+|+|||||...+...
T Consensus        15 ~~kI~vvG~~~~GKSsLi~rl~~~   38 (177)
T d1zj6a1          15 EHKVIIVGLDNAGKTTILYQFSMN   38 (177)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHTT
T ss_pred             eEEEEEECCCCCCHHHHHHHHhcC
Confidence            345779999999999999876554

>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=93.81  E-value=0.016  Score=49.16  Aligned_cols=24  Identities=25%  Similarity=0.328  Sum_probs=20.8

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ..+++|+|+.|.|||||++.++--
T Consensus        31 Ge~~~iiG~sGsGKSTLl~~i~Gl   54 (240)
T d3dhwc1          31 GQIYGVIGASGAGKSTLIRCVNLL   54 (240)
T ss_dssp             SCEEEEEESTTSSHHHHHHHHTTS
T ss_pred             CCEEEEECCCCCCHHHHHHHHcCC
Confidence            458999999999999999988654

>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=93.75  E-value=0.015  Score=48.09  Aligned_cols=21  Identities=29%  Similarity=0.403  Sum_probs=18.6

Q ss_pred             EEEEeeeCCCcHHHHHHHHhc
Q 038234          104 MISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      +|+|+|+.|+||||+|+.+-.
T Consensus         5 iIgitG~igSGKStv~~~l~~   25 (208)
T d1vhta_           5 IVALTGGIGSGKSTVANAFAD   25 (208)
T ss_dssp             EEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEECCCcCCHHHHHHHHHH
Confidence            899999999999999986643

>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=93.66  E-value=0.016  Score=45.67  Aligned_cols=22  Identities=23%  Similarity=0.326  Sum_probs=18.8

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcC
Q 038234          104 MISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      -|.++|.+|+|||+|...+.+.
T Consensus         4 Kv~liG~~~vGKTsLl~~~~~~   25 (165)
T d1z06a1           4 KIIVIGDSNVGKTCLTYRFCAG   25 (165)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3789999999999999887654

>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=93.62  E-value=0.016  Score=45.94  Aligned_cols=22  Identities=27%  Similarity=0.315  Sum_probs=18.5

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcC
Q 038234          104 MISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      -|.|+|.+|+|||+|+..+.+.
T Consensus         6 KivlvG~~~vGKTsli~~~~~~   27 (166)
T d1z0fa1           6 KYIIIGDMGVGKSCLLHQFTEK   27 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4789999999999999877643

>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=93.59  E-value=0.016  Score=46.35  Aligned_cols=22  Identities=27%  Similarity=0.329  Sum_probs=18.6

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcC
Q 038234          104 MISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      -|.|+|.+|+|||+|+..+.+.
T Consensus         5 KivvvG~~~vGKTsli~r~~~~   26 (173)
T d2a5ja1           5 KYIIIGDTGVGKSCLLLQFTDK   26 (173)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHhcC
Confidence            3679999999999999876654

>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=93.59  E-value=0.012  Score=49.72  Aligned_cols=25  Identities=36%  Similarity=0.270  Sum_probs=22.1

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      .+.|+|-|+-|+||||+|+.+.+..
T Consensus         2 ~k~I~ieG~dGsGKST~~~~L~~~l   26 (241)
T d1p5zb_           2 IKKISIEGNIAAGKSTFVNILKQLC   26 (241)
T ss_dssp             CEEEEEECSTTSSHHHHHTTTGGGC
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHH
Confidence            5789999999999999999887654

>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=93.56  E-value=0.018  Score=45.40  Aligned_cols=22  Identities=18%  Similarity=0.383  Sum_probs=18.7

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcC
Q 038234          104 MISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      -|.|+|.+|+|||||...+...
T Consensus         4 ki~ivG~~~~GKTsLi~~l~~~   25 (165)
T d1ksha_           4 RLLMLGLDNAGKTTILKKFNGE   25 (165)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTC
T ss_pred             EEEEECCCCCCHHHHHHHHcCC
Confidence            3679999999999999887654

>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=93.53  E-value=0.018  Score=49.43  Aligned_cols=24  Identities=33%  Similarity=0.333  Sum_probs=20.8

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ..+++|+|+.|.|||||++.+..-
T Consensus        28 GEi~~iiG~sGsGKSTLl~~i~Gl   51 (258)
T d1b0ua_          28 GDVISIIGSSGSGKSTFLRCINFL   51 (258)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CCEEEEECCCCCcHHHHHHHHHcC
Confidence            458999999999999999988643

>d1n0wa_ c.37.1.11 (A:) DNA repair protein Rad51, catalytic domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.52  E-value=0.015  Score=47.78  Aligned_cols=25  Identities=12%  Similarity=0.094  Sum_probs=21.1

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhc
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      +...++.|.|.+|+|||+||.+++.
T Consensus        21 ~~G~v~~i~G~~GsGKT~l~l~la~   45 (242)
T d1n0wa_          21 ETGSITEMFGEFRTGKTQICHTLAV   45 (242)
T ss_dssp             ETTSEEEEECCTTSSHHHHHHHHHH
T ss_pred             cCCEEEEEEeCCCCCHHHHHHHHHH
Confidence            4467999999999999999987653

>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=93.52  E-value=0.017  Score=45.61  Aligned_cols=20  Identities=30%  Similarity=0.554  Sum_probs=17.5

Q ss_pred             EEEeeeCCCcHHHHHHHHhc
Q 038234          105 ISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus       105 i~I~G~gGiGKTtLA~~v~~  124 (406)
                      |.++|.+|+|||||+..+.+
T Consensus         5 v~liG~~~vGKSsLi~rl~~   24 (164)
T d1z2aa1           5 MVVVGNGAVGKSSMIQRYCK   24 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            67999999999999987654

>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=93.50  E-value=0.019  Score=45.56  Aligned_cols=21  Identities=29%  Similarity=0.594  Sum_probs=18.1

Q ss_pred             EEEeeeCCCcHHHHHHHHhcC
Q 038234          105 ISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       105 i~I~G~gGiGKTtLA~~v~~~  125 (406)
                      |.++|.+|+|||||...+...
T Consensus         5 i~viG~~~vGKTsLi~r~~~~   25 (171)
T d2erxa1           5 VAVFGAGGVGKSSLVLRFVKG   25 (171)
T ss_dssp             EEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            578999999999999877654

>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=93.46  E-value=0.019  Score=48.57  Aligned_cols=25  Identities=24%  Similarity=0.256  Sum_probs=21.6

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhc
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      +.-+++.|+|.+|+|||++|.++..
T Consensus        34 p~G~~~li~G~pGsGKT~~~lq~~~   58 (254)
T d1pzna2          34 ETQAITEVFGEFGSGKTQLAHTLAV   58 (254)
T ss_dssp             ESSEEEEEEESTTSSHHHHHHHHHH
T ss_pred             cCCEEEEEEcCCCCCHHHHHHHHHH
Confidence            4578999999999999999987753

>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=93.41  E-value=0.019  Score=47.41  Aligned_cols=22  Identities=27%  Similarity=0.433  Sum_probs=19.3

Q ss_pred             EEEEEeeeCCCcHHHHHHHHhc
Q 038234          103 KMISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus       103 ~vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      -+|+|+|..|+||||+|+.+-.
T Consensus         3 ~iIgITG~igSGKStv~~~l~~   24 (205)
T d1jjva_           3 YIVGLTGGIGSGKTTIANLFTD   24 (205)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHT
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            4799999999999999987754

>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=93.38  E-value=0.02  Score=45.10  Aligned_cols=21  Identities=24%  Similarity=0.393  Sum_probs=18.2

Q ss_pred             EEEeeeCCCcHHHHHHHHhcC
Q 038234          105 ISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       105 i~I~G~gGiGKTtLA~~v~~~  125 (406)
                      |.|+|.+|+|||+|+..+.+.
T Consensus         3 v~vvG~~~vGKTsLi~r~~~~   23 (164)
T d1yzqa1           3 LVFLGEQSVGKTSLITRFMYD   23 (164)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            688999999999999887643

>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=93.35  E-value=0.02  Score=45.60  Aligned_cols=22  Identities=27%  Similarity=0.475  Sum_probs=18.9

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcC
Q 038234          104 MISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      -|.|+|.+|+|||+|...+.+.
T Consensus         7 Ki~lvG~~~vGKTsLi~~l~~~   28 (171)
T d2ew1a1           7 KIVLIGNAGVGKTCLVRRFTQG   28 (171)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4789999999999999887654

>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=93.33  E-value=0.022  Score=45.24  Aligned_cols=22  Identities=32%  Similarity=0.382  Sum_probs=19.3

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcC
Q 038234          104 MISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      .|+|+|.+|+|||||...+...
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            5899999999999999998764

>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=93.32  E-value=0.033  Score=44.25  Aligned_cols=24  Identities=25%  Similarity=0.344  Sum_probs=19.8

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      .--|.++|.+|+|||||...+...
T Consensus        16 ~~kI~vvG~~~vGKSsLi~~l~~~   39 (176)
T d1fzqa_          16 EVRILLLGLDNAGKTTLLKQLASE   39 (176)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHCCS
T ss_pred             EEEEEEECCCCCCHHHHHHHHhcC
Confidence            345789999999999999887554

>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=93.32  E-value=0.022  Score=45.25  Aligned_cols=22  Identities=27%  Similarity=0.431  Sum_probs=18.9

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcC
Q 038234          104 MISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      -|.++|.+|+|||+|+..+.+.
T Consensus         3 Ki~lvG~~~vGKTsLi~~~~~~   24 (168)
T d2gjsa1           3 KVLLLGAPGVGKSALARIFGGV   24 (168)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEEECCCCcCHHHHHHHHhCC
Confidence            3679999999999999887654

>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=93.31  E-value=0.02  Score=45.39  Aligned_cols=22  Identities=23%  Similarity=0.448  Sum_probs=18.6

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcC
Q 038234          104 MISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      -|.|+|.+|+|||+|+..+...
T Consensus         5 KivlvG~~~vGKTsLi~r~~~~   26 (167)
T d1z08a1           5 KVVLLGEGCVGKTSLVLRYCEN   26 (167)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHC
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4689999999999999887643

>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=93.27  E-value=0.021  Score=46.08  Aligned_cols=22  Identities=23%  Similarity=0.356  Sum_probs=18.9

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcC
Q 038234          104 MISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      -|.|+|.+|+|||||+..+.+.
T Consensus         7 Ki~ivG~~~vGKTsLi~~l~~~   28 (186)
T d2f7sa1           7 KLLALGDSGVGKTTFLYRYTDN   28 (186)
T ss_dssp             EEEEESCTTSSHHHHHHHHHCS
T ss_pred             EEEEECCCCcCHHHHHHHHhcC
Confidence            4779999999999999887754

>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=93.22  E-value=0.022  Score=47.14  Aligned_cols=24  Identities=21%  Similarity=0.234  Sum_probs=20.2

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ...|+|-|+.|+||||+++.+.+.
T Consensus         3 G~lI~ieG~dGsGKsT~~~~L~~~   26 (209)
T d1nn5a_           3 GALIVLEGVDRAGKSTQSRKLVEA   26 (209)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHHHH
T ss_pred             eeEEEEECCCCCCHHHHHHHHHHH
Confidence            357899999999999999887654

>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=93.20  E-value=0.022  Score=45.02  Aligned_cols=22  Identities=32%  Similarity=0.446  Sum_probs=18.9

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcC
Q 038234          104 MISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      -|.++|.+|+|||||...+...
T Consensus         4 Ki~vvG~~~vGKTSli~~l~~~   25 (166)
T d1g16a_           4 KILLIGDSGVGKSCLLVRFVED   25 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3789999999999999887654

>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=93.16  E-value=0.022  Score=50.33  Aligned_cols=23  Identities=26%  Similarity=0.397  Sum_probs=19.1

Q ss_pred             EEEEEeeeCCCcHHHHHHHHhcC
Q 038234          103 KMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       103 ~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      .++.++|++|+|||.||+.++..
T Consensus       124 g~~l~~G~pG~GKT~la~ala~~  146 (321)
T d1w44a_         124 GMVIVTGKGNSGKTPLVHALGEA  146 (321)
T ss_dssp             EEEEEECSSSSCHHHHHHHHHHH
T ss_pred             ceEEEECCCCccHHHHHHHHHHH
Confidence            35566899999999999988764

>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=93.16  E-value=0.023  Score=47.98  Aligned_cols=23  Identities=17%  Similarity=0.239  Sum_probs=20.0

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcCC
Q 038234          104 MISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      +++|+|+.|.|||||.+.++.-.
T Consensus        26 ~~~liGpnGaGKSTll~~i~Gl~   48 (240)
T d2onka1          26 YCVLLGPTGAGKSVFLELIAGIV   48 (240)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCChHHHHHHHHHcCC
Confidence            77899999999999999886643

>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=93.14  E-value=0.021  Score=45.19  Aligned_cols=21  Identities=24%  Similarity=0.468  Sum_probs=18.1

Q ss_pred             EEEeeeCCCcHHHHHHHHhcC
Q 038234          105 ISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       105 i~I~G~gGiGKTtLA~~v~~~  125 (406)
                      |.|+|.+|+|||||...+.+.
T Consensus         7 i~lvG~~~vGKTsli~rl~~~   27 (167)
T d1z0ja1           7 VCLLGDTGVGKSSIMWRFVED   27 (167)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678899999999999887654

>d1g3qa_ c.37.1.10 (A:) Cell division regulator MinD {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Cell division regulator MinD
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=93.14  E-value=0.024  Score=47.48  Aligned_cols=22  Identities=45%  Similarity=0.617  Sum_probs=18.2

Q ss_pred             cEEEEEe-eeCCCcHHHHHHHHh
Q 038234          102 IKMISIV-GMGGIGKITLAQMAY  123 (406)
Q Consensus       102 ~~vi~I~-G~gGiGKTtLA~~v~  123 (406)
                      .++|+|+ +-||+||||+|..++
T Consensus         2 ~~vIav~~~kGGvGKTtia~nLA   24 (237)
T d1g3qa_           2 GRIISIVSGKGGTGKTTVTANLS   24 (237)
T ss_dssp             CEEEEEECSSTTSSHHHHHHHHH
T ss_pred             CeEEEEECCCCCCcHHHHHHHHH
Confidence            3689898 679999999997754

>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=93.10  E-value=0.022  Score=45.09  Aligned_cols=22  Identities=27%  Similarity=0.531  Sum_probs=18.7

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcC
Q 038234          104 MISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      -|.++|.+|+|||+|...+.+.
T Consensus         5 Ki~lvG~~~vGKTsLi~r~~~~   26 (167)
T d1kaoa_           5 KVVVLGSGGVGKSALTVQFVTG   26 (167)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4789999999999999887654

>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=93.10  E-value=0.024  Score=45.20  Aligned_cols=23  Identities=30%  Similarity=0.514  Sum_probs=18.9

Q ss_pred             EEEEEeeeCCCcHHHHHHHHhcC
Q 038234          103 KMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       103 ~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      --|.|+|.+|+|||+|...+.+.
T Consensus         7 ~Kv~lvG~~~vGKTsLi~r~~~~   29 (173)
T d2fn4a1           7 HKLVVVGGGGVGKSALTIQFIQS   29 (173)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCcCHHHHHHHHHhC
Confidence            35779999999999999876544

>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=93.09  E-value=0.025  Score=47.35  Aligned_cols=23  Identities=35%  Similarity=0.528  Sum_probs=19.9

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHh
Q 038234          101 PIKMISIVGMGGIGKITLAQMAY  123 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~  123 (406)
                      ++.|..|.|.-|.|||||.+.+.
T Consensus         2 ~iPv~iitGFLGaGKTTll~~lL   24 (222)
T d1nija1           2 PIAVTLLTGFLGAGKTTLLRHIL   24 (222)
T ss_dssp             CEEEEEEEESSSSSCHHHHHHHH
T ss_pred             CCCEEEEeeCCCCCHHHHHHHHH
Confidence            57899999999999999987653

>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=93.08  E-value=0.021  Score=45.28  Aligned_cols=22  Identities=27%  Similarity=0.389  Sum_probs=18.7

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcC
Q 038234          104 MISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      -|.++|.+|+|||||...+.+.
T Consensus         7 Ki~vvG~~~vGKTsLi~~l~~~   28 (169)
T d3raba_           7 KILIIGNSSVGKTSFLFRYADD   28 (169)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHcC
Confidence            4789999999999999877543

>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=93.05  E-value=0.022  Score=45.25  Aligned_cols=22  Identities=18%  Similarity=0.326  Sum_probs=18.6

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcC
Q 038234          104 MISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      -|.++|.+|+|||+|+..+.+.
T Consensus         8 Ki~vvG~~~vGKTsLi~~l~~~   29 (170)
T d1r2qa_           8 KLVLLGESAVGKSSLVLRFVKG   29 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3689999999999999887644

>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=93.02  E-value=0.024  Score=45.06  Aligned_cols=22  Identities=32%  Similarity=0.523  Sum_probs=18.5

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcC
Q 038234          104 MISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      -|.|+|.+|+|||+|...+...
T Consensus         7 Ki~lvG~~~vGKTsLi~r~~~~   28 (171)
T d2erya1           7 RLVVVGGGGVGKSALTIQFIQS   28 (171)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            3788999999999999876543

>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=93.00  E-value=0.032  Score=44.43  Aligned_cols=24  Identities=33%  Similarity=0.437  Sum_probs=21.4

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ...|+|+|.+|+|||||..++.+.
T Consensus         5 ~~~I~iiG~~nvGKSSLin~L~~~   28 (179)
T d1egaa1           5 CGFIAIVGRPNVGKSTLLNKLLGQ   28 (179)
T ss_dssp             EEEEEEECSSSSSHHHHHHHHHTC
T ss_pred             ccEEEEECCCCCCHHHHHHHHhCC
Confidence            567899999999999999999865

>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=92.96  E-value=0.024  Score=45.14  Aligned_cols=21  Identities=24%  Similarity=0.366  Sum_probs=18.1

Q ss_pred             EEEEeeeCCCcHHHHHHHHhc
Q 038234          104 MISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      -|.++|.+|+|||+|+..+..
T Consensus         7 KI~lvG~~~vGKTsll~~~~~   27 (174)
T d2bmea1           7 KFLVIGNAGTGKSCLLHQFIE   27 (174)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            478999999999999987653

>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=92.96  E-value=0.024  Score=45.12  Aligned_cols=22  Identities=36%  Similarity=0.578  Sum_probs=18.7

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcC
Q 038234          104 MISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      -|+|+|.+|+|||||...+...
T Consensus         4 Ki~~vG~~~vGKSsLi~~~~~~   25 (175)
T d1ky3a_           4 KVIILGDSGVGKTSLMHRYVND   25 (175)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHcC
Confidence            4789999999999999887543

>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=92.96  E-value=0.021  Score=47.92  Aligned_cols=26  Identities=15%  Similarity=0.095  Sum_probs=22.1

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      +..+++.|+|.+|+|||+||.++...
T Consensus        32 ~~G~~~li~G~pGsGKT~l~lq~~~~   57 (251)
T d1szpa2          32 ETGSITELFGEFRTGKSQLCHTLAVT   57 (251)
T ss_dssp             ESSSEEEEEESTTSSHHHHHHHHTTT
T ss_pred             cCCeEEEEEcCCCCCHHHHHHHHHHH
Confidence            45679999999999999999887654

>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=92.93  E-value=0.031  Score=44.65  Aligned_cols=24  Identities=29%  Similarity=0.356  Sum_probs=21.3

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ...|+|+|.+|+|||||...+...
T Consensus         5 ~~~I~lvG~~~~GKSSLin~l~~~   28 (178)
T d1wf3a1           5 SGFVAIVGKPNVGKSTLLNNLLGV   28 (178)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC
Confidence            457999999999999999988765

>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=92.91  E-value=0.03  Score=47.28  Aligned_cols=26  Identities=15%  Similarity=0.156  Sum_probs=22.4

Q ss_pred             CCCcEEEEEeeeCCCcHHHHHHHHhc
Q 038234           99 QKPIKMISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus        99 ~~~~~vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      =+.-+++.|+|.+|+|||++|.+++.
T Consensus        34 ip~G~~~~i~G~~GsGKT~lalq~~~   59 (258)
T d1v5wa_          34 IESMAITEAFGEFRTGKTQLSHTLCV   59 (258)
T ss_dssp             BCSSEEEEEECCTTCTHHHHHHHHHH
T ss_pred             CcCCEEEEEECCCCCCHHHHHHHHHH
Confidence            45678999999999999999988753

>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=92.85  E-value=0.026  Score=44.76  Aligned_cols=21  Identities=29%  Similarity=0.498  Sum_probs=18.1

Q ss_pred             EEEeeeCCCcHHHHHHHHhcC
Q 038234          105 ISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       105 i~I~G~gGiGKTtLA~~v~~~  125 (406)
                      |.++|.+|+|||+|...+.+.
T Consensus         5 i~lvG~~~vGKTsli~r~~~~   25 (168)
T d2atva1           5 LAIFGRAGVGKSALVVRFLTK   25 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            578999999999999887654

>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=92.85  E-value=0.03  Score=44.84  Aligned_cols=22  Identities=27%  Similarity=0.299  Sum_probs=19.5

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcC
Q 038234          104 MISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      -|+|+|.+|+|||||...+.+.
T Consensus         2 ~I~lvG~~nvGKSsLin~l~~~   23 (184)
T d2cxxa1           2 TIIFAGRSNVGKSTLIYRLTGK   23 (184)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4899999999999999988764

>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=92.75  E-value=0.028  Score=44.41  Aligned_cols=21  Identities=33%  Similarity=0.664  Sum_probs=18.3

Q ss_pred             EEEeeeCCCcHHHHHHHHhcC
Q 038234          105 ISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       105 i~I~G~gGiGKTtLA~~v~~~  125 (406)
                      |.++|.+|+|||+|...+.+.
T Consensus         6 i~viG~~~vGKTsli~~l~~~   26 (166)
T d1ctqa_           6 LVVVGAGGVGKSALTIQLIQN   26 (166)
T ss_dssp             EEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            788999999999999887654

>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=92.72  E-value=0.026  Score=46.26  Aligned_cols=21  Identities=38%  Similarity=0.567  Sum_probs=18.3

Q ss_pred             EEEEeeeCCCcHHHHHHHHhc
Q 038234          104 MISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      .|+|-|.-|+||||+++.+.+
T Consensus         2 lI~ieG~dGsGKST~~~~L~~   22 (208)
T d1gsia_           2 LIAIEGVDGAGKRTLVEKLSG   22 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999987644

>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=92.71  E-value=0.027  Score=44.57  Aligned_cols=21  Identities=29%  Similarity=0.577  Sum_probs=18.1

Q ss_pred             EEEeeeCCCcHHHHHHHHhcC
Q 038234          105 ISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       105 i~I~G~gGiGKTtLA~~v~~~  125 (406)
                      |.++|.+|+|||+|...+...
T Consensus         6 ivvvG~~~vGKTsli~r~~~~   26 (167)
T d1c1ya_           6 LVVLGSGGVGKSALTVQFVQG   26 (167)
T ss_dssp             EEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHcC
Confidence            679999999999999877554

>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=92.69  E-value=0.022  Score=45.71  Aligned_cols=21  Identities=24%  Similarity=0.365  Sum_probs=18.7

Q ss_pred             EEEeeeCCCcHHHHHHHHhcC
Q 038234          105 ISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       105 i~I~G~gGiGKTtLA~~v~~~  125 (406)
                      |+|+|.+|+|||||...+.+.
T Consensus         4 VaivG~~nvGKSTLin~L~~~   24 (180)
T d1udxa2           4 VGLVGYPNAGKSSLLAAMTRA   24 (180)
T ss_dssp             EEEECCGGGCHHHHHHHHCSS
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            899999999999999887654

>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=92.68  E-value=0.028  Score=43.68  Aligned_cols=22  Identities=36%  Similarity=0.552  Sum_probs=18.8

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcC
Q 038234          104 MISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      -|+++|.+|+|||||...+.+.
T Consensus         2 KI~liG~~nvGKSSLln~l~~~   23 (166)
T d2qtvb1           2 KLLFLGLDNAGKTTLLHMLKND   23 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4789999999999999877654

>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=92.64  E-value=0.028  Score=44.87  Aligned_cols=22  Identities=36%  Similarity=0.484  Sum_probs=18.3

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcC
Q 038234          104 MISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      -|.|+|.+|+|||+|...+.+.
T Consensus         4 KivvvG~~~vGKTsLi~~~~~~   25 (177)
T d1kmqa_           4 KLVIVGDGACGKTCLLIVNSKD   25 (177)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4678899999999999876654

>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=92.59  E-value=0.035  Score=44.60  Aligned_cols=24  Identities=25%  Similarity=0.289  Sum_probs=19.8

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      .--|.|+|.+|+|||+|...+...
T Consensus         5 ~iKivviG~~~vGKTsli~~~~~~   28 (183)
T d1mh1a_           5 AIKCVVVGDGAVGKTCLLISYTTN   28 (183)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECCCCCCHHHHHHHHHhC
Confidence            345789999999999999887654

>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=92.53  E-value=0.028  Score=45.34  Aligned_cols=19  Identities=26%  Similarity=0.475  Sum_probs=16.5

Q ss_pred             EEEEeeeCCCcHHHHHHHH
Q 038234          104 MISIVGMGGIGKITLAQMA  122 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v  122 (406)
                      -|.++|.+|+|||+|...+
T Consensus         4 KivllG~~~vGKTsl~~r~   22 (195)
T d1svsa1           4 KLLLLGAGESGKSTIVKQM   22 (195)
T ss_dssp             EEEEECSTTSSHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            3689999999999999764

>d2i1qa2 c.37.1.11 (A:65-322) DNA repair protein Rad51, catalytic domain {Archaeon Methanococcus voltae [TaxId: 2188]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Archaeon Methanococcus voltae [TaxId: 2188]

Probab=92.51  E-value=0.033  Score=46.74  Aligned_cols=25  Identities=16%  Similarity=0.266  Sum_probs=21.2

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhc
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      +...++.|.|.+|+|||++|.+++.
T Consensus        32 ~~G~l~~i~G~~G~GKT~~~l~~a~   56 (258)
T d2i1qa2          32 ESQSVTEFAGVFGSGKTQIMHQSCV   56 (258)
T ss_dssp             ETTEEEEEEESTTSSHHHHHHHHHH
T ss_pred             cCCeEEEEEeCCCCCHHHHHHHHHH
Confidence            4467999999999999999987643

>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=92.50  E-value=0.049  Score=42.70  Aligned_cols=27  Identities=26%  Similarity=0.262  Sum_probs=22.5

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      .+..+|.+.|.=|+||||+++.+++..
T Consensus        31 ~~g~ii~L~G~LGaGKTtfvr~~~~~l   57 (158)
T d1htwa_          31 EKAIMVYLNGDLGAGKTTLTRGMLQGI   57 (158)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             CCCeEEEEecCCCccHHHHHHHHHhhc
Confidence            346689999999999999999876543

>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=92.50  E-value=0.06  Score=42.64  Aligned_cols=26  Identities=23%  Similarity=0.370  Sum_probs=20.7

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      ...+ |.++|.+|+|||||...+.+..
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            3455 6689999999999999876543

>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=92.50  E-value=0.028  Score=44.83  Aligned_cols=22  Identities=23%  Similarity=0.431  Sum_probs=18.6

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcC
Q 038234          104 MISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      -|.|+|..|+|||||+..+.+.
T Consensus         6 Ki~vvG~~~vGKTsLi~~~~~~   27 (175)
T d2f9la1           6 KVVLIGDSGVGKSNLLSRFTRN   27 (175)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4789999999999999876543

>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=92.49  E-value=0.036  Score=43.73  Aligned_cols=23  Identities=26%  Similarity=0.434  Sum_probs=19.0

Q ss_pred             EEEEEeeeCCCcHHHHHHHHhcC
Q 038234          103 KMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       103 ~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      .-|.|+|.+|+|||+|...+.+.
T Consensus         5 ~Kv~liG~~~vGKTsLl~~~~~~   27 (167)
T d1xtqa1           5 RKIAILGYRSVGKSSLTIQFVEG   27 (167)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCcCHHHHHHHHHhC
Confidence            45788999999999999887543

>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=92.43  E-value=0.032  Score=45.03  Aligned_cols=22  Identities=36%  Similarity=0.456  Sum_probs=18.8

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcC
Q 038234          104 MISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      -|.|+|.+|+|||+|...+.+.
T Consensus        11 Ki~lvG~~~vGKTsLi~r~~~~   32 (185)
T d2atxa1          11 KCVVVGDGAVGKTCLLMSYAND   32 (185)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhhC
Confidence            3789999999999999877654

>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=92.41  E-value=0.033  Score=45.29  Aligned_cols=22  Identities=27%  Similarity=0.447  Sum_probs=18.7

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcC
Q 038234          104 MISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      -|.|+|.+|+|||||...+...
T Consensus         8 KivvvG~~~vGKTsli~~l~~~   29 (194)
T d2bcgy1           8 KLLLIGNSGVGKSCLLLRFSDD   29 (194)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEEECCCCcCHHHHHHHHhhC
Confidence            4789999999999999887644

>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=92.41  E-value=0.03  Score=45.86  Aligned_cols=22  Identities=32%  Similarity=0.382  Sum_probs=19.6

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcC
Q 038234          104 MISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      .|+|+|.+|+|||||...+.+.
T Consensus         5 ~V~lvG~~n~GKTSLln~l~~~   26 (209)
T d1nrjb_           5 SIIIAGPQNSGKTSLLTLLTTD   26 (209)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            7899999999999999888654

>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=92.37  E-value=0.031  Score=44.30  Aligned_cols=21  Identities=14%  Similarity=0.381  Sum_probs=17.8

Q ss_pred             EEEeeeCCCcHHHHHHHHhcC
Q 038234          105 ISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       105 i~I~G~gGiGKTtLA~~v~~~  125 (406)
                      |.++|.+|+|||+|...+...
T Consensus         6 i~vvG~~~vGKTsLi~~~~~~   26 (170)
T d1ek0a_           6 LVLLGEAAVGKSSIVLRFVSN   26 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678999999999999876544

>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=92.33  E-value=0.038  Score=49.86  Aligned_cols=25  Identities=28%  Similarity=0.333  Sum_probs=20.7

Q ss_pred             CcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          101 PIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       101 ~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      +...+..+|+.|+|||-||+.+++.
T Consensus        67 p~~niLfiGPTGvGKTElAk~LA~~   91 (364)
T d1um8a_          67 SKSNILLIGPTGSGKTLMAQTLAKH   91 (364)
T ss_dssp             CCCCEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCcceeeeCCCCccHHHHHHHHHhh
Confidence            4556888999999999999987653

>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=92.33  E-value=0.031  Score=47.04  Aligned_cols=26  Identities=23%  Similarity=0.220  Sum_probs=21.8

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      +...++.|+|.+|+|||+||.+++..
T Consensus        24 ~~gsl~li~G~pGsGKT~l~~qia~~   49 (242)
T d1tf7a2          24 FKDSIILATGATGTGKTLLVSRFVEN   49 (242)
T ss_dssp             ESSCEEEEEECTTSSHHHHHHHHHHH
T ss_pred             cCCeEEEEEeCCCCCHHHHHHHHHHH
Confidence            44679999999999999999877554

>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=92.28  E-value=0.032  Score=44.22  Aligned_cols=22  Identities=27%  Similarity=0.401  Sum_probs=18.6

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcC
Q 038234          104 MISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      -|.|+|.+|+|||+|+..+.+.
T Consensus         8 Ki~vvG~~~vGKTsli~~~~~~   29 (170)
T d2g6ba1           8 KVMLVGDSGVGKTCLLVRFKDG   29 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4899999999999999876543

>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=92.20  E-value=0.032  Score=45.75  Aligned_cols=22  Identities=23%  Similarity=0.247  Sum_probs=19.3

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcC
Q 038234          104 MISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      -|+|+|.+|+|||||...+...
T Consensus         2 ~V~ivG~~~~GKTsLl~~l~~~   23 (207)
T d2fh5b1           2 AVLFVGLCDSGKTLLFVRLLTG   23 (207)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            5899999999999999887654

>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=92.20  E-value=0.034  Score=47.55  Aligned_cols=25  Identities=28%  Similarity=0.248  Sum_probs=21.4

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      -.+++|+|+.|.|||||++.+.--.
T Consensus        30 Gei~~liG~nGaGKSTLl~~i~Gl~   54 (254)
T d1g6ha_          30 GDVTLIIGPNGSGKSTLINVITGFL   54 (254)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCcHHHHHHHHHCCC
Confidence            4589999999999999999886553

>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=92.16  E-value=0.052  Score=45.24  Aligned_cols=34  Identities=26%  Similarity=0.397  Sum_probs=26.9

Q ss_pred             hHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234           83 KKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus        83 ~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      .+++|.++|..         +..+++|.+|+|||||..++..+
T Consensus        85 g~~~L~~~l~~---------kt~~~~G~SGVGKSTLiN~L~~~  118 (225)
T d1u0la2          85 GIEELKEYLKG---------KISTMAGLSGVGKSSLLNAINPG  118 (225)
T ss_dssp             THHHHHHHHSS---------SEEEEECSTTSSHHHHHHHHSTT
T ss_pred             hHhhHHHHhcC---------CeEEEECCCCCCHHHHHHhhcch
Confidence            46778887742         36789999999999999988654

>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=92.16  E-value=0.042  Score=43.44  Aligned_cols=24  Identities=33%  Similarity=0.585  Sum_probs=20.0

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      +.-|.|+|.+|+|||+|...+...
T Consensus         4 ~~KivlvG~~~vGKTsli~~~~~~   27 (168)
T d1u8za_           4 LHKVIMVGSGGVGKSALTLQFMYD   27 (168)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eeEEEEECCCCcCHHHHHHHHHhC
Confidence            456889999999999999887543

>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=92.14  E-value=0.04  Score=43.76  Aligned_cols=22  Identities=32%  Similarity=0.496  Sum_probs=18.5

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcC
Q 038234          104 MISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      -|.++|.+|+|||+|+..+...
T Consensus         5 Kv~lvG~~~vGKTsLi~~~~~~   26 (172)
T d2g3ya1           5 RVVLIGEQGVGKSTLANIFAGV   26 (172)
T ss_dssp             EEEEECCTTSSHHHHHHHHHCC
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4789999999999999877543

>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=92.12  E-value=0.033  Score=45.19  Aligned_cols=19  Identities=32%  Similarity=0.459  Sum_probs=17.0

Q ss_pred             EEEEeeeCCCcHHHHHHHH
Q 038234          104 MISIVGMGGIGKITLAQMA  122 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v  122 (406)
                      -|.|+|.+|+|||||...+
T Consensus         4 KivllG~~~vGKTsll~r~   22 (200)
T d1zcba2           4 KILLLGAGESGKSTFLKQM   22 (200)
T ss_dssp             EEEEECSTTSSHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            4679999999999999876

>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=92.11  E-value=0.041  Score=42.93  Aligned_cols=22  Identities=23%  Similarity=0.255  Sum_probs=18.9

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcC
Q 038234          104 MISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      -|+++|.+|+|||||..++...
T Consensus         3 kI~lvG~~nvGKSsLin~l~~~   24 (161)
T d2gj8a1           3 KVVIAGRPNAGKSSLLNALAGR   24 (161)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            3679999999999999888754

>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=92.00  E-value=0.04  Score=46.41  Aligned_cols=23  Identities=30%  Similarity=0.400  Sum_probs=20.4

Q ss_pred             EEEEEeeeCCCcHHHHHHHHhcC
Q 038234          103 KMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       103 ~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      ++|+|+|..|+||||+|..+.+.
T Consensus         2 ~iIgiTG~igSGKsTva~~l~e~   24 (241)
T d1deka_           2 KLIFLSGVKRSGKDTTADFIMSN   24 (241)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHh
Confidence            58999999999999999988654

>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=91.94  E-value=0.037  Score=43.51  Aligned_cols=22  Identities=23%  Similarity=0.383  Sum_probs=17.8

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcC
Q 038234          104 MISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      -|.++|.+|+|||||...+...
T Consensus         4 ki~i~G~~~~GKTsLl~~l~~~   25 (164)
T d1zd9a1           4 ELTLVGLQYSGKTTFVNVIASG   25 (164)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            3668899999999999876543

>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=91.87  E-value=0.038  Score=44.38  Aligned_cols=21  Identities=33%  Similarity=0.564  Sum_probs=18.1

Q ss_pred             EEEeeeCCCcHHHHHHHHhcC
Q 038234          105 ISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       105 i~I~G~gGiGKTtLA~~v~~~  125 (406)
                      |.++|.+|+|||||+..+.+.
T Consensus         5 v~vvG~~~vGKSSLi~~l~~~   25 (184)
T d1vg8a_           5 VIILGDSGVGKTSLMNQYVNK   25 (184)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            679999999999999877543

>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=91.87  E-value=0.034  Score=44.56  Aligned_cols=24  Identities=29%  Similarity=0.290  Sum_probs=19.2

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      .--|.++|.+|+|||||...+...
T Consensus        17 ~~KI~lvG~~~vGKTsLi~~l~~~   40 (182)
T d1moza_          17 ELRILILGLDGAGKTTILYRLQIG   40 (182)
T ss_dssp             CEEEEEEEETTSSHHHHHHHTCCS
T ss_pred             eEEEEEECCCCCCHHHHHHHHhcC
Confidence            334569999999999999887544

>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=91.81  E-value=0.026  Score=44.83  Aligned_cols=21  Identities=33%  Similarity=0.597  Sum_probs=16.8

Q ss_pred             EEEeeeCCCcHHHHHHHHhcC
Q 038234          105 ISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       105 i~I~G~gGiGKTtLA~~v~~~  125 (406)
                      |.++|.+|+|||+|...+.+.
T Consensus         6 i~vvG~~~vGKTsli~~~~~~   26 (170)
T d1i2ma_           6 LVLVGDGGTGKTTFVKRHLTG   26 (170)
T ss_dssp             EEEEECTTSSHHHHHHTTC--
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678899999999999876543

>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=91.81  E-value=0.041  Score=44.09  Aligned_cols=22  Identities=32%  Similarity=0.401  Sum_probs=18.5

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcC
Q 038234          104 MISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      -|.++|.+|+|||+|+..+.+.
T Consensus         4 KivliG~~~vGKTsli~r~~~~   25 (179)
T d1m7ba_           4 KIVVVGDSQCGKTALLHVFAKD   25 (179)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3679999999999999877654

>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=91.74  E-value=0.045  Score=45.36  Aligned_cols=25  Identities=32%  Similarity=0.441  Sum_probs=21.3

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      .+.|+|-|+-|+||||+++.+.+..
T Consensus         3 Gk~I~iEG~DGsGKST~~~~L~~~L   27 (214)
T d1tmka_           3 GKLILIEGLDRTGKTTQCNILYKKL   27 (214)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             eEEEEEECCCCCcHHHHHHHHHHHH
Confidence            5689999999999999998876543

>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=91.70  E-value=0.041  Score=43.71  Aligned_cols=24  Identities=25%  Similarity=0.488  Sum_probs=19.2

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      .--|.++|.+|+|||||...+.+.
T Consensus         6 ~~KI~vvG~~~vGKSSli~~~~~~   29 (174)
T d1wmsa_           6 LFKVILLGDGGVGKSSLMNRYVTN   29 (174)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECCCCCCHHHHHHHHHhC
Confidence            334789999999999999776543

>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=91.70  E-value=0.027  Score=45.32  Aligned_cols=22  Identities=27%  Similarity=0.466  Sum_probs=18.9

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcC
Q 038234          104 MISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      -|+|+|.+++|||||...+.+.
T Consensus         3 ~VaiiG~~nvGKSSLin~L~~~   24 (185)
T d1lnza2           3 DVGLVGFPSVGKSTLLSVVSSA   24 (185)
T ss_dssp             CEEEESSTTSSHHHHHHHSEEE
T ss_pred             eEEEECCCCCCHHHHHHHHhCC
Confidence            3899999999999999887543

>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=91.68  E-value=0.041  Score=43.91  Aligned_cols=21  Identities=38%  Similarity=0.563  Sum_probs=18.1

Q ss_pred             EEEeeeCCCcHHHHHHHHhcC
Q 038234          105 ISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       105 i~I~G~gGiGKTtLA~~v~~~  125 (406)
                      |.++|.+|+|||+|...+.+.
T Consensus        10 i~vvG~~~vGKTsli~~l~~~   30 (177)
T d1x3sa1          10 ILIIGESGVGKSSLLLRFTDD   30 (177)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999876543

>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=91.58  E-value=0.044  Score=44.27  Aligned_cols=20  Identities=25%  Similarity=0.394  Sum_probs=17.3

Q ss_pred             EEEEeeeCCCcHHHHHHHHh
Q 038234          104 MISIVGMGGIGKITLAQMAY  123 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~  123 (406)
                      -|.++|.+|+|||+|...+.
T Consensus         4 Kiv~lG~~~vGKTsll~r~~   23 (200)
T d2bcjq2           4 KLLLLGTGESGKSTFIKQMR   23 (200)
T ss_dssp             EEEEEESTTSSHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHh
Confidence            36899999999999998764

>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=91.52  E-value=0.048  Score=44.88  Aligned_cols=22  Identities=36%  Similarity=0.525  Sum_probs=19.1

Q ss_pred             EEEEEeeeCCCcHHHHHHHHhc
Q 038234          103 KMISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus       103 ~vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      +.|+|-|..|+||||+++.+.+
T Consensus         3 kfIviEG~dGsGKsT~~~~L~~   24 (210)
T d4tmka_           3 KYIVIEGLEGAGKTTARNVVVE   24 (210)
T ss_dssp             CEEEEEECTTSCHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            4789999999999999987654

>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=91.52  E-value=0.047  Score=43.22  Aligned_cols=22  Identities=32%  Similarity=0.623  Sum_probs=18.2

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcC
Q 038234          104 MISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      -|.++|.+|+|||+|...+.+.
T Consensus         6 Ki~lvG~~~vGKTsll~~~~~~   27 (169)
T d1x1ra1           6 KLVVVGDGGVGKSALTIQFFQK   27 (169)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3567899999999999887654

>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=91.52  E-value=0.046  Score=44.25  Aligned_cols=21  Identities=29%  Similarity=0.398  Sum_probs=17.6

Q ss_pred             EEEeeeCCCcHHHHHHHHhcC
Q 038234          105 ISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       105 i~I~G~gGiGKTtLA~~v~~~  125 (406)
                      |.++|.+|+|||+|...+...
T Consensus         6 vvllG~~~vGKTSli~r~~~~   26 (191)
T d2ngra_           6 CVVVGDGAVGKTCLLISYTTN   26 (191)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678999999999999776544

>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=91.48  E-value=0.083  Score=48.86  Aligned_cols=52  Identities=21%  Similarity=0.262  Sum_probs=32.8

Q ss_pred             ceecchhhHHHHHHHH-------hcCCC-CCCCCcEEEEEeeeCCCcHHHHHHHHhcCCh
Q 038234           76 EICGRDYKKNELLSKL-------LSDSS-DQQKPIKMISIVGMGGIGKITLAQMAYNDKD  127 (406)
Q Consensus        76 ~~vGR~~~~~~l~~~L-------~~~~~-~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~  127 (406)
                      ++||-++.++.+--.+       ..... ...-..+-|.++|+.|+|||-||+.+++...
T Consensus        15 yVvGQ~~AKk~lsvav~nhyrR~~~~~~~~~ei~ksNILliGPTGvGKTlLAr~LAk~l~   74 (443)
T d1g41a_          15 HIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLAN   74 (443)
T ss_dssp             TCCSCHHHHHHHHHHHHHHHHHHHSCTTTTTTCCCCCEEEECCTTSSHHHHHHHHHHHTT
T ss_pred             cccCcHHHHHHHHHHHHHHHHHhhcccccccccccccEEEECCCCCCHHHHHHHHHHHhC
Confidence            5677776666553333       11111 0112244689999999999999999987543

>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=91.42  E-value=0.11  Score=44.22  Aligned_cols=41  Identities=27%  Similarity=0.388  Sum_probs=29.6

Q ss_pred             hhHHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234           82 YKKNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus        82 ~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      ..+.++...+...    ....-.|.|+|.+|+|||||...++.+.
T Consensus        16 ~~l~e~~~~l~~~----~~~~l~I~LvG~tg~GKSSliN~ilg~~   56 (257)
T d1h65a_          16 TKLLELLGNLKQE----DVNSLTILVMGKGGVGKSSTVNSIIGER   56 (257)
T ss_dssp             HHHHHHHHHHHHT----TCCEEEEEEEESTTSSHHHHHHHHHTSC
T ss_pred             HHHHHHHHHHhhc----CCCCcEEEEECCCCCcHHHHHHHHhCCC
Confidence            3455666666553    2334567899999999999999988654

>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=91.42  E-value=0.038  Score=44.08  Aligned_cols=26  Identities=15%  Similarity=0.143  Sum_probs=21.8

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      +....|+|+|.+++|||||..++...
T Consensus        14 ~~~~~I~lvG~~NvGKSSL~n~L~~~   39 (188)
T d1puia_          14 DTGIEVAFAGRSNAGKSSALNTLTNQ   39 (188)
T ss_dssp             SCSEEEEEEECTTSSHHHHHTTTCCC
T ss_pred             ccCCEEEEECCCCCCHHHHHHHHhCC
Confidence            44667999999999999999887654

>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=91.32  E-value=0.04  Score=46.35  Aligned_cols=23  Identities=30%  Similarity=0.397  Sum_probs=19.5

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhc
Q 038234          102 IKMISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      ..+++|+|+.|.|||||.+.+..
T Consensus        25 Gei~~iiG~nGaGKSTLl~~l~G   47 (231)
T d1l7vc_          25 GEILHLVGPNGAGKSTLLARMAG   47 (231)
T ss_dssp             TCEEECBCCTTSSHHHHHHHHHT
T ss_pred             CCEEEEECCCCCcHHHHHHHHhC
Confidence            45899999999999999877643

>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=91.22  E-value=0.046  Score=45.41  Aligned_cols=24  Identities=17%  Similarity=0.158  Sum_probs=20.1

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHh
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAY  123 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~  123 (406)
                      +...++.|.|.+|+|||+||.+++
T Consensus        24 ~~G~~~~I~G~~G~GKT~la~~~~   47 (242)
T d1tf7a1          24 PIGRSTLVSGTSGTGKTLFSIQFL   47 (242)
T ss_dssp             ETTSEEEEEESTTSSHHHHHHHHH
T ss_pred             cCCeEEEEEeCCCCCHHHHHHHHH
Confidence            346789999999999999997653

>d1byia_ c.37.1.10 (A:) Dethiobiotin synthetase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Dethiobiotin synthetase
species: Escherichia coli [TaxId: 562]

Probab=91.18  E-value=0.063  Score=44.07  Aligned_cols=20  Identities=20%  Similarity=0.240  Sum_probs=17.2

Q ss_pred             EEEEEeeeC-CCcHHHHHHHH
Q 038234          103 KMISIVGMG-GIGKITLAQMA  122 (406)
Q Consensus       103 ~vi~I~G~g-GiGKTtLA~~v  122 (406)
                      +.+-|.|-| ||||||++..+
T Consensus         2 ~~~~i~gt~~GVGKTtvs~~L   22 (224)
T d1byia_           2 KRYFVTGTDTEVGKTVASCAL   22 (224)
T ss_dssp             EEEEEEESSTTSCHHHHHHHH
T ss_pred             ceEEEEECCCCccHHHHHHHH
Confidence            467899998 99999998765

>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=91.18  E-value=0.054  Score=43.36  Aligned_cols=22  Identities=36%  Similarity=0.496  Sum_probs=19.2

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcC
Q 038234          104 MISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      -|+|+|.+|+|||||..++.+.
T Consensus        10 kV~iiG~~~~GKSTLin~l~~~   31 (186)
T d1mkya2          10 KVAIVGRPNVGKSTLFNAILNK   31 (186)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCCHHHHHHHHHCC
Confidence            4799999999999999888754

>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=91.09  E-value=0.076  Score=42.41  Aligned_cols=24  Identities=29%  Similarity=0.232  Sum_probs=19.7

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      -+-|.|.|.+|+||||||..+..+
T Consensus        15 g~gvli~G~sG~GKS~lal~l~~~   38 (177)
T d1knxa2          15 GVGVLLTGRSGIGKSECALDLINK   38 (177)
T ss_dssp             TEEEEEEESSSSSHHHHHHHHHTT
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHHc
Confidence            346789999999999999876554

>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=91.03  E-value=0.066  Score=42.76  Aligned_cols=24  Identities=25%  Similarity=0.170  Sum_probs=19.4

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      -+-|.|.|.+|+||||||..+..+
T Consensus        14 g~gvl~~G~sG~GKStlal~l~~~   37 (176)
T d1kkma_          14 GLGVLITGDSGVGKSETALELVQR   37 (176)
T ss_dssp             TEEEEEECCTTSCHHHHHHHHHHT
T ss_pred             CEEEEEEeCCCCCHHHHHHHHHHc
Confidence            356889999999999999875443

>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=90.98  E-value=0.056  Score=43.16  Aligned_cols=23  Identities=17%  Similarity=0.235  Sum_probs=19.2

Q ss_pred             EEEEEeeeCCCcHHHHHHHHhcC
Q 038234          103 KMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       103 ~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      --|+++|.+|+|||+|...+.+.
T Consensus         6 ~ki~vlG~~~vGKTsLi~~~~~~   28 (175)
T d2bmja1           6 LRLGVLGDARSGKSSLIHRFLTG   28 (175)
T ss_dssp             EEEEEECCTTTTHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHhC
Confidence            35789999999999999877554

>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=90.75  E-value=0.064  Score=45.92  Aligned_cols=21  Identities=33%  Similarity=0.362  Sum_probs=18.0

Q ss_pred             EEEEEeeeCCCcHHHHHHHHh
Q 038234          103 KMISIVGMGGIGKITLAQMAY  123 (406)
Q Consensus       103 ~vi~I~G~gGiGKTtLA~~v~  123 (406)
                      .+..|+|.+|+||||||.+++
T Consensus        30 ~~~~i~G~~G~GKS~l~l~la   50 (274)
T d1nlfa_          30 TVGALVSPGGAGKSMLALQLA   50 (274)
T ss_dssp             SEEEEEESTTSSHHHHHHHHH
T ss_pred             cEEEEEeCCCCCHHHHHHHHH
Confidence            477899999999999997654

>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=90.55  E-value=0.037  Score=44.00  Aligned_cols=22  Identities=23%  Similarity=0.385  Sum_probs=8.7

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcC
Q 038234          104 MISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      -|.|+|.+|+|||||...+...
T Consensus         8 Ki~vvG~~~vGKTsLi~~l~~~   29 (173)
T d2fu5c1           8 KLLLIGDSGVGKTCVLFRFSED   29 (173)
T ss_dssp             EEEEECCCCC------------
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3789999999999999876543

>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=90.46  E-value=0.061  Score=44.73  Aligned_cols=20  Identities=25%  Similarity=0.456  Sum_probs=17.6

Q ss_pred             EEEEEeeeCCCcHHHHHHHH
Q 038234          103 KMISIVGMGGIGKITLAQMA  122 (406)
Q Consensus       103 ~vi~I~G~gGiGKTtLA~~v  122 (406)
                      .-|.++|.+|+|||||...+
T Consensus         7 ~KilllG~~~vGKTsll~~~   26 (221)
T d1azta2           7 HRLLLLGAGESGKSTIVKQM   26 (221)
T ss_dssp             EEEEEECSTTSSHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHH
Confidence            45789999999999999776

>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=90.17  E-value=0.091  Score=41.62  Aligned_cols=24  Identities=29%  Similarity=0.195  Sum_probs=19.5

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      -+-|.|.|.+|+||||||..+..+
T Consensus        15 g~gvli~G~sg~GKS~la~~l~~~   38 (169)
T d1ko7a2          15 GVGVLITGDSGIGKSETALELIKR   38 (169)
T ss_dssp             TEEEEEEESTTSSHHHHHHHHHHT
T ss_pred             CEEEEEEeCCCCCHHHHHHHHHHc
Confidence            346889999999999999776544

>d1fx0a3 c.37.1.11 (A:97-372) Central domain of alpha subunit of F1 ATP synthase {Spinach (Spinacia oleracea), chloroplast [TaxId: 3562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of alpha subunit of F1 ATP synthase
species: Spinach (Spinacia oleracea), chloroplast [TaxId: 3562]

Probab=89.77  E-value=0.14  Score=43.94  Aligned_cols=22  Identities=23%  Similarity=0.146  Sum_probs=17.8

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHh
Q 038234          102 IKMISIVGMGGIGKITLAQMAY  123 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~  123 (406)
                      -..++|.|.+|+|||+|+....
T Consensus        67 GQr~~Ifg~~g~GKt~l~~~~~   88 (276)
T d1fx0a3          67 GQRELIIGDRQTGKTAVATDTI   88 (276)
T ss_dssp             TCBCBEEESSSSSHHHHHHHHH
T ss_pred             CceEeeccCCCCChHHHHHHHH
Confidence            3457899999999999997643

>d2jdia3 c.37.1.11 (A:95-379) Central domain of alpha subunit of F1 ATP synthase {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of alpha subunit of F1 ATP synthase
species: Cow (Bos taurus) [TaxId: 9913]

Probab=89.37  E-value=0.23  Score=42.73  Aligned_cols=33  Identities=18%  Similarity=0.141  Sum_probs=24.1

Q ss_pred             HHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHh
Q 038234           86 ELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAY  123 (406)
Q Consensus        86 ~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~  123 (406)
                      +.++.|..-.     .-..++|.|.+|+|||+|+..+.
T Consensus        57 raID~l~pig-----~GQr~~If~~~g~GKt~ll~~~~   89 (285)
T d2jdia3          57 KAVDSLVPIG-----RGQRELIIGDRQTGKTSIAIDTI   89 (285)
T ss_dssp             HHHHHHSCCB-----TTCBCEEEESTTSSHHHHHHHHH
T ss_pred             eEEecccCcc-----CCCEEEeecCCCCChHHHHHHHH
Confidence            4566666542     24468999999999999987664

>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=88.56  E-value=0.036  Score=43.18  Aligned_cols=21  Identities=38%  Similarity=0.464  Sum_probs=18.3

Q ss_pred             EEEEeeeCCCcHHHHHHHHhc
Q 038234          104 MISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      -|+++|.+|+|||||...+..
T Consensus         2 kI~liG~~n~GKSSLin~l~g   22 (160)
T d1xzpa2           2 RMVIVGKPNVGKSTLLNRLLN   22 (160)
T ss_dssp             EEEEECCHHHHTCHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            378999999999999988754

>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=87.98  E-value=0.19  Score=44.91  Aligned_cols=20  Identities=30%  Similarity=0.325  Sum_probs=16.8

Q ss_pred             cEEEEEeeeCCCcHHHHHHH
Q 038234          102 IKMISIVGMGGIGKITLAQM  121 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~  121 (406)
                      .++..|.|.+|.||||++..
T Consensus       163 ~~~~vI~G~pGTGKTt~i~~  182 (359)
T d1w36d1         163 RRISVISGGPGTGKTTTVAK  182 (359)
T ss_dssp             BSEEEEECCTTSTHHHHHHH
T ss_pred             CCeEEEEcCCCCCceehHHH
Confidence            35889999999999998744

>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=87.94  E-value=0.14  Score=44.07  Aligned_cols=25  Identities=24%  Similarity=0.227  Sum_probs=21.4

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhc
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      +..|-|+|+|-+|.|||||+.++..
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            4578899999999999999977743

>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=86.88  E-value=0.25  Score=40.02  Aligned_cols=35  Identities=17%  Similarity=0.083  Sum_probs=26.6

Q ss_pred             HHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHh
Q 038234           84 KNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAY  123 (406)
Q Consensus        84 ~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~  123 (406)
                      +..+..+|..     .+.-..+.++|+++.|||.+|..+.
T Consensus        40 l~~l~~~l~~-----~PKkn~i~~~GP~~TGKS~f~~sl~   74 (205)
T d1tuea_          40 LGALKSFLKG-----TPKKNCLVFCGPANTGKSYFGMSFI   74 (205)
T ss_dssp             HHHHHHHHHT-----CTTCSEEEEESCGGGCHHHHHHHHH
T ss_pred             HHHHHHHHcC-----CCCceEEEEECCCCccHHHHHHHHH
Confidence            5556666653     3456789999999999999987654

>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=86.76  E-value=0.17  Score=43.25  Aligned_cols=22  Identities=23%  Similarity=0.321  Sum_probs=18.5

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHh
Q 038234          102 IKMISIVGMGGIGKITLAQMAY  123 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~  123 (406)
                      ..++.|.|.+|+|||+++.++.
T Consensus        35 G~l~vi~G~~G~GKT~~~~~la   56 (277)
T d1cr2a_          35 GEVIMVTSGSGMGKSTFVRQQA   56 (277)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHH
T ss_pred             CeEEEEEeCCCCCHHHHHHHHH
Confidence            4578899999999999986654

>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=86.59  E-value=0.39  Score=41.14  Aligned_cols=28  Identities=29%  Similarity=0.433  Sum_probs=24.3

Q ss_pred             CCCcEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234           99 QKPIKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus        99 ~~~~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      +.++.||+|+|.-+.|||+|...++...
T Consensus        29 ~~~v~vvsi~G~~~sGKS~llN~l~~~~   56 (277)
T d1f5na2          29 TQPMVVVAIVGLYRTGKSYLMNKLAGKK   56 (277)
T ss_dssp             CSBEEEEEEEEBTTSSHHHHHHHHTTCS
T ss_pred             CCCEEEEEEECCCCCCHHHHHHHHcCCC
Confidence            4569999999999999999999887653

>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=86.33  E-value=0.18  Score=44.43  Aligned_cols=22  Identities=23%  Similarity=0.235  Sum_probs=18.8

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcC
Q 038234          104 MISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      -|.|.|..|.||||+..++...
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            4789999999999999887654

>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=85.98  E-value=0.23  Score=42.41  Aligned_cols=22  Identities=36%  Similarity=0.655  Sum_probs=19.4

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHh
Q 038234          102 IKMISIVGMGGIGKITLAQMAY  123 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~  123 (406)
                      .|-|+|+|-.|.|||||+.++.
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            4779999999999999998763

>d1ewqa2 c.37.1.12 (A:542-765) DNA repair protein MutS, the C-terminal domain {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: DNA repair protein MutS, the C-terminal domain
species: Thermus aquaticus [TaxId: 271]

Probab=85.96  E-value=1.1  Score=36.77  Aligned_cols=93  Identities=17%  Similarity=0.165  Sum_probs=53.1

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcCChHHHHHHHHHHhcCCCCCC-----------------C-------CHHHHHHHHHhhc
Q 038234          104 MISIVGMGGIGKITLAQMAYNDKDFRVAKAIIAALGCETSNL-----------------G-------SLQSLVRCISESI  159 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~~~~~~~~~i~~~l~~~~~~~-----------------~-------~~~~~~~~l~~~l  159 (406)
                      ++.|+|+...||||+.+.+.       +..++.+.+.-.+..                 +       ....-...+...+
T Consensus        37 ~~iiTGpN~~GKSt~lk~i~-------l~~ilAq~G~~vpA~~~~i~~~d~I~~~~~~~d~~~~~~StF~~el~~~~~il  109 (224)
T d1ewqa2          37 LVLITGPNMAGKSTFLRQTA-------LIALLAQVGSFVPAEEAHLPLFDGIYTRIGASDDLAGGKSTFMVEMEEVALIL  109 (224)
T ss_dssp             EEEEESCSSSSHHHHHHHHH-------HHHHHHTTTCCBSSSEEEECCCSEEEEECCC------CCSHHHHHHHHHHHHH
T ss_pred             EEEEECCCccccchhhhhhH-------HHHHHHhccceeecCceEEeecceEEEEECCCccccCCccHHHHhHHHHHHHh
Confidence            78899999999999998873       223444444322110                 1       1111122233333


Q ss_pred             --cCcceeEEeeCCCCcCcc------CcchhhhccCCCCCCcEEEEecCChHHHH
Q 038234          160 --EGKKYLVVLDDVWTDDYT------KWEPFQRCSANGQCGNNILVTTHKKTVAR  206 (406)
Q Consensus       160 --~~kr~LlVlDdvw~~~~~------~~~~l~~~l~~~~~gs~IivTtR~~~v~~  206 (406)
                        .+++.|+++|.+-.....      .|. +...|.  ..++.+++||...++..
T Consensus       110 ~~~~~~sLvliDE~~~gT~~~eg~ala~a-ile~L~--~~~~~~i~tTH~~eL~~  161 (224)
T d1ewqa2         110 KEATENSLVLLDEVGRGTSSLDGVAIATA-VAEALH--ERRAYTLFATHYFELTA  161 (224)
T ss_dssp             HHCCTTEEEEEESTTTTSCHHHHHHHHHH-HHHHHH--HHTCEEEEECCCHHHHT
T ss_pred             ccCCCCcEEeecccccCcchhhhcchHHH-HHHHHh--hcCcceEEeeechhhhh
Confidence              368899999999654311      111 222222  23678999999877654

>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=85.34  E-value=0.24  Score=43.77  Aligned_cols=25  Identities=32%  Similarity=0.368  Sum_probs=21.7

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      +..|.|-|.-|+||||+++.+.+..
T Consensus         6 ~~rI~iEG~iGsGKSTl~~~L~~~l   30 (333)
T d1p6xa_           6 IVRIYLDGVYGIGKSTTGRVMASAA   30 (333)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHSGG
T ss_pred             eEEEEEECCccCCHHHHHHHHHHHh
Confidence            5578999999999999999998754

>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=84.91  E-value=0.12  Score=43.17  Aligned_cols=23  Identities=22%  Similarity=0.348  Sum_probs=18.3

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcCC
Q 038234          104 MISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      ...++|.+|+|||||..++..+.
T Consensus        99 ~~vl~G~SGVGKSSLiN~L~~~~  121 (231)
T d1t9ha2          99 TTVFAGQSGVGKSSLLNAISPEL  121 (231)
T ss_dssp             EEEEEESHHHHHHHHHHHHCC--
T ss_pred             eEEEECCCCccHHHHHHhhccHh
Confidence            45689999999999999887653

>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=84.53  E-value=0.27  Score=38.91  Aligned_cols=22  Identities=27%  Similarity=0.270  Sum_probs=19.5

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcC
Q 038234          104 MISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      -|+|+|-+++|||||..++...
T Consensus         7 nIaiiG~~naGKSTL~n~L~~~   28 (179)
T d1wb1a4           7 NLGIFGHIDHGKTTLSKVLTEI   28 (179)
T ss_dssp             EEEEEECTTSSHHHHHHHHHTT
T ss_pred             EEEEEeCCCCcHHHHHHHHHHh
Confidence            5899999999999999988754

>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=84.43  E-value=0.22  Score=43.78  Aligned_cols=25  Identities=28%  Similarity=0.295  Sum_probs=20.6

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      +..|.|=|.=|+||||+++.+.+..
T Consensus         4 ~lrI~IEG~iGsGKTTl~~~La~~l   28 (329)
T d1e2ka_           4 LLRVYIDGPHGMGKTTTTQLLVALG   28 (329)
T ss_dssp             EEEEEECSCTTSSHHHHHHHHTC--
T ss_pred             ceEEEEECCcCCCHHHHHHHHHHHh
Confidence            5568999999999999999987653

>d1wb9a2 c.37.1.12 (A:567-800) DNA repair protein MutS, the C-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: DNA repair protein MutS, the C-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=84.39  E-value=1.1  Score=36.95  Aligned_cols=97  Identities=18%  Similarity=0.134  Sum_probs=52.8

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCChHHHHHHHHHHhcCCCCCC-----------------CCH-------HHHHHHHHh
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDKDFRVAKAIIAALGCETSNL-----------------GSL-------QSLVRCISE  157 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~~~i~~~l~~~~~~~-----------------~~~-------~~~~~~l~~  157 (406)
                      .+++.|+|+...||||+.+.+.       +..++.+.+.-.+..                 ++.       ..-...+.+
T Consensus        41 ~~~~iiTGpN~~GKSt~lk~i~-------l~~~laq~G~~VpA~~a~~~~~d~I~~~~~~~d~~~~~~S~F~~E~~~~~~  113 (234)
T d1wb9a2          41 RRMLIITGPNMGGKSTYMRQTA-------LIALMAYIGSYVPAQKVEIGPIDRIFTRVGAADDLASGRSTFMVEMTETAN  113 (234)
T ss_dssp             SCEEEEECCTTSSHHHHHHHHH-------HHHHHHTTTCCBSSSEEEECCCCEEEEEEC-----------CHHHHHHHHH
T ss_pred             ceEEEEeccCchhhHHHHHHHH-------HHHHHHHcCCeEecCceecccchhheeEEccCcccccchhHHHHHHHHHHH
Confidence            4688999999999999998873       233444444432210                 110       111112223


Q ss_pred             hc--cCcceeEEeeCCCCcCc-cCcchh----hhccCCCCCCcEEEEecCChHHHH
Q 038234          158 SI--EGKKYLVVLDDVWTDDY-TKWEPF----QRCSANGQCGNNILVTTHKKTVAR  206 (406)
Q Consensus       158 ~l--~~kr~LlVlDdvw~~~~-~~~~~l----~~~l~~~~~gs~IivTtR~~~v~~  206 (406)
                      .+  .+++.|+++|.+-.-.. .+-..+    ...+. ...++.+++||....+..
T Consensus       114 il~~~~~~sLvliDE~~~gT~~~eg~~l~~a~l~~l~-~~~~~~~i~tTH~~~l~~  168 (234)
T d1wb9a2         114 ILHNATEYSLVLMDEIGRGTSTYDGLSLAWACAENLA-NKIKALTLFATHYFELTQ  168 (234)
T ss_dssp             HHHHCCTTEEEEEESCCCCSSSSHHHHHHHHHHHHHH-HTTCCEEEEECSCGGGGG
T ss_pred             HHHhcccccEEeecccccCCChhhhhHHHHHhhhhhh-ccccceEEEecchHHHhh
Confidence            32  35788999999865331 111111    11221 123568999998765544

>d1u0ja_ c.37.1.20 (A:) Rep 40 protein helicase domain {Adeno-associated virus 2, AAV2 [TaxId: 10804]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Rep 40 protein helicase domain
species: Adeno-associated virus 2, AAV2 [TaxId: 10804]

Probab=83.30  E-value=0.54  Score=39.96  Aligned_cols=35  Identities=17%  Similarity=0.129  Sum_probs=25.2

Q ss_pred             HHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhc
Q 038234           86 ELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus        86 ~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      .+..+|...    .+.-..+.++|+|+.|||+++..+.+
T Consensus        92 ~l~~~L~~~----~~k~n~~~l~G~~~tGKS~f~~~i~~  126 (267)
T d1u0ja_          92 VFLGWATKK----FGKRNTIWLFGPATTGKTNIAEAIAH  126 (267)
T ss_dssp             HHHHHHTTC----STTCCEEEEECSTTSSHHHHHHHHHH
T ss_pred             HHHHHHcCC----CCccEEEEEEcCCCCCHHHHHHHHHH
Confidence            344455432    35567889999999999999977654

>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=82.53  E-value=0.32  Score=40.19  Aligned_cols=22  Identities=27%  Similarity=0.363  Sum_probs=19.1

Q ss_pred             EEEEEeeeCCCcHHHHHHHHhc
Q 038234          103 KMISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus       103 ~vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      .+|+|+|-++.|||||+..+..
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            4699999999999999987754

>d1p9ra_ c.37.1.11 (A:) Extracellular secretion NTPase EpsE {Vibrio cholerae [TaxId: 666]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Extracellular secretion NTPase EpsE
species: Vibrio cholerae [TaxId: 666]

Probab=81.46  E-value=0.71  Score=41.69  Aligned_cols=40  Identities=20%  Similarity=0.276  Sum_probs=27.5

Q ss_pred             ecchhh-HHHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHhc
Q 038234           78 CGRDYK-KNELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAYN  124 (406)
Q Consensus        78 vGR~~~-~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~  124 (406)
                      .|.... .+.+.+++.       .+..+|.|.|+.|.||||....+.+
T Consensus       140 LG~~~~~~~~l~~l~~-------~~~GliLvtGpTGSGKSTTl~~~l~  180 (401)
T d1p9ra_         140 LGMTAHNHDNFRRLIK-------RPHGIILVTGPTGSGKSTTLYAGLQ  180 (401)
T ss_dssp             SCCCHHHHHHHHHHHT-------SSSEEEEEECSTTSCHHHHHHHHHH
T ss_pred             hcccHHHHHHHHHHHh-------hhhceEEEEcCCCCCccHHHHHHhh
Confidence            355443 444444443       3467999999999999998876654

>d1jala1 c.37.1.8 (A:1-278) YchF GTP-binding protein N-terminal domain {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: YchF GTP-binding protein N-terminal domain
species: Haemophilus influenzae [TaxId: 727]

Probab=81.22  E-value=0.36  Score=41.29  Aligned_cols=22  Identities=32%  Similarity=0.398  Sum_probs=19.2

Q ss_pred             EEEEeeeCCCcHHHHHHHHhcC
Q 038234          104 MISIVGMGGIGKITLAQMAYND  125 (406)
Q Consensus       104 vi~I~G~gGiGKTtLA~~v~~~  125 (406)
                      -|+|+|++.+|||||-.++-+.
T Consensus         4 ~~GivG~Pn~GKSTlf~~lt~~   25 (278)
T d1jala1           4 KCGIVGLPNVGKSTLFNALTKA   25 (278)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHT
T ss_pred             eEEEECCCCCCHHHHHHHHHCC
Confidence            5899999999999999887654

>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=81.16  E-value=0.34  Score=42.69  Aligned_cols=25  Identities=32%  Similarity=0.300  Sum_probs=21.1

Q ss_pred             cEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          102 IKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       102 ~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      +-.|.|-|.=|+||||+++.+.+..
T Consensus         5 ~lrI~IEG~iGsGKSTl~~~L~~~l   29 (331)
T d1osna_           5 VLRIYLDGAYGIGKTTAAEEFLHHF   29 (331)
T ss_dssp             EEEEEEEESSSSCTTHHHHHHHHTT
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHH
Confidence            3458999999999999999987653

>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=80.65  E-value=0.52  Score=41.56  Aligned_cols=34  Identities=18%  Similarity=0.216  Sum_probs=26.0

Q ss_pred             HHHHHHHhcCCCCCCCCcEEEEEeeeCCCcHHHHHHHHh
Q 038234           85 NELLSKLLSDSSDQQKPIKMISIVGMGGIGKITLAQMAY  123 (406)
Q Consensus        85 ~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~  123 (406)
                      +.+.+++..     .+.+|-|+|+|-.|.|||||+..+.
T Consensus         5 ~~~~~lm~~-----~~~IRNI~iiGhvd~GKTTL~d~Ll   38 (341)
T d1n0ua2           5 DQMRSLMDK-----VTNVRNMSVIAHVDHGKSTLTDSLV   38 (341)
T ss_dssp             HHHHHHHHC-----GGGEEEEEEECCGGGTHHHHHHHHH
T ss_pred             HHHHHHhcC-----cccCcEEEEEeCCCCcHHHHHHHHH
Confidence            445555543     3458889999999999999997764

>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=80.54  E-value=1.1  Score=37.87  Aligned_cols=27  Identities=22%  Similarity=0.255  Sum_probs=22.5

Q ss_pred             CCcEEEEEeeeCCCcHHHHHHHHhcCC
Q 038234          100 KPIKMISIVGMGGIGKITLAQMAYNDK  126 (406)
Q Consensus       100 ~~~~vi~I~G~gGiGKTtLA~~v~~~~  126 (406)
                      ...-.|+|+|++.+|||||+..+....
T Consensus       110 ~~~~~v~vvG~PNvGKSsliN~L~~~~  136 (273)
T d1puja_         110 PRAIRALIIGIPNVGKSTLINRLAKKN  136 (273)
T ss_dssp             CCCEEEEEEESTTSSHHHHHHHHHTSC
T ss_pred             CCceEEEEEecCccchhhhhhhhhccc
Confidence            345568999999999999999887764

>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=80.52  E-value=0.33  Score=41.65  Aligned_cols=17  Identities=12%  Similarity=0.079  Sum_probs=13.8

Q ss_pred             EEEECHHHHHHHHHhhh
Q 038234          359 ECKMHDIVHDFAQFLRK  375 (406)
Q Consensus       359 ~~~mHdlv~~~~~~~~~  375 (406)
                      .|+.|.-|.++|..+..
T Consensus       275 nyRs~~~I~~~an~l~~  291 (306)
T d1uaaa1         275 NYRSSGRILKAANILIA  291 (306)
T ss_dssp             BSSSCHHHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHH
Confidence            58889999999987754

>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=80.30  E-value=0.4  Score=41.55  Aligned_cols=15  Identities=27%  Similarity=0.406  Sum_probs=12.9

Q ss_pred             EEEeeeCCCcHHHHH
Q 038234          105 ISIVGMGGIGKITLA  119 (406)
Q Consensus       105 i~I~G~gGiGKTtLA  119 (406)
                      +.|.|.+|.||||.+
T Consensus        27 ~lV~g~aGSGKTt~l   41 (318)
T d1pjra1          27 LLIMAGAGSGKTRVL   41 (318)
T ss_dssp             EEEEECTTSCHHHHH
T ss_pred             EEEEecCCccHHHHH
Confidence            568899999999866